Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009332.1 Hibiscus syriacus cultivar Beakdansim tig00113099_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: 474123
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:222413 original size:15 final size:15
Alignment explanation
Indices: 222386--222415 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
222376 CAAGTGAAAT
222386 TGTCTCAAGGGAGAC
1 TGTCTCAAGGGAGAC
*
222401 TGTCTCAATGGAGAC
1 TGTCTCAAGGGAGAC
222416 AAAATTTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (15 bp):
TGTCTCAAGGGAGAC
Found at i:222432 original size:36 final size:35
Alignment explanation
Indices: 222385--222505 Score: 161
Period size: 36 Copynumber: 3.4 Consensus size: 35
222375 TCAAGTGAAA
* *
222385 TTGTCTCAAGGGAGACTGTCTCAATGGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAA-GGAGACAAAAT
**
222421 TTGTTTCAAGGGAAACCATCTCAAGAGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAAG-GAGACAAAAT
*
222457 TTGTTTCAATGGAAACTGTCTCAAGGGAGACAAAAT
1 TTGTTTCAAGGGAAACTGTCTCAA-GGAGACAAAAT
*
222493 ATGTTTCAAGGGA
1 TTGTTTCAAGGGA
222506 GACAAAACTT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
35 1 0.01
36 72 0.97
37 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (35 bp):
TTGTTTCAAGGGAAACTGTCTCAAGGAGACAAAAT
Found at i:222486 original size:87 final size:87
Alignment explanation
Indices: 222332--222689 Score: 437
Period size: 87 Copynumber: 4.0 Consensus size: 87
222322 AAAAATATTG
* * * * * * *
222332 TGTTTCGAGCGAAACTATCTCAAGCGAGAAAAAATCTTTTGTTTCAAGTGAAATTGTCTCAAGGG
1 TGTTTCAAGGGAAACCATCTCAAGGGAGACAAAA---TTTGTTTCAAGGGAAACTGTCTCAAGGG
*
222397 AGACTGTCTCAATGGAGACAAAATT
63 AGACTGTCTCAAGGGAGACAAAATT
* *
222422 TGTTTCAAGGGAAACCATCTCAAGAGAGACAAAATTTGTTTCAATGGAAACTGTCTCAAGGGAGA
1 TGTTTCAAGGGAAACCATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGA
* *
222487 CAAAATATGTTTCAAGGGAGACAAAACT
66 C------TGTCTCAAGGGAGACAAAATT
* * ** * *
222515 TGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATTGTCTTAAGGGAGA
1 TGTTTCAAGGGAAACCATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGA
*
222580 TTGTCTCAAGGGAGACAAAATT
66 CTGTCTCAAGGGAGACAAAATT
* * *
222602 TATTTCAAGGGAAACCTTCTCAAGGGAGACAATATTTGTTTCAAGGGAAACTGTCTCAAGGGAGA
1 TGTTTCAAGGGAAACCATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGA
222667 CTGTCTCAAGGGAGACAAAATT
66 CTGTCTCAAGGGAGACAAAATT
222689 T
1 T
222690 TTCTGTTTCG
Statistics
Matches: 231, Mismatches: 31, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
87 127 0.55
90 29 0.13
93 75 0.32
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (87 bp):
TGTTTCAAGGGAAACCATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGGGAGA
CTGTCTCAAGGGAGACAAAATT
Found at i:222503 original size:21 final size:20
Alignment explanation
Indices: 222477--222562 Score: 83
Period size: 21 Copynumber: 4.4 Consensus size: 20
222467 GGAAACTGTC
222477 TCAAGGGAGACAAAATATGTT
1 TCAAGGGAGACAAAAT-TGTT
222498 TCAAGGGAGACAAAACTTGTT
1 TCAAGGGAGACAAAA-TTGTT
* * *
222519 TC----GAGA-GAAACTGTC
1 TCAAGGGAGACAAAATTGTT
222534 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAA-TTGTT
222555 TCAAGGGA
1 TCAAGGGA
222563 AATTGTCTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
15 5 0.10
16 3 0.06
17 4 0.08
19 4 0.08
20 3 0.06
21 32 0.62
22 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (20 bp):
TCAAGGGAGACAAAATTGTT
Found at i:222508 original size:57 final size:57
Alignment explanation
Indices: 222441--222562 Score: 192
Period size: 57 Copynumber: 2.1 Consensus size: 57
222431 GGAAACCATC
* *
222441 TCAAGAGAGACAAAATTTGTTTCAATG-GAAACTGTCTCAAGGGAGACAAAATATGTT
1 TCAAGGGAGACAAAACTTGTTTCAA-GAGAAACTGTCTCAAGGGAGACAAAATATGTT
* *
222498 TCAAGGGAGACAAAACTTGTTTCGAGAGAAACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAACTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATATGTT
222555 TCAAGGGA
1 TCAAGGGA
222563 AATTGTCTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
56 1 0.02
57 59 0.98
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.25
Consensus pattern (57 bp):
TCAAGGGAGACAAAACTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATATGTT
Found at i:222545 original size:36 final size:36
Alignment explanation
Indices: 222498--222579 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 36
222488 AAAATATGTT
*
222498 TCAAGGGAGACAAAACTTGTTTCGAGAGAAACTGTC
1 TCAAGGGAGACAAAACTTGTTTCAAGAGAAACTGTC
* * *
222534 TCAAGGGAGACAAAATTTGTTTCAAGGGAAATTGTC
1 TCAAGGGAGACAAAACTTGTTTCAAGAGAAACTGTC
*
222570 TTAAGGGAGA
1 TCAAGGGAGA
222580 TTGTCTCAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (36 bp):
TCAAGGGAGACAAAACTTGTTTCAAGAGAAACTGTC
Found at i:222593 original size:15 final size:15
Alignment explanation
Indices: 222550--222594 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
222540 GAGACAAAAT
* *
222550 TTGTTTCAAGGGAAA
1 TTGTCTCAAGGGAGA
*
222565 TTGTCTTAAGGGAGA
1 TTGTCTCAAGGGAGA
222580 TTGTCTCAAGGGAGA
1 TTGTCTCAAGGGAGA
222595 CAAAATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.29, C:0.09, G:0.31, T:0.31
Consensus pattern (15 bp):
TTGTCTCAAGGGAGA
Found at i:222612 original size:36 final size:36
Alignment explanation
Indices: 222572--222667 Score: 140
Period size: 36 Copynumber: 2.7 Consensus size: 36
222562 AAATTGTCTT
* *
222572 AAGGGAGATTGTCTCAAGGGAGACAAAATTTATTTC
1 AAGGGAAACTGTCTCAAGGGAGACAAAATTTATTTC
* *
222608 AAGGGAAACCT-TCTCAAGGGAGACAATATTTGTTTC
1 AAGGGAAA-CTGTCTCAAGGGAGACAAAATTTATTTC
222644 AAGGGAAACTGTCTCAAGGGAGAC
1 AAGGGAAACTGTCTCAAGGGAGAC
222668 TGTCTCAAGG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
35 2 0.04
36 51 0.94
37 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (36 bp):
AAGGGAAACTGTCTCAAGGGAGACAAAATTTATTTC
Found at i:222627 original size:51 final size:51
Alignment explanation
Indices: 222530--222630 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 51
222520 CGAGAGAAAC
* * *
222530 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAATTGTCTTAAGGGAGAT
1 TGTCTCAAGGGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGGGAGAT
222581 TGTCTCAAGGGAGACAAAATTTATTTCAAGGGAAACCT-TCTCAAGGGAGA
1 TGTCTCAAGGGAGACAAAATTTATTTCAAGGGAAA-CTGTCTCAAGGGAGA
222631 CAATATTTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 45 0.98
52 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.27
Consensus pattern (51 bp):
TGTCTCAAGGGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGGGAGAT
Found at i:222680 original size:15 final size:15
Alignment explanation
Indices: 222642--222682 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
222632 AATATTTGTT
*
222642 TCAAGGGAAACTGTC
1 TCAAGGGAGACTGTC
222657 TCAAGGGAGACTGTC
1 TCAAGGGAGACTGTC
222672 TCAAGGGAGAC
1 TCAAGGGAGAC
222683 AAAATTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.17
Consensus pattern (15 bp):
TCAAGGGAGACTGTC
Found at i:223054 original size:34 final size:34
Alignment explanation
Indices: 223014--223094 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
223004 TCTCAGAGAA
**
223014 AAATTGTCTCAAGCAAGACGGAATTTGTTTTGAG
1 AAATTGTCTCAAGCAAGACAAAATTTGTTTTGAG
**
223048 AAATTGTCTCAAGTGAGACAAAATTTGTTTTGAG
1 AAATTGTCTCAAGCAAGACAAAATTTGTTTTGAG
*
223082 AAATTATCTCAAG
1 AAATTGTCTCAAG
223095 TGAGACAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (34 bp):
AAATTGTCTCAAGCAAGACAAAATTTGTTTTGAG
Found at i:223095 original size:34 final size:34
Alignment explanation
Indices: 223035--223102 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
223025 AGCAAGACGG
*
223035 AATTTGTTTTGAGAAATTGTCTCAAGTGAGACAA
1 AATTTGTTTTGAGAAATTATCTCAAGTGAGACAA
223069 AATTTGTTTTGAGAAATTATCTCAAGTGAGACAA
1 AATTTGTTTTGAGAAATTATCTCAAGTGAGACAA
223103 TTTTTTAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (34 bp):
AATTTGTTTTGAGAAATTATCTCAAGTGAGACAA
Found at i:223115 original size:32 final size:33
Alignment explanation
Indices: 223035--223116 Score: 105
Period size: 34 Copynumber: 2.5 Consensus size: 33
223025 AGCAAGACGG
* *
223035 AATTTGTTTTGAGAAATTGTCTCAAGTGAGACAA
1 AATTTGTTTAGAGAAATTATCTCAAGTGAGAC-A
*
223069 AATTTGTTTTGAGAAATTATCTCAAGTGAGAC-
1 AATTTGTTTAGAGAAATTATCTCAAGTGAGACA
223101 AATTT-TTTAAGAGAAA
1 AATTTGTTT-AGAGAAA
223117 CAACATTAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.07
32 11 0.24
34 31 0.69
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (33 bp):
AATTTGTTTAGAGAAATTATCTCAAGTGAGACA
Found at i:223274 original size:33 final size:32
Alignment explanation
Indices: 223205--223340 Score: 182
Period size: 33 Copynumber: 4.2 Consensus size: 32
223195 AGGATATTGA
* * * **
223205 ATGCCCCAATATTCGATATTGAATCAGCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
*
223237 ATGCCCCAACATTTTGATGTTGAATCTCCAAAA
1 ATGCCCCAACA-TTTGATGTTGAATCTCCAAAG
223270 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
1 ATGCCCCAACATTTGATGTTGAATCTCCAAAG
* *
223302 ATGCCCCAAACTTTTGATGTTGAATCTTCAAAG
1 ATGCCCC-AACATTTGATGTTGAATCTCCAAAG
223335 ATGCCC
1 ATGCCC
223341 TCTATTGCTT
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
32 37 0.40
33 56 0.60
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTCCAAAG
Found at i:223308 original size:65 final size:65
Alignment explanation
Indices: 223204--223340 Score: 195
Period size: 65 Copynumber: 2.1 Consensus size: 65
223194 CAGGATATTG
* *
223204 AATGCCCCAATATTCGATATTGAATCAGCAAAGATGCCCC-AACATTTTGATGTTGAATCTCCAA
1 AATGCCCCAACATTCGATATTGAATCACCAAAGATGCCCCAAAC-TTTTGATGTTGAATCTCCAA
223268 A
65 A
* * * *
223269 AATGCCCCAACATTTGATGTTGAATCTCCAAAGATGCCCCAAACTTTTGATGTTGAATCTTCAAA
1 AATGCCCCAACATTCGATATTGAATCACCAAAGATGCCCCAAACTTTTGATGTTGAATCTCCAAA
*
223334 GATGCCC
1 AATGCCC
223341 TCTATTGCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
65 61 0.95
66 3 0.05
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (65 bp):
AATGCCCCAACATTCGATATTGAATCACCAAAGATGCCCCAAACTTTTGATGTTGAATCTCCAAA
Found at i:229540 original size:16 final size:18
Alignment explanation
Indices: 229519--229557 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
229509 ATATCTTTTT
229519 AAAAAT-AATTTTAAGA-
1 AAAAATCAATTTTAAGAC
*
229535 AAAAATCATTTTTAAGAC
1 AAAAATCAATTTTAAGAC
229553 AAAAA
1 AAAAA
229558 GCTGGTCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 9 0.45
18 5 0.25
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAAATCAATTTTAAGAC
Found at i:229989 original size:2 final size:2
Alignment explanation
Indices: 229982--230056 Score: 150
Period size: 2 Copynumber: 37.5 Consensus size: 2
229972 GGGTAAATTA
229982 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
230024 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
230057 AACAGTAAAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:233947 original size:21 final size:23
Alignment explanation
Indices: 233896--233947 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
233886 GATTCCCCTG
233896 TGGGGGGAATCGGTTCCCCTTCA
1 TGGGGGGAATCGGTTCCCCTTCA
**
233919 AAGGGGGAATCGGTT-CCC-TCA
1 TGGGGGGAATCGGTTCCCCTTCA
233940 TGGGGGGA
1 TGGGGGGA
233948 TTGATTCCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 9 0.36
22 3 0.12
23 13 0.52
ACGTcount: A:0.17, C:0.21, G:0.40, T:0.21
Consensus pattern (23 bp):
TGGGGGGAATCGGTTCCCCTTCA
Found at i:241377 original size:72 final size:69
Alignment explanation
Indices: 241280--241536 Score: 271
Period size: 72 Copynumber: 3.5 Consensus size: 69
241270 ATCTCAATTG
* *
241280 AGATTGTTTTTCTTAAAGCATACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATT
1 AGATTG-TTTTCTTAAA-AAGA-TTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATT
*
241345 TGACTCA
63 TCACTCA
* * * *
241352 AGTTTGCTTTTCTTAAAATAGACTTTGTCTTAATTGAGACTGTTTTACTCGGAAGAAGATTTATT
1 AGATTG-TTTTCTTAAAA-AGA-TTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATT
241417 TCACTCA
63 TCACTCA
* * *
241424 AGATTGTTTTTCTTAAAACAAGATTTGTCTCTCTTGGGACCGTTTTTACTCGAAAGAAGGCATTT
1 AGATTG-TTTTCTT-AAA-AAGATTTGTCTCACTTGAGACTG-TTTTACTCGAAAGAA-G-ATTT
241489 CATTTCACTCA
60 -ATTTCACTCA
* * *
241500 AGACTGTTTTTTTAAAGAAGATTTGTCTCTCTTGAGA
1 AGATTGTTTTCTTAAA-AAGATTTGTCTCACTTGAGA
241537 TAATTTCTCT
Statistics
Matches: 158, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
72 89 0.56
73 20 0.13
74 24 0.15
75 10 0.06
76 15 0.09
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (69 bp):
AGATTGTTTTCTTAAAAAGATTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTTCA
CTCA
Found at i:241569 original size:21 final size:21
Alignment explanation
Indices: 241544--241584 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
241534 AGATAATTTC
*
241544 TCTTGAAAAAAATTTTGTCTT
1 TCTTGAAAAAAATTTCGTCTT
*
241565 TCTTGAAACAAATTTCGTCT
1 TCTTGAAAAAAATTTCGTCT
241585 CCCTTGAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (21 bp):
TCTTGAAAAAAATTTCGTCTT
Found at i:241590 original size:21 final size:21
Alignment explanation
Indices: 241545--241591 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
241535 GATAATTTCT
* **
241545 CTTGAAAAAAATTTTGTCTTT
1 CTTGAAAAAAATTTCGTCTCC
*
241566 CTTGAAACAAATTTCGTCTCC
1 CTTGAAAAAAATTTCGTCTCC
241587 CTTGA
1 CTTGA
241592 GACATTTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (21 bp):
CTTGAAAAAAATTTCGTCTCC
Found at i:241693 original size:102 final size:102
Alignment explanation
Indices: 241614--241818 Score: 311
Period size: 102 Copynumber: 2.0 Consensus size: 102
241604 TAGAACTAAG
* *
241614 TTTCATCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAAAGTTCCCTTGAAATGAA
1 TTTCATCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAAAGTTCCATTGAAATGAA
*
241679 TTTTATCTCTCTTGAGATAGGTTCCCTTGAAACAAAA
66 TTTTATCTCTCTTGAGACAGGTTCCCTTGAAACAAAA
** * *
241716 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCATTGAAATGAA
1 TTTCATCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAAAGTTCCATTGAAATGAA
* * * *
241781 TTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACAAAA
66 TTTTATCTCTCTTGAGACAGGTTCCCTTGAAACAAAA
241818 T
1 T
241819 CTTTGAATCT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 94 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (102 bp):
TTTCATCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAAAGTTCCATTGAAATGAA
TTTTATCTCTCTTGAGACAGGTTCCCTTGAAACAAAA
Found at i:241730 original size:37 final size:37
Alignment explanation
Indices: 241663--241749 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
241653 ATTGAAAAAA
** * *
241663 GTTCCCTTGAAA-TGAATTTTATCTCTCTTGAGATAG
1 GTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
*
241699 GTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 GTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
* *
241736 TTTCTCTTGAAACA
1 GTTCCCTTGAAACA
241750 TAAACATTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 12 0.28
37 31 0.72
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
GTTCCCTTGAAACAAAATTTTATCTCCCTTGAGACAG
Found at i:241807 original size:167 final size:167
Alignment explanation
Indices: 241619--241984 Score: 477
Period size: 167 Copynumber: 2.2 Consensus size: 167
241609 CTAAGTTTCA
* **
241619 TCTCTCTTGAGACAGTTTCTCTTGAAACATAAA-CATTGAAAAAAG-TTCCCTTGAAATGAATTT
1 TCTCTCTTGAGATAGTTTCTCTTGAAACA-AAATCATTG-AAAAAGTTTCCCTTGAAACAAATTT
* *
241682 TATCTCTCTTGAGATAG-GTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGA
64 CATCTCCCTTGAGA-AGTGTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGA
*
241746 AACATAAACATTGAAAACATTTCCATTGAAATGAATTTTG
128 AACATAAACATTAAAAACATTTCCATTGAAATGAATTTTG
* *** *
241786 TCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTTCG
1 TCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCATTGAAAAAGTTTCCCTTGAAACAAATTTCA
* * ** * * * * *
241851 TCTCCCTTGAGACGTTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAAC
66 TCTCCCTTGAGAAGTGTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
*
241916 ATAAACATTAAAAACATTTCCCTTGAAATGAATTTTG
131 ATAAACATTAAAAACATTTCCATTGAAATGAATTTTG
* *
241953 TCTCTCTTGAGATAGGTTCCCTTGAAACAAAA
1 TCTCTCTTGAGATAGTTTCTCTTGAAACAAAA
241985 ATTTTGTCTC
Statistics
Matches: 173, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
166 7 0.04
167 166 0.96
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (167 bp):
TCTCTCTTGAGATAGTTTCTCTTGAAACAAAATCATTGAAAAAGTTTCCCTTGAAACAAATTTCA
TCTCCCTTGAGAAGTGTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
ATAAACATTAAAAACATTTCCATTGAAATGAATTTTG
Found at i:241834 original size:65 final size:65
Alignment explanation
Indices: 241700--241871 Score: 199
Period size: 65 Copynumber: 2.7 Consensus size: 65
241690 TTGAGATAGG
*
241700 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
1 TTCCATTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
241765 T
65 T
** * * * *
241766 TTCCATTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACA-AAATCTTTG-AATCT
1 TTCCATTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAA-CATTGAAAAC-
*
241829 GT
64 AT
* *
241831 TTCCCTTGAAACAAATTTCGTCTCCCTTGAGAC-GTTT-TCTT
1 TTCCATTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
241872 TTGGAACTAA
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
63 4 0.04
64 10 0.11
65 66 0.73
66 10 0.11
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.39
Consensus pattern (65 bp):
TTCCATTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACAT
Found at i:241962 original size:102 final size:103
Alignment explanation
Indices: 241779--242051 Score: 284
Period size: 102 Copynumber: 2.7 Consensus size: 103
241769 CATTGAAATG
** * **
241779 AATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACA-AAATCTTTGAATCTGTTTCCCTTGAAAC
1 AATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAA-CTTAAAAACAATTTCCCTTGAAAC
* * ** * *
241843 AAATTTCGTCTCCCTTGAGA-CGTTTTCTTTTGGAAC-TA
65 AAATTTCGTCTCCCTTGAGATAG-GTTCCCTTGAAACAAA
* *
241881 AGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTAAAAAC-ATTTCCCTTGAAAT
1 AATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAAC-TTAAAAACAATTTCCCTTGAAAC
* * *
241945 GAATTTTGTCTCTCTTGAGATAGGTTCCCTTGAAACAAA
65 AAATTTCGTCTCCCTTGAGATAGGTTCCCTTGAAACAAA
* * * * * *
241984 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAGCATAAACTTTGAAAACAATTTCCTTTGCAAC
1 AATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAAC-TTAAAAACAATTTCCCTTGAAAC
242049 AAA
65 AAA
242052 ATCTTTGAAT
Statistics
Matches: 141, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
102 74 0.52
103 54 0.38
104 13 0.09
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (103 bp):
AATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACTTAAAAACAATTTCCCTTGAAACA
AATTTCGTCTCCCTTGAGATAGGTTCCCTTGAAACAAA
Found at i:242129 original size:33 final size:34
Alignment explanation
Indices: 242078--242172 Score: 104
Period size: 33 Copynumber: 2.8 Consensus size: 34
242068 TATGTTAAAA
* * *
242078 AAATTTCGTCTC-CATTGAGACAGTTTCTTTTG-G
1 AAATTTTGTCTCTC-TTGAGACAGTTTCTCTTGAC
**
242111 ATGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
1 AAATTTTGTCTCTCTTGAGACAGTTTCTCTTG--AC
242147 AAATTTTGTCTCTCTTGAGACAGTTT
1 AAATTTTGTCTCTCTTGAGACAGTTT
242173 TCCTTGAAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
33 26 0.51
34 1 0.02
36 24 0.47
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (34 bp):
AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAC
Found at i:242161 original size:36 final size:36
Alignment explanation
Indices: 242114--242182 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
242104 CTTTTGGATG
242114 TTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTTC-CTTGAAACAAA
242150 TTTTGTCTCTCTTGAGACAGTTTTCCTTGAAAC
1 TTTTGTCTCTCTTGAGACAGTTTTCCTTGAAAC
242183 TTCAATCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 28 0.88
37 4 0.12
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTTCCTTGAAACAAA
Found at i:242249 original size:33 final size:32
Alignment explanation
Indices: 242200--242279 Score: 124
Period size: 33 Copynumber: 2.5 Consensus size: 32
242190 TTTGAATACA
* *
242200 GTTTCTCTTGAAACAAAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACAAAAAAAACTTTGAAAAT
*
242232 TTTTCTCTTGAACACAAAAAAAACTTTGAAAAT
1 GTTTCTCTTGAA-ACAAAAAAAACTTTGAAAAT
242265 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
242280 CCAAACCCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 14 0.33
33 29 0.67
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (32 bp):
GTTTCTCTTGAAACAAAAAAAACTTTGAAAAT
Found at i:243693 original size:28 final size:26
Alignment explanation
Indices: 243645--243713 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 26
243635 TTTCTAGTAT
243645 TTTATTTATTTCATTTGCTTTTA-TGGA
1 TTTATTTATTT--TTTGCTTTTATTGGA
**
243672 CTTTATTTATTTTTATGTCTTTTATTTTA
1 -TTTATTTATTTTT-TG-CTTTTATTGGA
243701 TTTATTTATTTTT
1 TTTATTTATTTTT
243714 CTTTTCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
26 2 0.06
27 2 0.06
28 30 0.83
29 2 0.06
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.71
Consensus pattern (26 bp):
TTTATTTATTTTTTGCTTTTATTGGA
Found at i:243716 original size:24 final size:24
Alignment explanation
Indices: 243642--243723 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 24
243632 AATTTTCTAG
*
243642 TATTTTATTTATTTCA-TTTGCTTT
1 TATTTTATTTATTT-ATTTTTCTTT
*
243666 TATGGACTTTATTTATTT-TTATGTCTTT
1 TAT----TTTATTTATTTATT-TTTCTTT
243694 TATTTTATTTATTTATTTTTCTTT
1 TATTTTATTTATTTATTTTTCTTT
*
243718 TCTTTT
1 TATTTT
243724 CGATTCTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
24 25 0.53
25 2 0.04
27 1 0.02
28 19 0.40
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.72
Consensus pattern (24 bp):
TATTTTATTTATTTATTTTTCTTT
Found at i:247713 original size:16 final size:16
Alignment explanation
Indices: 247692--247725 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
247682 CCTGGCCAGT
247692 CAAGGTGAAAAGCAGG
1 CAAGGTGAAAAGCAGG
*
247708 CAAGGTGAAGAGCAGG
1 CAAGGTGAAAAGCAGG
247724 CA
1 CA
247726 CCTCAGGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.15, G:0.38, T:0.06
Consensus pattern (16 bp):
CAAGGTGAAAAGCAGG
Found at i:251914 original size:29 final size:30
Alignment explanation
Indices: 251881--251937 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
251871 TTATTTGACC
*
251881 CTTGAA-TTTAGATGAAATATTAATTTAGT
1 CTTGAATTTTAGATAAAATATTAATTTAGT
251910 CTTGAATTTTAGATAAAATATTAATTTA
1 CTTGAATTTTAGATAAAATATTAATTTA
251938 ACCTCTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.46
Consensus pattern (30 bp):
CTTGAATTTTAGATAAAATATTAATTTAGT
Found at i:252854 original size:21 final size:21
Alignment explanation
Indices: 252830--252875 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
252820 TATCTGACAT
*
252830 CAACCTTAAGTTATACATACG
1 CAACCTTAAGTTATACATAAG
252851 CAACCTTAAGTTATACATAAG
1 CAACCTTAAGTTATACATAAG
252872 CAAC
1 CAAC
252876 AAACATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (21 bp):
CAACCTTAAGTTATACATAAG
Found at i:255443 original size:176 final size:175
Alignment explanation
Indices: 255150--255499 Score: 691
Period size: 176 Copynumber: 2.0 Consensus size: 175
255140 TTAAATAAAT
255150 AAATTTAGATTTTTAATTAATTATAGTCATACCTTGAAACCTTTAGATTTTAATTTTTATAAATT
1 AAATTTAGATTTTTAATTAATTATAGTCATACCTTGAAACCTTTAGATTTTAATTTTTATAAATT
255215 AAATTAATGATGTTCAGTGGTGTTTAACATTAGTGGTTCTCTACGATGCTCGTCGAGTGTGGCTA
66 AAATTAATGATGTTCAGTGGTGTTTAACATTAGTGGTTCTCTACGATGCTCGTCGAGTGTGGCTA
255280 ACTCATCTTATTGGTTATTTTTCTTTAATATATGTATAATTTTAA
131 ACTCATCTTATTGGTTATTTTTCTTTAATATATGTATAATTTTAA
255325 AAATTTAGATTTTTAATTAATTATAGTCATACCTTGAAACCTTTAGAATTTTAATTTTTATAAAT
1 AAATTTAGATTTTTAATTAATTATAGTCATACCTTGAAACCTTTAG-ATTTTAATTTTTATAAAT
255390 TAAATTAATGATGTTCAGTGGTGTTTAACATTAGTGGTTCTCTACGATGCTCGTCGAGTGTGGCT
65 TAAATTAATGATGTTCAGTGGTGTTTAACATTAGTGGTTCTCTACGATGCTCGTCGAGTGTGGCT
255455 AACTCATCTTATTGGTTATTTTTCTTTAATATATGTATAATTTTA
130 AACTCATCTTATTGGTTATTTTTCTTTAATATATGTATAATTTTA
255500 CTCGTTAACT
Statistics
Matches: 174, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
175 46 0.26
176 128 0.74
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (175 bp):
AAATTTAGATTTTTAATTAATTATAGTCATACCTTGAAACCTTTAGATTTTAATTTTTATAAATT
AAATTAATGATGTTCAGTGGTGTTTAACATTAGTGGTTCTCTACGATGCTCGTCGAGTGTGGCTA
ACTCATCTTATTGGTTATTTTTCTTTAATATATGTATAATTTTAA
Found at i:255697 original size:30 final size:30
Alignment explanation
Indices: 255663--255721 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
255653 TATTTTGACC
* *
255663 CTTGAATTTTAGATGAAATATTAATTTAAT
1 CTTGAACTTTAGATAAAATATTAATTTAAT
255693 CTTGAACTTTAGATAAAATATTAATTTAA
1 CTTGAACTTTAGATAAAATATTAATTTAA
255722 CCTCTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (30 bp):
CTTGAACTTTAGATAAAATATTAATTTAAT
Found at i:255741 original size:30 final size:30
Alignment explanation
Indices: 255662--255744 Score: 98
Period size: 30 Copynumber: 2.8 Consensus size: 30
255652 TTATTTTGAC
* *
255662 CCTTGAATTTTAGATGAAATATTAATTTAA
1 CCTTGAAATTTAGATAAAATATTAATTTAA
* *
255692 TCTTGAACTTTAGATAAAATATTAATTTAA
1 CCTTGAAATTTAGATAAAATATTAATTTAA
255722 CCTCT-AAATTTA-ATCAAAATATT
1 CCT-TGAAATTTAGAT-AAAATATT
255745 CTTTCTTCGA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
29 2 0.04
30 43 0.93
31 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (30 bp):
CCTTGAAATTTAGATAAAATATTAATTTAA
Found at i:256639 original size:19 final size:20
Alignment explanation
Indices: 256599--256662 Score: 103
Period size: 19 Copynumber: 3.2 Consensus size: 20
256589 TGTCTGACAT
256599 CAACCTTAAGTTATACATAAG
1 CAACCTTAAG-TATACATAAG
*
256620 CAACCTTAAG-ATATATAAG
1 CAACCTTAAGTATACATAAG
256639 CAACCTTAAGTATACATAAG
1 CAACCTTAAGTATACATAAG
256659 CAAC
1 CAAC
256663 AAATATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.45
20 12 0.30
21 10 0.25
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.25
Consensus pattern (20 bp):
CAACCTTAAGTATACATAAG
Found at i:257646 original size:2 final size:2
Alignment explanation
Indices: 257633--257684 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
257623 GTTTAAGAAA
257633 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
257673 AT AT AT AT AT AT
1 AT AT AT AT AT AT
257685 CTTTTTTATA
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 46 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:260206 original size:21 final size:21
Alignment explanation
Indices: 260126--260207 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
260116 GGTGTTGGGT
* *
260126 CGGG-TCTGGATCTGGGCTTC
1 CGGGTTCTAGATCTGGGCCTC
* * * *
260146 CGGGTTTTGGATCTAGGTCTC
1 CGGGTTCTAGATCTGGGCCTC
*
260167 CGGATTCTAGATCTGGGCCTC
1 CGGGTTCTAGATCTGGGCCTC
260188 CGGGTTC-ATGATCTGGGCCT
1 CGGGTTCTA-GATCTGGGCCT
260208 ATAAAATTAA
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 5 0.10
21 45 0.90
ACGTcount: A:0.10, C:0.24, G:0.34, T:0.32
Consensus pattern (21 bp):
CGGGTTCTAGATCTGGGCCTC
Found at i:261969 original size:2 final size:2
Alignment explanation
Indices: 261962--261996 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
261952 AAATGAAGAA
261962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
261997 GAATTACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:275699 original size:2 final size:2
Alignment explanation
Indices: 275692--275759 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
275682 AATGAAGACA
275692 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
275734 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
275760 TACAGAAACT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:281007 original size:31 final size:31
Alignment explanation
Indices: 280971--281058 Score: 131
Period size: 31 Copynumber: 2.8 Consensus size: 31
280961 ATAATATAGT
* *
280971 CCCCAACAATTAGTTCGTTTGCAATACATTC
1 CCCCAACATTTAGTTCGTTTGCAATACAATC
*
281002 CCCCAACATTTAATTCGTTTGCAATACAATC
1 CCCCAACATTTAGTTCGTTTGCAATACAATC
* *
281033 CCCTAACATTTAGTCCGTTTGCAATA
1 CCCCAACATTTAGTTCGTTTGCAATA
281059 TGGTCCCCGA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (31 bp):
CCCCAACATTTAGTTCGTTTGCAATACAATC
Found at i:283111 original size:30 final size:31
Alignment explanation
Indices: 283046--283111 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
283036 TCGGAGACCA
* **
283046 TATTGCAAACAGACTAAAAGTTGGGGTGTTG
1 TATTGCAAACAAACTAAAAGTTGGGGTACTG
* *
283077 TATTGCAAATAAACTAAATGTTGGGG-ACTG
1 TATTGCAAACAAACTAAAAGTTGGGGTACTG
283107 TATTG
1 TATTG
283112 TAAGTTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (31 bp):
TATTGCAAACAAACTAAAAGTTGGGGTACTG
Found at i:283365 original size:31 final size:31
Alignment explanation
Indices: 283268--283364 Score: 131
Period size: 31 Copynumber: 3.1 Consensus size: 31
283258 TAAAACTTGT
* * *
283268 AATACAGTCCCCCAACATTTAGTTCGGTTGC
1 AATACAGTCCCCCAACATTTAGTCCGTTTAC
* *
283299 AATACAATCCCCCAACATTTAATCCGTTTAC
1 AATACAGTCCCCCAACATTTAGTCCGTTTAC
* *
283330 AATATAGTCCCCTAACATTTAGTCCGTTTAC
1 AATACAGTCCCCCAACATTTAGTCCGTTTAC
283361 AATA
1 AATA
283365 TGATCCCCGA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (31 bp):
AATACAGTCCCCCAACATTTAGTCCGTTTAC
Found at i:285399 original size:31 final size:31
Alignment explanation
Indices: 285364--285433 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
285354 TCGGGGACCA
* * * *
285364 TATTGCAAATGTACTAAATGTTAGGTGATTG
1 TATTGCAAACGAACTAAATATTAGGGGATTG
*
285395 TATTGCAAACGAACTAAATATTGGGGGATTG
1 TATTGCAAACGAACTAAATATTAGGGGATTG
285426 TATTGCAA
1 TATTGCAA
285434 GTTTTAAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (31 bp):
TATTGCAAACGAACTAAATATTAGGGGATTG
Found at i:286522 original size:6 final size:6
Alignment explanation
Indices: 286511--286893 Score: 766
Period size: 6 Copynumber: 63.8 Consensus size: 6
286501 AATAATGTTT
286511 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
1 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
286559 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
1 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
286607 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
1 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
286655 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
1 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
286703 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
1 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
286751 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
1 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
286799 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
1 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC
286847 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGT
1 TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGTC TATGT
286894 GTATCATTTG
Statistics
Matches: 377, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 377 1.00
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.50
Consensus pattern (6 bp):
TATGTC
Found at i:287911 original size:5 final size:6
Alignment explanation
Indices: 287896--287930 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
287886 AAAATTGTAC
*
287896 AAAAAT AAAAAT AAAAAT -AAAAT AAAAAC AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
287931 GTGCGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:287917 original size:17 final size:17
Alignment explanation
Indices: 287897--287930 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
287887 AAATTGTACA
*
287897 AAAATAAAAATAAAAAT
1 AAAATAAAAACAAAAAT
287914 AAAATAAAAACAAAAAT
1 AAAATAAAAACAAAAAT
287931 GTGCGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAAACAAAAAT
Found at i:293186 original size:26 final size:26
Alignment explanation
Indices: 293152--293210 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
293142 AACACCCCTA
293152 AACGCTCCAAAGAGCTTAGACTTTCT
1 AACGCTCCAAAGAGCTTAGACTTTCT
293178 AACGCTCCAAAGAGCTTAGACTTTCT
1 AACGCTCCAAAGAGCTTAGACTTTCT
*
293204 CACGCTC
1 AACGCTC
293211 TGACGACCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (26 bp):
AACGCTCCAAAGAGCTTAGACTTTCT
Found at i:295557 original size:10 final size:10
Alignment explanation
Indices: 295542--295602 Score: 81
Period size: 10 Copynumber: 6.1 Consensus size: 10
295532 TTTCTTTCTT
295542 TTATTTTTTC
1 TTATTTTTTC
*
295552 TTATTTGTTC
1 TTATTTTTTC
295562 TTATTTTTTC
1 TTATTTTTTC
295572 -TATTTTTTC
1 TTATTTTTTC
295581 -TATTTTTTTC
1 TTA-TTTTTTC
295591 TCTATTTTTTC
1 T-TATTTTTTC
295602 T
1 T
295603 ATATCTTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
9 11 0.24
10 25 0.54
11 8 0.17
12 2 0.04
ACGTcount: A:0.10, C:0.11, G:0.02, T:0.77
Consensus pattern (10 bp):
TTATTTTTTC
Found at i:295568 original size:19 final size:21
Alignment explanation
Indices: 295546--295611 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
295536 TTTCTTTTAT
*
295546 TTTTTCT-TATTTGTTCT-TA
1 TTTTTCTCTATTTTTTCTATA
*
295565 TTTTT-TCTATTTTTTCTATT
1 TTTTTCTCTATTTTTTCTATA
295585 TTTTTCTCTATTTTTTCTATA
1 TTTTTCTCTATTTTTTCTATA
295606 TCTTTT
1 T-TTTT
295612 ATTCTTTCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
18 1 0.03
19 14 0.35
20 6 0.15
21 15 0.38
22 4 0.10
ACGTcount: A:0.11, C:0.12, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTTCTCTATTTTTTCTATA
Found at i:296101 original size:14 final size:14
Alignment explanation
Indices: 296082--296111 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
296072 TTCTCAAAAG
296082 CTTGATCTGAAACA
1 CTTGATCTGAAACA
296096 CTTGATCTGAAACA
1 CTTGATCTGAAACA
296110 CT
1 CT
296112 CCATCTTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (14 bp):
CTTGATCTGAAACA
Found at i:304067 original size:30 final size:30
Alignment explanation
Indices: 304033--304161 Score: 120
Period size: 30 Copynumber: 4.4 Consensus size: 30
304023 GAAATTACTG
* *
304033 TTTAGCCCTTTAACTTTCTATTTTTAGTAT
1 TTTAGTCCTTTAACTTTCTATTTTTACTAT
*
304063 TTTAGTCCTTTAACTTTCTTTTTTTACTAT
1 TTTAGTCCTTTAACTTTCTATTTTTACTAT
* * * * *
304093 TTTAATCCTTTAAGTTTATATTTTTATTGT
1 TTTAGTCCTTTAACTTTCTATTTTTACTAT
* * * *
304123 TTTCGTCCTATAA-TTT-TTTTTTTGCTA-
1 TTTAGTCCTTTAACTTTCTATTTTTACTAT
*
304150 TTTAGTCTTTTA
1 TTTAGTCCTTTA
304162 TTTTACTAAG
Statistics
Matches: 80, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
27 9 0.11
28 7 0.09
29 3 0.04
30 61 0.76
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.62
Consensus pattern (30 bp):
TTTAGTCCTTTAACTTTCTATTTTTACTAT
Found at i:304115 original size:60 final size:58
Alignment explanation
Indices: 304039--304152 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 58
304029 ACTGTTTAGC
* *
304039 CCTTTAACTTTCTATTTTTAGTATTTTAGTCCTTTAACTTTCTTTTTTTACTATTTTAAT
1 CCTTTAACTTTATATTTTTAGTATTTTAGTCCTATAA-TTT-TTTTTTTACTATTTTAAT
* * * * *
304099 CCTTTAAGTTTATATTTTTATTGTTTTCGTCCTATAATTTTTTTTTTGCTATTT
1 CCTTTAACTTTATATTTTTAGTATTTTAGTCCTATAATTTTTTTTTTACTATTT
304153 AGTCTTTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
58 13 0.28
59 3 0.06
60 31 0.66
ACGTcount: A:0.18, C:0.13, G:0.05, T:0.63
Consensus pattern (58 bp):
CCTTTAACTTTATATTTTTAGTATTTTAGTCCTATAATTTTTTTTTTACTATTTTAAT
Found at i:308210 original size:13 final size:13
Alignment explanation
Indices: 308194--308224 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
308184 GTCAACGGGT
*
308194 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
308207 CGGGTCGGGTAAA
1 CGGGTCGGGTAAA
308220 CGGGT
1 CGGGT
308225 AAACGGGTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.48, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:308257 original size:10 final size:10
Alignment explanation
Indices: 308237--308291 Score: 78
Period size: 10 Copynumber: 5.6 Consensus size: 10
308227 ACGGGTCGTG
308237 ACCGGTC-AA
1 ACCGGTCAAA
308246 ACCGGTCAAA
1 ACCGGTCAAA
308256 ACCGGTTCAAA
1 ACCGG-TCAAA
*
308267 ACCGGT-TAA
1 ACCGGTCAAA
308276 ACCGGTCAAA
1 ACCGGTCAAA
308286 ACCGGT
1 ACCGGT
308292 TTCCAGCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
9 15 0.37
10 16 0.39
11 10 0.24
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.15
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:308292 original size:19 final size:19
Alignment explanation
Indices: 308237--308292 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
308227 ACGGGTCGTG
*
308237 ACCGGTC-AAACCGGTCAAA
1 ACCGGTCAAAACCGGT-TAA
308256 ACCGGTTCAAAACCGGTTAA
1 ACCGG-TCAAAACCGGTTAA
308276 ACCGGTCAAAACCGGTT
1 ACCGGTCAAAACCGGTT
308293 TCCAGCGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 17 0.50
20 9 0.26
21 8 0.24
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAAACCGGTTAA
Found at i:312075 original size:37 final size:35
Alignment explanation
Indices: 312005--312133 Score: 150
Period size: 36 Copynumber: 3.6 Consensus size: 35
311995 CAAAGTGTCA
* *
312005 TCTCGCTAGAGACAATTTTCTTAAAAGCAAATTTTG
1 TCTCGCTTGAGACAATTTTC-TAAAAACAAATTTTG
* *
312041 TCTTGCTTGAGACAACTTTATCTAAAAACGAATTTTG
1 TCTCGCTTGAGACAA-TTT-TCTAAAAACAAATTTTG
* **
312078 TCTCGCTTGAGACAATTTCTCTCAAAACAAATTTCA
1 TCTCGCTTGAGACAATTT-TCTAAAAACAAATTTTG
*
312114 TCTCGCTTGAGACATTTTTC
1 TCTCGCTTGAGACAATTTTC
312134 CTTTGAGATA
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
35 2 0.03
36 46 0.57
37 30 0.38
38 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTCGCTTGAGACAATTTTCTAAAAACAAATTTTG
Found at i:312118 original size:36 final size:35
Alignment explanation
Indices: 311989--312133 Score: 146
Period size: 36 Copynumber: 4.0 Consensus size: 35
311979 TCTTTAAAAA
* *
311989 TCAAAACAAAGTGTCATCTCGCTAGAGACAATTTTC
1 TCAAAACAAA-TTTCATCTCGCTTGAGACAATTTTC
* ** *
312025 TTAAAAGCAAATTTTGTCTTGCTTGAGACAACTTTATC
1 TCAAAA-CAAATTTCATCTCGCTTGAGACAA-TTT-TC
* * **
312063 TAAAAACGAATTTTGTCTCGCTTGAGACAATTTCTC
1 TCAAAACAAATTTCATCTCGCTTGAGACAATTT-TC
*
312099 TCAAAACAAATTTCATCTCGCTTGAGACATTTTTC
1 TCAAAACAAATTTCATCTCGCTTGAGACAATTTTC
312134 CTTTGAGATA
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
35 2 0.02
36 53 0.58
37 29 0.32
38 7 0.08
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (35 bp):
TCAAAACAAATTTCATCTCGCTTGAGACAATTTTC
Found at i:312978 original size:130 final size:131
Alignment explanation
Indices: 312776--313092 Score: 302
Period size: 130 Copynumber: 2.4 Consensus size: 131
312766 GCCTACCATT
* * * *
312776 CTCATCATGTAGGAACCGTGTTATCCCCCGACTAGACCTCCTCATCAAGTAGGAGTCCTATCACC
1 CTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCAAGTAGGAGTCCTATCAAC
312841 CCTGATAACCAGCCATCCTCATCACATAAGAACCGTGTTATCA-TTCCTAAAGATGGTATGTCGT
66 CCTGATAACCAGCCATCCTCATCACATAAGAACCGTGTTATCACTTCCTAAAGATGGTATGTCGT
312905 C
131 C
* * * *
312906 CTCATCACGTAGGAACTGTGTCAT-CCTCGACCAGACCTCCTCATCATGTTA-GAGTCAC-GTCA
1 CTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCAAG-TAGGAGTC-CTATCA
* * * * * ** *
312968 ACCTTAGATAACTAGTCGTCCTCATTATGTAGGAACCGTGTTATCACCCTTCCTAAAGATGGCTA
64 ACCCT-GATAACCAGCCATCCTCATCACATAAGAACCGTGTTATCA--CTTCCTAAAGATGG-TA
**
313033 TAAC-TC
125 TGTCGTC
* ** * * * * * *
313039 TTCATCACGTATCATCCGTGTCATCCACCAACCAGATCTCCTCAACACGTAGGA
1 CTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCAAGTAGGA
313093 ACCGTGACAC
Statistics
Matches: 149, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
129 32 0.21
130 57 0.38
133 36 0.24
134 24 0.16
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (131 bp):
CTCATCACGTAGGAACCGTGTCATCCCCCGACCAGACCTCCTCATCAAGTAGGAGTCCTATCAAC
CCTGATAACCAGCCATCCTCATCACATAAGAACCGTGTTATCACTTCCTAAAGATGGTATGTCGT
C
Found at i:314989 original size:30 final size:31
Alignment explanation
Indices: 314949--315086 Score: 135
Period size: 30 Copynumber: 4.6 Consensus size: 31
314939 TTATTTGAAA
*
314949 TTACTA-TTTAGCCCTTTAACTTTCTATTTT
1 TTACTATTTTAGTCCTTTAACTTTCTATTTT
*
314979 TTA-TATTTTAGTCCTTGAAC-TT-TATGTTT
1 TTACTATTTTAGTCCTTTAACTTTCTAT-TTT
* * *
315008 TTACTATTTTAATCCTTTAAGTTTTTA-TTT
1 TTACTATTTTAGTCCTTTAACTTTCTATTTT
* * * *
315038 TTATTGTTTTAGTCCTATAAATTTCTATTTT
1 TTACTATTTTAGTCCTTTAACTTTCTATTTT
*
315069 TTTCTA-TTTAGTCCTTTA
1 TTACTATTTTAGTCCTTTA
315087 TTTTACTAAG
Statistics
Matches: 87, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
28 3 0.03
29 10 0.11
30 64 0.74
31 8 0.09
32 2 0.02
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (31 bp):
TTACTATTTTAGTCCTTTAACTTTCTATTTT
Found at i:317845 original size:27 final size:27
Alignment explanation
Indices: 317822--317884 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
317812 TGGCCAATAT
317822 GAGCCATCGACTATTAATAGCCAAGGA
1 GAGCCATCGACTATTAATAGCCAAGGA
* * *
317849 GAGCCATCTACTGTTAATAGCCAAGAA
1 GAGCCATCGACTATTAATAGCCAAGGA
*
317876 AAGCCATCG
1 GAGCCATCG
317885 GAAAAGAATG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.19
Consensus pattern (27 bp):
GAGCCATCGACTATTAATAGCCAAGGA
Found at i:321154 original size:3 final size:3
Alignment explanation
Indices: 321146--321188 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
321136 TCTAAAAAAG
* *
321146 TAT TAT TAT TCAT TAT TAT TGT TAT TAT TAT TA- TAT TAA TAT T
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
321189 TAATTACATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:321194 original size:22 final size:22
Alignment explanation
Indices: 321147--321194 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
321137 CTAAAAAAGT
* *
321147 ATTATTATTCATTATTATTGTT
1 ATTATTATTCATTAATATTGTA
*
321169 ATTATTATTATATTAATATT-TA
1 ATTATTATT-CATTAATATTGTA
321191 ATTA
1 ATTA
321195 CATTTTGCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTATTATTCATTAATATTGTA
Found at i:321245 original size:25 final size:25
Alignment explanation
Indices: 321217--321264 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
321207 GCTCAAATGG
321217 AACCCAACTACAACATCAACCCATC
1 AACCCAACTACAACATCAACCCATC
*
321242 AACCCAACTATAACATCAACCCA
1 AACCCAACTACAACATCAACCCA
321265 ACCGACCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (25 bp):
AACCCAACTACAACATCAACCCATC
Found at i:324419 original size:15 final size:14
Alignment explanation
Indices: 324399--324436 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
324389 TACAAAGAGA
324399 AAAGAAAAAAAAAGC
1 AAAGAAAAAAAAA-C
324414 AAAG--AAAAAAAC
1 AAAGAAAAAAAAAC
324426 AAAGAAAAAAA
1 AAAGAAAAAAA
324437 GCAAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.24
13 7 0.33
14 5 0.24
15 4 0.19
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAC
Found at i:324423 original size:12 final size:12
Alignment explanation
Indices: 324391--324447 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
324381 CCTATCAATA
*
324391 CAAAGAGAAAAG
1 CAAAGAAAAAAG
324403 -AAA-AAAAAAG
1 CAAAGAAAAAAG
*
324413 CAAAGAAAAAAA
1 CAAAGAAAAAAG
324425 CAAAGAAAAAAAG
1 CAAAG-AAAAAAG
324438 CAAAAGAAAA
1 C-AAAGAAAA
324448 GAAGATAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
10 6 0.16
11 6 0.16
12 11 0.29
13 11 0.29
14 4 0.11
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (12 bp):
CAAAGAAAAAAG
Found at i:324423 original size:13 final size:13
Alignment explanation
Indices: 324405--324447 Score: 70
Period size: 12 Copynumber: 3.3 Consensus size: 13
324395 GAGAAAAGAA
324405 AAAAAAAGCAAAG
1 AAAAAAAGCAAAG
324418 AAAAAAA-CAAAG
1 AAAAAAAGCAAAG
324430 AAAAAAAGCAAAAG
1 AAAAAAAGC-AAAG
324444 AAAA
1 AAAA
324448 GAAGATAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.43
13 8 0.29
14 8 0.29
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAGCAAAG
Found at i:324452 original size:22 final size:22
Alignment explanation
Indices: 324391--324461 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 22
324381 CCTATCAATA
324391 CAAAGAGAAAAGAA-AAAAAAAG
1 CAAA-AGAAAAGAAGAAAAAAAG
* *
324413 CAAAGAAAAAAACAAAGAAAAAAAG
1 C-AA-AAGAAAA-GAAGAAAAAAAG
* *
324438 CAAAAGAAAAGAAGATAAGAAG
1 CAAAAGAAAAGAAGAAAAAAAG
324460 CA
1 CA
324462 CATGCAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
22 12 0.31
23 13 0.33
24 5 0.13
25 9 0.23
ACGTcount: A:0.75, C:0.07, G:0.17, T:0.01
Consensus pattern (22 bp):
CAAAAGAAAAGAAGAAAAAAAG
Found at i:325766 original size:35 final size:35
Alignment explanation
Indices: 325666--325756 Score: 110
Period size: 35 Copynumber: 2.5 Consensus size: 35
325656 ACAAAGCATC
* ***
325666 GTCTCGCTAGAGACAATTTTTTCTAAAAACTTTTTTT
1 GTCTCGCTTGAGACAA--TTTTCTAAAAACAAATTTT
325703 GTCTCGCTTGAGACAATTTTCTAAAAACAAATTTT
1 GTCTCGCTTGAGACAATTTTCTAAAAACAAATTTT
* *
325738 GTCTCGTTTGAGATAATTT
1 GTCTCGCTTGAGACAATTT
325757 CTTCAAAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
35 33 0.69
37 15 0.31
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (35 bp):
GTCTCGCTTGAGACAATTTTCTAAAAACAAATTTT
Found at i:326084 original size:65 final size:64
Alignment explanation
Indices: 325888--326086 Score: 195
Period size: 65 Copynumber: 3.0 Consensus size: 64
325878 GTCTTGAGAG
* * ** *
325888 AAAAGTCTTTGAGTCTGTCTCTCTTGAAAAAAAAATTTGCCTCTCTTGAGACAGTTTCTCTTTAA
1 AAAA-TCTTTGAGTCTGTTTCTCTTG--AAACAAATTTTTCTCTCTTGAGACAGTTTCTCTTAAA
325953 A-
63 AC
* * * * * * * *
325954 AATATCTTTGAGTCTGATTCCCTTGCAACAAGTTTCTTGTCCCTTGAGACAGTTTCTCTTGAAAC
1 AAAATCTTTGAGTCTGTTTCTCTTGAAACAAATTT-TTCTCTCTTGAGACAGTTTCTCTTAAAAC
* *
326019 ACAAATCTTTGAGTC-GTTTCTCTTGAAACAAATTTTATTTCTCTTGAGACAGTTTCTCTCAAAA
1 A-AAATCTTTGAGTCTGTTTCTCTTGAAACAAATTTT-TCTCTCTTGAGACAGTTTCTCTTAAAA
326083 C
64 C
326084 AAA
1 AAA
326087 TTTTGTCTCT
Statistics
Matches: 108, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
63 7 0.06
64 26 0.24
65 60 0.56
66 15 0.14
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (64 bp):
AAAATCTTTGAGTCTGTTTCTCTTGAAACAAATTTTTCTCTCTTGAGACAGTTTCTCTTAAAAC
Found at i:326120 original size:36 final size:36
Alignment explanation
Indices: 326034--326186 Score: 176
Period size: 36 Copynumber: 4.4 Consensus size: 36
326024 TCTTTGAGTC
* *
326034 GTTTCTCTTGAAACAAATTTTATTTCTCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
**
326070 GTTTCTCTCAAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
326106 GTTTCTCTTGAAAC-ACTTATG----T-TTGAGATCA
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA-CA
*
326137 TTTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
326172 GTTGCTCTTGAAACA
1 GTTTCTCTTGAAACA
326187 CCCATCTTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
30 14 0.15
31 12 0.12
35 11 0.11
36 59 0.61
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (36 bp):
GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:326156 original size:66 final size:65
Alignment explanation
Indices: 326080--326319 Score: 311
Period size: 66 Copynumber: 3.6 Consensus size: 65
326070 GTTTCTCTCA
** * *
326080 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACTTATGTTTGAGATCAT-TTTCCT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCCATCTTTCAG-TC-TGTTTCCT
326144 TG
64 TG
* *
326146 AAACAAATTTTGTCTCTCTTGAGACAGTTGCTCTTGAAACACCCATCTTTTAGTCTGTTTCCCTT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCCATCTTTCAGTCTGTTT-CCTT
326211 G
65 G
* * * *
326212 AAAAAAAATTTGTCTCTCTTGAGACAGTTACTCTTGAAACACCCATCTTTCAGTTTGTTTCCATT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCCATCTTTCAGTCTGTTTCC-TT
326277 G
65 G
* * *
326278 AAACAATGTTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACA
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
326320 TCACCCCTAA
Statistics
Matches: 154, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
64 1 0.01
65 7 0.05
66 116 0.75
67 30 0.19
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (65 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCCATCTTTCAGTCTGTTTCCTTG
Found at i:326977 original size:25 final size:25
Alignment explanation
Indices: 326938--326986 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
326928 GCTCGAATGG
326938 AGCCCAACTACAACATCAACCCAGC
1 AGCCCAACTACAACATCAACCCAGC
* *
326963 AGCCCAAGTATAACATCAACCCAG
1 AGCCCAACTACAACATCAACCCAG
326987 TCGACCCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.41, C:0.39, G:0.10, T:0.10
Consensus pattern (25 bp):
AGCCCAACTACAACATCAACCCAGC
Found at i:334042 original size:29 final size:29
Alignment explanation
Indices: 333983--334068 Score: 120
Period size: 29 Copynumber: 2.9 Consensus size: 29
333973 TTTCAATATT
* *
333983 TATTATTCGAATAAGA-CTTTATTTGAAG
1 TATTATTCGAATAAAATTTTTATTTGAAG
334011 TATTATTCGAATAAAATTTTTATTTGAAG
1 TATTATTCGAATAAAATTTTTATTTGAAG
*
334040 TATTATTTGAATAAAATATTTCTATTTGA
1 TATTATTCGAATAAAAT-TTT-TATTTGA
334069 TCTCGTATTA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
28 15 0.29
29 27 0.52
30 3 0.06
31 7 0.13
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (29 bp):
TATTATTCGAATAAAATTTTTATTTGAAG
Found at i:337591 original size:27 final size:27
Alignment explanation
Indices: 337561--337633 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
337551 TGTTGATGTT
* *
337561 ATATTTGAATGATTCTGATTAATATCA
1 ATATTTGAATGAATCTGATTAATAACA
*
337588 ATATTTGAATGAATGTGATTAATAACA
1 ATATTTGAATGAATCTGATTAATAACA
*
337615 ATATTTGAATGAATGTGAT
1 ATATTTGAATGAATCTGAT
337634 GGATATTTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.41
Consensus pattern (27 bp):
ATATTTGAATGAATCTGATTAATAACA
Found at i:340086 original size:105 final size:103
Alignment explanation
Indices: 339784--340149 Score: 366
Period size: 105 Copynumber: 3.5 Consensus size: 103
339774 AAAATCTGTC
* * *
339784 AAATCAAAATAAATAGTCTAATTAATTTATATTTACAATAAATACAACAAATAAAACAATAAAAT
1 AAATCAAAATAAATAGTCTAATTAATTTATATTTA-AATAAA-A-AAAAAAT-TAAC-A-AAATT
* * * *
339849 TTAAACAAAACTTACCAAACCACTCAAATACGATTTAATCTATA
60 TTAAACTAAACTTACCAAACCACTCAAATACAATTTAATATGTA
* * * * * * *
339893 ATATAAAAATAATTAGTCTAA-TAATTTATA-TT-ACTCAATAGAAAATTAA-AAATATAATTTA
1 AAATCAAAATAAATAGTCTAATTAATTTATATTTAAATAAAAAAAAAATTAACAAA-AT--TTTA
* *
339954 AACTAAACTTACCAAACTACTCAAATACAACTTAATATGTA
63 AACTAAACTTACCAAACCACTCAAATACAATTTAATATGTA
339995 AAATCAAAATAAATAGTCTAA-TAA-TTATAATTTAAATTAAAAACAAAAATTACACAAAATTTT
1 AAATCAAAATAAATAGTCTAATTAATTTAT-ATTTAAA-TAAAAA-AAAAATTA-ACAAAATTTT
* * * * *
340058 AAATTAAACTTACCAAACCACGCGAATACAGTTTAATATGCA
62 AAACTAAACTTACCAAACCACTCAAATACAATTTAATATGTA
*
340100 AAATCAAAATAAATAATCTAATTAATTTATATTTAAAATAAAAAAAAAAT
1 AAATCAAAATAAATAGTCTAATTAATTTATATTT-AAATAAAAAAAAAAT
340150 GAAACAATAA
Statistics
Matches: 213, Mismatches: 31, Indels: 30
0.78 0.11 0.11
Matches are distributed among these distances:
99 2 0.01
100 2 0.01
101 4 0.02
102 63 0.30
103 7 0.03
104 1 0.00
105 72 0.34
106 20 0.09
107 12 0.06
108 12 0.06
109 18 0.08
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (103 bp):
AAATCAAAATAAATAGTCTAATTAATTTATATTTAAATAAAAAAAAAATTAACAAAATTTTAAAC
TAAACTTACCAAACCACTCAAATACAATTTAATATGTA
Found at i:343048 original size:12 final size:12
Alignment explanation
Indices: 343026--343116 Score: 65
Period size: 13 Copynumber: 7.0 Consensus size: 12
343016 GAAAGCAAAG
*
343026 ATAAAATAATAA
1 ATAAAAAAATAA
*
343038 GTAAAAAAATAA
1 ATAAAAAAATAA
*
343050 ATAATAAAATATAT
1 ATAA-AAAA-ATAA
*
343064 ATAAAAAAGAAAA
1 ATAAAAAA-ATAA
*
343077 AGAAAAAGGAAATAA
1 A-TAAAA--AAATAA
343092 ATAAAACAAATAA
1 ATAAAA-AAATAA
*
343105 ATAAAATAATAA
1 ATAAAAAAATAA
343117 TAACAAAGTA
Statistics
Matches: 62, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
12 18 0.29
13 23 0.37
14 15 0.24
15 4 0.06
16 2 0.03
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (12 bp):
ATAAAAAAATAA
Found at i:343069 original size:11 final size:12
Alignment explanation
Indices: 343033--343169 Score: 50
Period size: 13 Copynumber: 11.0 Consensus size: 12
343023 AAGATAAAAT
* *
343033 AATAAGTAAAAA
1 AATAAATAATAA
343045 AATAAATAATAA
1 AATAAATAATAA
343057 AATATATATAA-AA
1 AATA-A-ATAATAA
* *
343070 AAGAAA-AAGAAA
1 AATAAATAA-TAA
*
343082 AAGGAAATAAATAA
1 AA-TAAAT-AATAA
*
343096 AACAAATAAATAA
1 AATAAAT-AATAA
343109 AAT-AATAATAA
1 AATAAATAATAA
* * **
343120 CA-AAGTACGAA
1 AATAAATAATAA
*
343131 TAATATATATATAA
1 -AATAAATA-ATAA
343145 AATAAATAA-AA
1 AATAAATAATAA
343156 AAGTAAATATATAA
1 AA-TAAATA-ATAA
343170 TTAATAAATT
Statistics
Matches: 95, Mismatches: 16, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
10 2 0.02
11 16 0.17
12 30 0.32
13 33 0.35
14 12 0.13
15 2 0.02
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:343165 original size:25 final size:24
Alignment explanation
Indices: 343026--343178 Score: 62
Period size: 25 Copynumber: 6.1 Consensus size: 24
343016 GAAAGCAAAG
* *
343026 ATAAAATAATAAGTA-AAAAAATAA
1 ATAAAA-AATAAATATATAAAATAA
* * *
343050 ATAATAAAATATATATAAAAAAGAA
1 ATAA-AAAATAAATATATAAAATAA
* * * *
343075 AAAGAAAAAGGAAATAAATAAAACAA
1 ATA-AAAAA-TAAATATATAAAATAA
*
343101 ATAAATAAA-ATAATA-ATAACA-AA
1 ATAAA-AAATA-AATATATAAAATAA
* * *
343124 GTACGAATAATATATATATAAAATAA
1 ATA--AAAAATAAATATATAAAATAA
343150 ATAAAAAAGTAAATATATAATTAATAA
1 ATAAAAAA-TAAATATATAA--AATAA
343177 AT
1 AT
343179 TAAATGACGA
Statistics
Matches: 97, Mismatches: 18, Indels: 25
0.69 0.13 0.18
Matches are distributed among these distances:
23 4 0.04
24 25 0.26
25 40 0.41
26 21 0.22
27 7 0.07
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (24 bp):
ATAAAAAATAAATATATAAAATAA
Found at i:343666 original size:20 final size:20
Alignment explanation
Indices: 343625--343667 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
343615 ATACGCATAT
*
343625 ATATATATATAAAATAAATA
1 ATATAAATATAAAATAAATA
343645 ATATAAATA-AAAATAAAGTA
1 ATATAAATATAAAATAAA-TA
343665 ATA
1 ATA
343668 ATACAAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (20 bp):
ATATAAATATAAAATAAATA
Found at i:343723 original size:21 final size:22
Alignment explanation
Indices: 343697--343743 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
343687 AAAGAGAAAG
343697 TAAAAAATATA-ATA-ATAAATA
1 TAAAAAATATACATATAT-AATA
343718 TAAAAAATATACATATATAATA
1 TAAAAAATATACATATATAATA
343740 TAAA
1 TAAA
343744 TAAGTAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 11 0.46
22 11 0.46
23 2 0.08
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAAAATATACATATATAATA
Found at i:343869 original size:16 final size:16
Alignment explanation
Indices: 343848--343883 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
343838 TAACATATAT
343848 AAAAAGAGAAAAATTA
1 AAAAAGAGAAAAATTA
* *
343864 AAAAAGTGATAAATTA
1 AAAAAGAGAAAAATTA
343880 AAAA
1 AAAA
343884 TAAAATTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (16 bp):
AAAAAGAGAAAAATTA
Found at i:344395 original size:37 final size:37
Alignment explanation
Indices: 344354--344458 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
344344 GTGCTTGTGG
* *
344354 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
* * *
344391 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
*
344428 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAG
344459 GACGAAAAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
Found at i:345371 original size:106 final size:106
Alignment explanation
Indices: 345188--346356 Score: 1779
Period size: 106 Copynumber: 11.0 Consensus size: 106
345178 TCATTGTTTC
* * * * *
345188 GAGTCCAATATCCTCCGTCGTGAAGTTAAAATTGGCTCT-AGAATAGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTGTTGACA
* * * *
345252 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
345294 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
345359 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
**
345400 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
345465 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
345506 GAGTTCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
345571 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGACTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
345612 GAGTACAATATCATTCGCTGTGAAGTTGAAATTGGCT-TCGAAATTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAAATTGGGAAGTTGTTTGTTGACA
345676 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
345718 GAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTTTTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
345783 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
345824 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
345889 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
345930 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
345995 CCAGCGGTCCCTTCGTCCTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
346036 GAGTCCAATATCCTTCGTTGTGAAGCTGAAATTGGCTATGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
346101 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
346142 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
346207 CCAGCGGTCCATTCGTCGTGAAGTTGAACTTGTGTTGTTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
346248 GAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTTGTTGATAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * ** * *
346313 CCAGTC-ATCCATT-GTTTTGAAGTTGAACTTGTGTTGTCTC
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
346353 GAGT
1 GAGT
346357 GGCACGATAT
Statistics
Matches: 983, Mismatches: 76, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
105 28 0.03
106 953 0.97
107 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:346895 original size:18 final size:19
Alignment explanation
Indices: 346866--346902 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
346856 TGTTGAATCC
346866 CCAAATAATGCCCCAATAT
1 CCAAATAATGCCCCAATAT
346885 CCAAA-AATGCCCCAATAT
1 CCAAATAATGCCCCAATAT
346903 TTGATGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.43, C:0.32, G:0.05, T:0.19
Consensus pattern (19 bp):
CCAAATAATGCCCCAATAT
Found at i:348001 original size:14 final size:13
Alignment explanation
Indices: 347970--347994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
347960 TTTCTTTCAA
347970 TTTTTGTTCTTTC
1 TTTTTGTTCTTTC
347983 TTTTTGTTCTTT
1 TTTTTGTTCTTT
347995 TGTTTTTTCC
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:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTTGTTCTTTC
Found at i:348008 original size:7 final size:7
Alignment explanation
Indices: 347971--348042 Score: 58
Period size: 7 Copynumber: 10.0 Consensus size: 7
347961 TTCTTTCAAT
347971 TTTTGTTC
1 TTTT-TTC
*
347979 TTTCTT-
1 TTTTTTC
*
347985 TTTGTTC
1 TTTTTTC
*
347992 TTTTGT-
1 TTTTTTC
*
347998 TTTTTCC
1 TTTTTTC
348005 TTTTTTCC
1 TTTTTT-C
348013 TTTTTTTC
1 -TTTTTTC
348021 TTCTTTTC
1 TT-TTTTC
348029 TTTTTTC
1 TTTTTTC
348036 TTTTTTC
1 TTTTTTC
348043 CCTTTTTGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
6 9 0.17
7 25 0.48
8 12 0.23
9 6 0.12
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (7 bp):
TTTTTTC
Found at i:348019 original size:24 final size:23
Alignment explanation
Indices: 347970--348041 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 23
347960 TTTCTTTCAA
* *
347970 TTTTTGTTC-TTTC-TTTTTGTT
1 TTTTTCTTCTTTTCTTTTTTCTT
* *
347991 CTTTTGTT-TTTTCCTTTTTTCCTT
1 TTTTTCTTCTTTT-CTTTTTT-CTT
348015 TTTTTCTTCTTTTCTTTTTTCTT
1 TTTTTCTTCTTTTCTTTTTTCTT
348038 TTTT
1 TTTT
348042 CCCTTTTTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
21 10 0.24
22 1 0.02
23 12 0.29
24 15 0.36
25 4 0.10
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (23 bp):
TTTTTCTTCTTTTCTTTTTTCTT
Found at i:348025 original size:32 final size:32
Alignment explanation
Indices: 347983--348054 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
347973 TTGTTCTTTC
* *
347983 TTTTTGTTCTTTTGTTTTTTCCTTTTTT-CCTT
1 TTTTTCTTCTTTTCTTTTTT-CTTTTTTCCCTT
348015 TTTTTCTTCTTTTCTTTTTTCTTTTTTCCCTT
1 TTTTTCTTCTTTTCTTTTTTCTTTTTTCCCTT
348047 TTTGTTCT
1 TTT-TTCT
348055 GATTGAATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 7 0.19
32 25 0.69
33 4 0.11
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (32 bp):
TTTTTCTTCTTTTCTTTTTTCTTTTTTCCCTT
Found at i:348048 original size:8 final size:8
Alignment explanation
Indices: 347997--348049 Score: 65
Period size: 8 Copynumber: 6.6 Consensus size: 8
347987 TGTTCTTTTG
347997 TTTTTTCC
1 TTTTTTCC
348005 TTTTTTCC
1 TTTTTTCC
*
348013 TTTTTTTC
1 TTTTTTCC
348021 TTCTTTT-C
1 TT-TTTTCC
348029 TTTTTT-C
1 TTTTTTCC
348036 TTTTTTCCC
1 TTTTTT-CC
348045 TTTTT
1 TTTTT
348050 GTTCTGATTG
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
7 11 0.27
8 20 0.49
9 10 0.24
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTCC
Found at i:353344 original size:23 final size:22
Alignment explanation
Indices: 353304--353371 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 22
353294 ATATACATAT
*
353304 ATATAAATAAGTAGAATAAAAGGAA
1 ATAT-AAT-AGTAAAATAAAA-GAA
*
353329 ATATAATAGTAAAATAATAATAA
1 ATATAATAGTAAAATAA-AAGAA
353352 ATATAATAGTAATAATAAAA
1 ATATAATAGTAA-AATAAAA
353372 ATGCAAAGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 25 0.64
24 10 0.26
25 4 0.10
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (22 bp):
ATATAATAGTAAAATAAAAGAA
Found at i:353960 original size:37 final size:37
Alignment explanation
Indices: 353919--354023 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
353909 GTGCTTGTGG
* *
353919 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
* * *
353956 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
*
353993 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAG
354024 GACGAAAAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
Found at i:358206 original size:29 final size:30
Alignment explanation
Indices: 358153--358217 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
358143 ACAAAACCTC
* *
358153 AATTTTCCAAAATTTACGAATTGATCTCCA
1 AATTTTCCAAAATTTACGAAATGATCCCCA
* *
358183 ACTTTT-CAAAATTTATGAAATGATCCCCA
1 AATTTTCCAAAATTTACGAAATGATCCCCA
358212 AATTTT
1 AATTTT
358218 TCTAAGACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.38
Consensus pattern (30 bp):
AATTTTCCAAAATTTACGAAATGATCCCCA
Found at i:360294 original size:32 final size:32
Alignment explanation
Indices: 360227--360296 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
360217 AAGGTGACCT
* **
360227 TTGGGTAGGCTTCGAGGCCCCGAGAAACTTTC
1 TTGGGTAGGCTTCGAGGCCCCAAGAAACTCCC
**
360259 TTGGGTAGGCTCTC-AGGCCCCAAGGCACTCCC
1 TTGGGTAGGCT-TCGAGGCCCCAAGAAACTCCC
360291 TTGGGT
1 TTGGGT
360297 TAATCATGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.16, C:0.29, G:0.31, T:0.24
Consensus pattern (32 bp):
TTGGGTAGGCTTCGAGGCCCCAAGAAACTCCC
Found at i:361339 original size:40 final size:40
Alignment explanation
Indices: 361283--361477 Score: 153
Period size: 42 Copynumber: 4.8 Consensus size: 40
361273 AAAAAATGTC
361283 GCAATAGTCATGCACTTTAGGAGCATTTTTTATAAACACA
1 GCAATAGTCATGCACTTTAGGAGCATTTTTTATAAACACA
* * ** * *
361323 ACAATAGTCATGCACTTTAGTAGTGTTTTTGTGATAAACGCC
1 GCAATAGTCATGCACTTTAGGAGCATTTTT-T-ATAAACACA
** * * *
361365 GCAATAGTCATGCACTTTAGTG-GTGTTTTTACAGTAAACGCC
1 GCAATAGTCATGCACTTTAG-GAGCATTTTT-TA-TAAACACA
* *
361407 GCAATAATCATGCACTTTAACG-GCATTTTTTATAAACA-A
1 GCAATAGTCATGCACTTT-AGGAGCATTTTTTATAAACACA
* * * *
361446 TGTAATAATCATGCACTTTAGCATCATTTTTT
1 -GCAATAGTCATGCACTTTAGGAGCATTTTTT
361478 TAATAAACGT
Statistics
Matches: 127, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
39 1 0.01
40 56 0.44
41 3 0.02
42 66 0.52
43 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (40 bp):
GCAATAGTCATGCACTTTAGGAGCATTTTTTATAAACACA
Found at i:361373 original size:42 final size:40
Alignment explanation
Indices: 361282--361425 Score: 171
Period size: 42 Copynumber: 3.5 Consensus size: 40
361272 TAAAAAATGT
* ** *
361282 CGCAATAGTCATGCACTTTAGGAGCATTTTTTATAAACAC
1 CGCAATAGTCATGCACTTTAGTAGTGTTTTTTATAAACGC
**
361322 AACAATAGTCATGCACTTTAGTAGTGTTTTTGTGATAAACGC
1 CGCAATAGTCATGCACTTTAGTAGTGTTTTT-T-ATAAACGC
* *
361364 CGCAATAGTCATGCACTTTAGTGGTGTTTTTACAGTAAACGC
1 CGCAATAGTCATGCACTTTAGTAGTGTTTTT-TA-TAAACGC
*
361406 CGCAATAATCATGCACTTTA
1 CGCAATAGTCATGCACTTTA
361426 ACGGCATTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 26 0.29
41 2 0.02
42 61 0.69
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (40 bp):
CGCAATAGTCATGCACTTTAGTAGTGTTTTTTATAAACGC
Found at i:361502 original size:124 final size:124
Alignment explanation
Indices: 361282--361508 Score: 280
Period size: 124 Copynumber: 1.8 Consensus size: 124
361272 TAAAAAATGT
* * * *
361282 CGCAATAGTCATGCACTTTAGGAGCATTTTTTATAAACACAACAATAGTCATGCACTTTAGTAGT
1 CGCAATAATCATGCACTTTACGAGCATTTTTTATAAACACAACAATAATCATGCACTTTAGCAGT
* * * *
361347 GTTTTTGTGATAAACGCCGCAATAGTCATGCACTTTAGTGGTGTTTTTACAGTAAACGC
66 ATTTTTGTAATAAACGCCACAATAGTCATGCACATTAGTGGTGTTTTTACAGTAAACGC
**
361406 CGCAATAATCATGCACTTTAACG-GCATTTTTTATAAACA-ATGTAATAATCATGCACTTTAGCA
1 CGCAATAATCATGCACTTT-ACGAGCATTTTTTATAAACACA-ACAATAATCATGCACTTTAGCA
* * **
361469 -TCATTTTTTTAATAAACGTCATTATAGTCATGCACATTAG
64 GT-ATTTTTGTAATAAACGCCACAATAGTCATGCACATTAG
361509 CGACATTTTT
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
123 2 0.02
124 82 0.95
125 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (124 bp):
CGCAATAATCATGCACTTTACGAGCATTTTTTATAAACACAACAATAATCATGCACTTTAGCAGT
ATTTTTGTAATAAACGCCACAATAGTCATGCACATTAGTGGTGTTTTTACAGTAAACGC
Found at i:361518 original size:124 final size:124
Alignment explanation
Indices: 361282--361535 Score: 271
Period size: 124 Copynumber: 2.0 Consensus size: 124
361272 TAAAAAATGT
* * * *
361282 CGCAATAGTCATGCACTTTAGGAGCATTTTTTATAAACACAACAATAGTCATGCACTTTAGTAGT
1 CGCAATAATCATGCACTTTACGAGCATTTTTTATAAACACAACAATAATCATGCACTTTAGCAGT
* * * * * *** *
361347 GTTTTTGTGATAAACGCCGCAATAGTCATGCACTTTAGTGGTGTTTTTACAGTAAACGC
66 ATTTTTGTAATAAACGCCACAATAGTCATGCACATTAGCGACATTTTTACAATAAACGC
**
361406 CGCAATAATCATGCACTTTAACG-GCATTTTTTATAAACA-ATGTAATAATCATGCACTTTAGCA
1 CGCAATAATCATGCACTTT-ACGAGCATTTTTTATAAACACA-ACAATAATCATGCACTTTAGCA
* * ** **
361469 -TCATTTTTTTAATAAACGTCATTATAGTCATGCACATTAGCGACATTTTTGTAATAAACGC
64 GT-ATTTTTGTAATAAACGCCACAATAGTCATGCACATTAGCGACATTTTTACAATAAACGC
361530 CGCAAT
1 CGCAAT
361536 TGTACAATCC
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
123 2 0.02
124 102 0.96
125 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (124 bp):
CGCAATAATCATGCACTTTACGAGCATTTTTTATAAACACAACAATAATCATGCACTTTAGCAGT
ATTTTTGTAATAAACGCCACAATAGTCATGCACATTAGCGACATTTTTACAATAAACGC
Found at i:362032 original size:22 final size:24
Alignment explanation
Indices: 362004--362047 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
361994 GAAGCTCCCG
*
362004 ATATATTACAA-G-TTCTCCTTGA
1 ATATATTAAAATGCTTCTCCTTGA
362026 ATATATTAAAATGCTTCTCCTT
1 ATATATTAAAATGCTTCTCCTT
362048 CTCCGATTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (24 bp):
ATATATTAAAATGCTTCTCCTTGA
Found at i:362587 original size:45 final size:46
Alignment explanation
Indices: 362532--362626 Score: 183
Period size: 45 Copynumber: 2.1 Consensus size: 46
362522 AAATATCTAA
362532 TTTCCTTTTTTTTATCAGTTTTATTTTTTATTGCCAAATATATTAG
1 TTTCCTTTTTTTTATCAGTTTTATTTTTTATTGCCAAATATATTAG
362578 TTTCC-TTTTTTTATCAGTTTTATTTTTTATTGCCAAATATATTAG
1 TTTCCTTTTTTTTATCAGTTTTATTTTTTATTGCCAAATATATTAG
362623 TTTC
1 TTTC
362627 AAATATCTGC
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 44 0.90
46 5 0.10
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.61
Consensus pattern (46 bp):
TTTCCTTTTTTTTATCAGTTTTATTTTTTATTGCCAAATATATTAG
Found at i:365668 original size:8 final size:8
Alignment explanation
Indices: 365635--365683 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
365625 CCTCTTGTTC
365635 TTATATAA
1 TTATATAA
365643 TTA-ATAAA
1 TTATAT-AA
*
365651 TATGTATAA
1 T-TATATAA
365660 TTATATAA
1 TTATATAA
365668 TTATATAA
1 TTATATAA
365676 TTA-ATAA
1 TTATATAA
365683 T
1 T
365684 AATTTTGGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
7 7 0.19
8 23 0.64
9 4 0.11
10 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (8 bp):
TTATATAA
Found at i:370426 original size:17 final size:19
Alignment explanation
Indices: 370397--370434 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
370387 AATCCTTTAA
370397 TTTTATTACTTTATGT-TT
1 TTTTATTACTTTATGTATT
370415 TTTTATTA-TTTATGTATT
1 TTTTATTACTTTATGTATT
370433 TT
1 TT
370435 ATTTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTATTACTTTATGTATT
Found at i:383386 original size:105 final size:105
Alignment explanation
Indices: 383202--383907 Score: 975
Period size: 105 Copynumber: 6.9 Consensus size: 105
383192 AACAATTTTG
* * * * * *
383202 ATCCACCACAGAAGGAGATGAACCAATATTTTCAGAAGAGTTCATAATGAAAAGAACTCGTCATA
1 ATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
383267 AAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
66 AAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
*
383307 ACCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
1 ATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
383372 AAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
66 AAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
* **
383412 ATCCACCGCAGAAGTA-GTGAACCAACATTTATAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
1 ATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCT-
* *
383476 AAAGGA-AAAGTTTATAATGAGAATAACTTGTTCCTTTCAA
65 AAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
* * *
383516 ATCCACCACAGAAAGAGGTGAACCAACATTTCCAGAAGAGTTCAAAATGAGAA-AACTCGTCCTA
1 ATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
383580 AAGGAGAAAGTTCATAATGAGAAGAACGTT-TTCCTTTCAA
66 AAGGAGAAAGTTCATAATGAGAAGAAC-TTGTTCCTTTCAA
* * * *
383620 ATCCACCGCAAAAGGAGGTGAACCAATATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGA
1 ATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
* *
383685 AATGAGAAAGTTCATAATGAGAAGAATTTGTTCCTTTCAA
66 AAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
* * * **
383725 ATCCACCGGAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCGTAATGAAAAGAACTCACCCTA
1 ATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
383790 AAGGAGAAAGTTCATAATGAGAAGAA-TT-TTCCTTTCAA
66 AAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
* * **
383828 ATCCA-C-C------------ACCAACATTTCCAGAAGAGTTCGTAATGAAAAGAACTCACCCTA
1 ATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
*
383879 AAAGAGAAAGTTCATAATGAGAAGAACTT
66 AAGGAGAAAGTTCATAATGAGAAGAACTT
383908 TCTCAACTTT
Statistics
Matches: 554, Mismatches: 40, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
89 69 0.12
90 2 0.00
102 1 0.00
103 21 0.04
104 181 0.33
105 280 0.51
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.23
Consensus pattern (105 bp):
ATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
AAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
Found at i:383643 original size:209 final size:208
Alignment explanation
Indices: 383202--383834 Score: 977
Period size: 209 Copynumber: 3.0 Consensus size: 208
383192 AACAATTTTG
* * * *
383202 ATCCACCACAGAAGGAGATGAACCAATATTTTCAGAAGAGTTCATAATGAAAAGAACTCGTCATA
1 ATCCACCGCAGAAGGAGGTGAACCAATATTTT-AGAAGAGTTCATAATGAGAAGAACTCGTCCTA
*
383267 AAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAACCCACCGCAGAAGGAGGTGAACCA
65 AAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATCCACCGCAGAAGGAGGTGAACCA
383332 ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGA
130 ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGA
383397 ACTTGTTCCTTTCAA
195 ACTT-TTCCTTTCAA
* *
383412 ATCCACCGCAGAAGTA-GTGAACCAACATTTATAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
1 ATCCACCGCAGAAGGAGGTGAACCAATATTT-TAGAAGAGTTCATAATGAGAAGAACTCGTCCT-
* * * *
383476 AAAGGA-AAAGTTTATAATGAGAATAACTTGTTCCTTTCAAATCCACCACAGAAAGAGGTGAACC
64 AAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATCCACCGCAGAAGGAGGTGAACC
*
383540 AACATTTCCAGAAGAGTTCAAAATGAGAA-AACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAG
129 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAG
383604 AACGTTTTCCTTTCAA
194 AAC-TTTTCCTTTCAA
* * * *
383620 ATCCACCGCAAAAGGAGGTGAACCAATATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCGA
1 ATCCACCGCAGAAGGAGGTGAACCAATATTT-TAGAAGAGTTCATAATGAGAAGAACTCGTCCTA
* * *
383685 AATGAGAAAGTTCATAATGAGAAGAATTTGTTCCTTTCAAATCCACCGGAGAAGGAGGTGAACCA
65 AAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATCCACCGCAGAAGGAGGTGAACCA
* * **
383750 ACATTTCCAGAAGAGTTCGTAATGAAAAGAACTCACCCTAAAGGAGAAAGTTCATAATGAGAAGA
130 ACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGA
383815 A-TTTTCCTTTCAA
195 ACTTTTCCTTTCAA
383828 ATCCACC
1 ATCCACC
383835 ACCAACATTT
Statistics
Matches: 386, Mismatches: 31, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
208 86 0.22
209 244 0.63
210 56 0.15
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (208 bp):
ATCCACCGCAGAAGGAGGTGAACCAATATTTTAGAAGAGTTCATAATGAGAAGAACTCGTCCTAA
AGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATCCACCGCAGAAGGAGGTGAACCAA
CATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAA
CTTTTCCTTTCAA
Found at i:383674 original size:16 final size:16
Alignment explanation
Indices: 383653--383709 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
383643 CAATATTTCC
383653 AGAAGAGTTCATAATG
1 AGAAGAGTTCATAATG
**
383669 AGAAGAACTCATCCGAAATG
1 AGAAGAGTTCAT----AATG
383689 AGAA-AGTTCATAATG
1 AGAAGAGTTCATAATG
383704 AGAAGA
1 AGAAGA
383710 ATTTGTTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 8 0.25
16 11 0.34
19 5 0.16
20 8 0.25
ACGTcount: A:0.47, C:0.11, G:0.23, T:0.19
Consensus pattern (16 bp):
AGAAGAGTTCATAATG
Found at i:383851 original size:89 final size:89
Alignment explanation
Indices: 383746--383909 Score: 310
Period size: 89 Copynumber: 1.8 Consensus size: 89
383736 AAGGAGGTGA
*
383746 ACCAACATTTCCAGAAGAGTTCGTAATGAAAAGAACTCACCCTAAAGGAGAAAGTTCATAATGAG
1 ACCAACATTTCCAGAAGAGTTCGTAATGAAAAGAACTCACCCTAAAAGAGAAAGTTCATAATGAG
*
383811 AAGAATTTTCCTTTCAAATCCACC
66 AAGAACTTTCCTTTCAAATCCACC
383835 ACCAACATTTCCAGAAGAGTTCGTAATGAAAAGAACTCACCCTAAAAGAGAAAGTTCATAATGAG
1 ACCAACATTTCCAGAAGAGTTCGTAATGAAAAGAACTCACCCTAAAAGAGAAAGTTCATAATGAG
383900 AAGAACTTTC
66 AAGAACTTTC
383910 TCAACTTTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (89 bp):
ACCAACATTTCCAGAAGAGTTCGTAATGAAAAGAACTCACCCTAAAAGAGAAAGTTCATAATGAG
AAGAACTTTCCTTTCAAATCCACC
Found at i:383900 original size:209 final size:203
Alignment explanation
Indices: 383222--383907 Score: 774
Period size: 209 Copynumber: 3.4 Consensus size: 203
383212 GAAGGAGATG
* * * * *
383222 AACCAATATTTTCAGAAGAGTTCATAATGAAAAGAACTCGTCAT-AAAG----GAGAAAGTTCAT
1 AACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAAAAGAAATGAGAAAGTTCAT
*
383282 AATGAGAAGAACTTGTTCCTTTCAAACCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAG
66 AATGAGAAGAACTTGTTCCTTTCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAG
383347 TTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAA
131 TTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTT-TTCCTTTCAA
383412 ATCCACCGC
195 ATCCACCGC
** *
383421 AGAAGTAGTGAACCAACATTTATAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAAG----GA
1 ----------AACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAAAAGAAATGA
* * * *
383482 -AAAGTTTATAATGAGAATAACTTGTTCCTTTCAAATCCACCACAGAAAGAGGTGAACCAACATT
56 GAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATCCACCGCAGAAGGAGGTGAACCAACATT
*
383546 TCCAGAAGAGTTCAAAATGAGAA-AACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACGTT
121 TCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAAC-TT
383610 TTCCTTTCAAATCCACCGC
185 TTCCTTTCAAATCCACCGC
*
383629 AAAAGGAGGTGAACCAATATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCC-----GAAATG
1 -----------AACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAAAAGAAATG
* *
383689 AGAAAGTTCATAATGAGAAGAATTTGTTCCTTTCAAATCCACCGGAGAAGGAGGTGAACCAACAT
55 AGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAATCCACCGCAGAAGGAGGTGAACCAACAT
* * **
383754 TTCCAGAAGAGTTCGTAATGAAAAGAACTCACCCTAAAGGAGAAAGTTCATAATGAGAAGAA-TT
120 TTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTT
383818 TTCCTTTCAAATCCA-C-C
185 TTCCTTTCAAATCCACCGC
* * *
383835 -ACCAACATTTCCAGAAGAGTTCGTAATGAAAAGAACTCACCCT---A-AAA-GAGAAAGTTCAT
1 AACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAAAAGAAATGAGAAAGTTCAT
383894 AATGAGAAGAACTT
66 AATGAGAAGAACTT
383908 TCTCAACTTT
Statistics
Matches: 431, Mismatches: 35, Indels: 37
0.86 0.07 0.07
Matches are distributed among these distances:
194 63 0.15
195 3 0.01
204 1 0.00
206 1 0.00
207 1 0.00
208 76 0.18
209 245 0.57
210 41 0.10
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (203 bp):
AACCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCCTAAAAGAAATGAGAAAGTTCAT
AATGAGAAGAACTTGTTCCTTTCAAATCCACCGCAGAAGGAGGTGAACCAACATTTCCAGAAGAG
TTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAACTTTTCCTTTCAAA
TCCACCGC
Found at i:384200 original size:91 final size:91
Alignment explanation
Indices: 384032--384480 Score: 639
Period size: 91 Copynumber: 4.9 Consensus size: 91
384022 AATGAGAAGA
* * * *
384032 ATCAACATTTCCAGTGGAGAGTTCATAATTAGAAGAACTCATCCGATGAGGAAAAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCAT
*
384097 AATGAGAAGAACTTGTTCAAACTTGC
66 AATGAGAAGAACTTGTTCAACCTTGC
* * * * *
384123 ATTAACAGTTCCAGCGGAGATTTCATTATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCAT
*
384188 AATGAGATGAACTTGTTCAACCTTGC
66 AATGAGAAGAACTTGTTCAACCTTGC
* * * *
384214 ATCAACATTTTCAGTGGAAAGTTGATAATGAGAATAACTCATCCAACGAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCAT
*
384279 AATGATG-AGAATTTGTTCAACCTTGC
66 AATGA-GAAGAACTTGTTCAACCTTGC
* *
384305 ATCAACATTTTCAGTGGAAAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCAT
* *
384370 AATGAGAAGAATTTGTTCAACCTTGT
66 AATGAGAAGAACTTGTTCAACCTTGC
* * * ** * *
384396 ATCAGCATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATCCAACAAAAAATAAGAATTTCAT
1 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCAT
384461 AATGAGAAGAACTTGTTCAA
66 AATGAGAAGAACTTGTTCAA
384481 TCCAACACTT
Statistics
Matches: 321, Mismatches: 35, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
90 1 0.00
91 319 0.99
92 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (91 bp):
ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTGC
Found at i:414125 original size:17 final size:16
Alignment explanation
Indices: 414095--414129 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
414085 AGGGAGTATC
*
414095 AGTACGATAGTATAGT
1 AGTACGATACTATAGT
414111 AGTACTGATACTATAGT
1 AGTAC-GATACTATAGT
414128 AG
1 AG
414130 GGGTATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (16 bp):
AGTACGATACTATAGT
Found at i:414603 original size:45 final size:45
Alignment explanation
Indices: 414569--414850 Score: 334
Period size: 45 Copynumber: 6.2 Consensus size: 45
414559 CATACAGGTG
*
414569 CATTATCAGCATGAAATG-ATGCTATAGTTGAAATGTATATGGGTA
1 CATTATCAACA-GAAATGTATGCTATAGTTGAAATGTATATGGGTA
**
414614 CATTATCAACAGAAAAATATGCTATAGTTGAAATGTATATGGGTA
1 CATTATCAACAGAAATGTATGCTATAGTTGAAATGTATATGGGTA
* *
414659 CATTATCAACAGAAAAGTATGCAATAGTTGAAATGTATATGGGTA
1 CATTATCAACAGAAATGTATGCTATAGTTGAAATGTATATGGGTA
* * * *
414704 CATTATTAACAGTAAA-GTATACTATAGTTGAAATATTTATGGGTA
1 CATTATCAACAG-AAATGTATGCTATAGTTGAAATGTATATGGGTA
* * * *
414749 CATTATCAACAGAAAAGTATGCTATTGTTGAAATGCATATGGGTG
1 CATTATCAACAGAAATGTATGCTATAGTTGAAATGTATATGGGTA
* ** ** * * *
414794 CATTATCAACATTAAAAATATATTATAATTGAAATGCATATGGGTG
1 CATTATCAACA-GAAATGTATGCTATAGTTGAAATGTATATGGGTA
414840 CATTATCAACA
1 CATTATCAACA
414851 TCAAAAATAT
Statistics
Matches: 210, Mismatches: 23, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
44 7 0.03
45 161 0.77
46 42 0.20
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.33
Consensus pattern (45 bp):
CATTATCAACAGAAATGTATGCTATAGTTGAAATGTATATGGGTA
Found at i:414707 original size:90 final size:90
Alignment explanation
Indices: 414569--414850 Score: 386
Period size: 90 Copynumber: 3.1 Consensus size: 90
414559 CATACAGGTG
* *
414569 CATTATCAGCATGAAATG-ATGCTATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAATA
1 CATTATCAACA-GAAAAGTATGCTATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAATA
*
414633 TGCTATAGTTGAAATGTATATGGGTA
65 TACTATAGTTGAAATGTATATGGGTA
* * * *
414659 CATTATCAACAGAAAAGTATGCAATAGTTGAAATGTATATGGGTACATTATTAACAGTAAAGTAT
1 CATTATCAACAGAAAAGTATGCTATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAATAT
* *
414724 ACTATAGTTGAAATATTTATGGGTA
66 ACTATAGTTGAAATGTATATGGGTA
* * * *
414749 CATTATCAACAGAAAAGTATGCTATTGTTGAAATGCATATGGGTGCATTATCAACATTAAAAATA
1 CATTATCAACAGAAAAGTATGCTATAGTTGAAATGTATATGGGTACATTATCAACA-GAAAAATA
* * * *
414814 TATTATAATTGAAATGCATATGGGTG
65 TACTATAGTTGAAATGTATATGGGTA
414840 CATTATCAACA
1 CATTATCAACA
414851 TCAAAAATAT
Statistics
Matches: 167, Mismatches: 23, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
89 5 0.03
90 126 0.75
91 36 0.22
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.33
Consensus pattern (90 bp):
CATTATCAACAGAAAAGTATGCTATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAATAT
ACTATAGTTGAAATGTATATGGGTA
Found at i:414870 original size:90 final size:90
Alignment explanation
Indices: 414596--414895 Score: 340
Period size: 90 Copynumber: 3.3 Consensus size: 90
414586 GATGCTATAG
* * *
414596 TTGAAATGTATATGGGTACATTATCAACA-GAAAAATATGCTATAGTTGAAATGTATATGGGTAC
1 TTGAAATGCATATGGGTACATTATCAACATTAAAAATATACTATAGTTGAAATGTATATGGGTAC
*
414660 ATTATCAACAGAAAAGTATGCAAT-A
66 ATTATCAACAGAAAAGTAT-CTATGA
* * * * * *
414685 GTTGAAATGTATATGGGTACATTATTAACAGT-AAAGTATACTATAGTTGAAATATTTATGGGTA
1 -TTGAAATGCATATGGGTACATTATCAACATTAAAAATATACTATAGTTGAAATGTATATGGGTA
414749 CATTATCAACAGAAAAGTATGCTATTG-
65 CATTATCAACAGAAAAGTAT-CTA-TGA
* * * * *
414776 TTGAAATGCATATGGGTGCATTATCAACATTAAAAATATATTATAATTGAAATGCATATGGGTGC
1 TTGAAATGCATATGGGTACATTATCAACATTAAAAATATACTATAGTTGAAATGTATATGGGTAC
* *
414841 ATTATCAACATCAAAAATAT-TATGA
66 ATTATCAACA-GAAAAGTATCTATGA
* * *
414866 TTGAAATACATATGGGTGCATTATTAACAT
1 TTGAAATGCATATGGGTACATTATCAACAT
414896 AAAGGTATGT
Statistics
Matches: 182, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
89 2 0.01
90 136 0.75
91 37 0.20
92 7 0.04
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (90 bp):
TTGAAATGCATATGGGTACATTATCAACATTAAAAATATACTATAGTTGAAATGTATATGGGTAC
ATTATCAACAGAAAAGTATCTATGA
Found at i:414904 original size:135 final size:135
Alignment explanation
Indices: 414590--414909 Score: 385
Period size: 135 Copynumber: 2.4 Consensus size: 135
414580 TGAAATGATG
* * *
414590 CTATAGTTGAAATGTATATGGGTACATTATCAACAGAAAAATATGCTATAGTTGAAATGTATATG
1 CTATAGTTGAAATATATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATG
* * * * *
414655 GGTACATTATCAACAGAAAAGTATGCAATAGTTGAAATGTATATGGGTACATTATTAACAGTAAA
66 GGTACATTATCAACAGAAAAATATACAATAATTGAAATGCATATGGGTACATTATCAACAGTAAA
*
414720 GTATA
131 GAATA
* *
414725 CTATAGTTGAAATATTTATGGGTACATTATCAACAGAAAAGTATGCTATTGTTGAAATGCATATG
1 CTATAGTTGAAATATATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATG
* * ** *
414790 GGTGCATTATCAACATTAAAAATATATTATAATTGAAATGCATATGGGTGCATTATCAACA-TCA
66 GGTACATTATCAACA-GAAAAATATACAATAATTGAAATGCATATGGGTACATTATCAACAGT-A
414854 AA-AATA
129 AAGAATA
* * * * * * *
414860 TTAT-GATTGAAATACATATGGGTGCATTATTAACATAAAGGTATGTTATA
1 CTATAG-TTGAAATATATATGGGTACATTATCAACAGAAAAGTATGCTATA
414910 AATAAAAGTG
Statistics
Matches: 157, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
134 1 0.01
135 117 0.75
136 39 0.25
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (135 bp):
CTATAGTTGAAATATATATGGGTACATTATCAACAGAAAAGTATGCTATAGTTGAAATGCATATG
GGTACATTATCAACAGAAAAATATACAATAATTGAAATGCATATGGGTACATTATCAACAGTAAA
GAATA
Found at i:417320 original size:13 final size:13
Alignment explanation
Indices: 417302--417327 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
417292 CATTCTAATA
417302 ATTTTAAAAAATT
1 ATTTTAAAAAATT
417315 ATTTTAAAAAATT
1 ATTTTAAAAAATT
417328 TAAAAATTAT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTAAAAAATT
Found at i:422612 original size:9 final size:9
Alignment explanation
Indices: 422600--422637 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
422590 TAACTAAATG
422600 TTTTTATAA
1 TTTTTATAA
422609 TTTTTATAA
1 TTTTTATAA
422618 TTTTTTATAA
1 -TTTTTATAA
422628 TTTTT-TAA
1 TTTTTATAA
422636 TT
1 TT
422638 AGATTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 5 0.18
9 14 0.50
10 9 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTATAA
Found at i:422622 original size:10 final size:10
Alignment explanation
Indices: 422600--422634 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
422590 TAACTAAATG
422600 TTTTTATAA-
1 TTTTTATAAT
422609 TTTTTATAAT
1 TTTTTATAAT
422619 TTTTTATAAT
1 TTTTTATAAT
422629 TTTTTA
1 TTTTTA
422635 ATTAGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:422624 original size:19 final size:18
Alignment explanation
Indices: 422600--422637 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
422590 TAACTAAATG
422600 TTTTTATAATTTTTATAAT
1 TTTTTATAATTTTT-TAAT
422619 TTTTTATAATTTTTTAAT
1 TTTTTATAATTTTTTAAT
422637 T
1 T
422638 AGATTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTATAATTTTTTAAT
Found at i:423298 original size:22 final size:20
Alignment explanation
Indices: 423260--423313 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
423250 ACTTTTATAA
* *
423260 ATTTTTAATCAATGTGAAAT
1 ATTTTTATTAAATGTGAAAT
*
423280 GATTTTTATTAAATCGTGATAT
1 -ATTTTTATTAAAT-GTGAAAT
*
423302 TTTTTTATTAAA
1 ATTTTTATTAAA
423314 CTATGGTGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (20 bp):
ATTTTTATTAAATGTGAAAT
Done.