Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 2 of 290
Found at i:424526 original size:15 final size:15
Alignment explanation
Indices: 424488--424565 Score: 54
Period size: 15 Copynumber: 5.0 Consensus size: 15
424478 TAGGTGGCGG
*
424488 GGTGATGGTGGAGGT
1 GGTGGTGGTGGAGGT
*
424503 -G-GG-GATGGAGGT
1 GGTGGTGGTGGAGGT
424515 GGTGGTGGTGGAGAGTAAACT
1 GGTGGTGGTGGAG-G-----T
*
424536 GGTGGTGGTGGTGGT
1 GGTGGTGGTGGAGGT
424551 GGTGGTGGTGGAGGT
1 GGTGGTGGTGGAGGT
424566 CGAGGTGAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
12 8 0.16
13 2 0.04
14 3 0.06
15 21 0.43
16 1 0.02
20 1 0.02
21 13 0.27
ACGTcount: A:0.13, C:0.01, G:0.60, T:0.26
Consensus pattern (15 bp):
GGTGGTGGTGGAGGT
Found at i:424541 original size:3 final size:3
Alignment explanation
Indices: 424535--424561 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
424525 GAGAGTAAAC
424535 TGG TGG TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG
424562 AGGTCGAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:424546 original size:42 final size:42
Alignment explanation
Indices: 424494--424656 Score: 139
Period size: 42 Copynumber: 3.8 Consensus size: 42
424484 GCGGGGTGAT
* *
424494 GGTGGAGGTGG-GGATGGAGGTGGTGGTGGTGGAGAGTAAACT
1 GGTGGAGGTGGAGG-TGGAGGTGGTGGAGGTGGAGAGTAAACA
* * * * *
424536 GGTGGTGGTGGTGGTGGTGGTGGTGGAGGTCGAGGTGAATAAACA
1 GGTGGAGGTGGAGGTGGAGGTGGTGGAGGT---GGAGAGTAAACA
* * * * *
424581 GGTGGAGGTGGAGATGGTGGCGGTGGAGGAGGAGAGTACACA
1 GGTGGAGGTGGAGGTGGAGGTGGTGGAGGTGGAGAGTAAACA
* * * *
424623 GGTGGCGGCGGAGGTGGAGGTGGTGAAGGGGGAG
1 GGTGGAGGTGGAGGTGGAGGTGGTGGAGGTGGAG
424657 GGGGAGAGTA
Statistics
Matches: 96, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 60 0.62
43 2 0.02
45 34 0.35
ACGTcount: A:0.19, C:0.05, G:0.58, T:0.18
Consensus pattern (42 bp):
GGTGGAGGTGGAGGTGGAGGTGGTGGAGGTGGAGAGTAAACA
Found at i:424561 original size:45 final size:45
Alignment explanation
Indices: 424493--424609 Score: 110
Period size: 45 Copynumber: 2.6 Consensus size: 45
424483 GGCGGGGTGA
* * * * * *
424493 TGGTGGAGGTGG-GGATGGAGGTGGTGGTGGTGGAGAGTAAACTGG
1 TGGTGGTGGTGGTGG-TGGAGGTGGAGGTCGAGGAGAATAAACAGG
* *
424538 TGGTGGTGGTGGTGGTGGTGGTGGAGGTCGAGGTGAATAAACAGG
1 TGGTGGTGGTGGTGGTGGAGGTGGAGGTCGAGGAGAATAAACAGG
* * * *
424583 TGGAGGTGGAGATGGTGGCGGTGGAGG
1 TGGTGGTGGTGGTGGTGGAGGTGGAGG
424610 AGGAGAGTAC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 57 0.97
46 2 0.03
ACGTcount: A:0.17, C:0.03, G:0.57, T:0.22
Consensus pattern (45 bp):
TGGTGGTGGTGGTGGTGGAGGTGGAGGTCGAGGAGAATAAACAGG
Found at i:424614 original size:27 final size:26
Alignment explanation
Indices: 424584--424645 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
424574 ATAAACAGGT
* *
424584 GGAGGTGGAGATGGTGGCGGTGGAGGA
1 GGAGGTGGACA-GGTGGCGGCGGAGGA
** *
424611 GGAGAGTACACAGGTGGCGGCGGAGGT
1 GGAG-GTGGACAGGTGGCGGCGGAGGA
424638 GGAGGTGG
1 GGAGGTGG
424646 TGAAGGGGGA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
26 2 0.07
27 21 0.78
28 4 0.15
ACGTcount: A:0.19, C:0.08, G:0.60, T:0.13
Consensus pattern (26 bp):
GGAGGTGGACAGGTGGCGGCGGAGGA
Found at i:438896 original size:31 final size:31
Alignment explanation
Indices: 438855--438933 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
438845 TTAATATAGT
* *
438855 ATTTGTTACATGAGTTTAGCTTCAATGTTCA
1 ATTTGGTACATGAGTTTAGCTTCAATATTCA
* * *
438886 ATTTGGTACATGAGATTGGTTTCAATATTCA
1 ATTTGGTACATGAGTTTAGCTTCAATATTCA
*
438917 AATTGGTA-ATTGAGTTT
1 ATTTGGTACA-TGAGTTT
438934 TTCCAATTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (31 bp):
ATTTGGTACATGAGTTTAGCTTCAATATTCA
Found at i:441999 original size:19 final size:20
Alignment explanation
Indices: 441977--442021 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
441967 GATACATGAG
441977 TAAAAATTC-TTATAAA-AAA
1 TAAAAATTCTTTA-AAATAAA
*
441996 TAAAACTTCTTTAAAATAAA
1 TAAAAATTCTTTAAAATAAA
442016 TAAAAA
1 TAAAAA
442022 GTTTTATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAAATTCTTTAAAATAAA
Found at i:442314 original size:18 final size:19
Alignment explanation
Indices: 442293--442329 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
442283 GCTTATAATG
*
442293 TTTTTGAATATT-TATAAC
1 TTTTAGAATATTATATAAC
442311 TTTTAGAATATTATATAAC
1 TTTTAGAATATTATATAAC
442330 GGATTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTAGAATATTATATAAC
Found at i:443136 original size:16 final size:16
Alignment explanation
Indices: 443117--443162 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
443107 TTTAAGTTCG
443117 AATCATTTTAAATTTT
1 AATCATTTTAAATTTT
* *
443133 AATCACTTTAAAATTT
1 AATCATTTTAAATTTT
* *
443149 AATAATTTCAAATT
1 AATCATTTTAAATT
443163 ATTTGTCCCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (16 bp):
AATCATTTTAAATTTT
Found at i:448618 original size:132 final size:131
Alignment explanation
Indices: 448225--448620 Score: 433
Period size: 132 Copynumber: 3.0 Consensus size: 131
448215 GCTCACCCAA
* * * ** **
448225 TAAATTTGTCACTTCTTCAGGCAATCTCATGTACTCATACTCTCGACTAAGTTGGGAGATAAAAC
1 TAAATTTGTCGCTTCTTTAGGTAGCCTCATGTACTCAGGCTCTCGACTAAGTTGGGAGATAAAAC
* * * * *
448290 CTCGGCCCAATTGGGGATAATGCT-GAAAGTGTTGAGGGGTTTGTCGACTTTGGGTAGATGACAC
66 CTCGGCCCGATTGGGGATAATACTGGACA-TGTTGAGGGGTCT-TCGGCTTTGGGTAGATGACAC
448354 TTC
129 TTC
* * * * *
448357 TAAATCTGTCGCTTC-TTCGCGTAGCCTCGTGTACTCTGGCTCTCGACTAAGTCGGGAGATAAAA
1 TAAATTTGTCGCTTCTTTAG-GTAGCCTCATGTACTCAGGCTCTCGACTAAGTTGGGAGATAAAA
* * * *
448421 CCTCGGCCCGATCGAGGACAATACTGGACATGTTGAGGGGCTCGTT-GG-TTCTGGGTAGATAAC
65 CCTCGGCCCGATTGGGGATAATACTGGACATGTTGAGGGG-TC-TTCGGCTT-TGGGTAGATGAC
448484 ACTTC
127 ACTTC
* * *
448489 TAAATTTGTCGCTTCTTTAGGTAGCCTCATGTACTCGGGCTCCCGATTAAGTTGGGAGATAAAAC
1 TAAATTTGTCGCTTCTTTAGGTAGCCTCATGTACTCAGGCTCTCGACTAAGTTGGGAGATAAAAC
** * *
448554 CTCGGCTTGATTGGGGATAATATTGGACATGTTGAGGGGTCTATCGGCTTTGGGCA-ACTGACAC
66 CTCGGCCCGATTGGGGATAATACTGGACATGTTGAGGGGTCT-TCGGCTTTGGGTAGA-TGACAC
448618 TTC
129 TTC
448621 AAAAACTTTT
Statistics
Matches: 218, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
130 1 0.00
131 8 0.04
132 198 0.91
133 10 0.05
134 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (131 bp):
TAAATTTGTCGCTTCTTTAGGTAGCCTCATGTACTCAGGCTCTCGACTAAGTTGGGAGATAAAAC
CTCGGCCCGATTGGGGATAATACTGGACATGTTGAGGGGTCTTCGGCTTTGGGTAGATGACACTT
C
Found at i:449735 original size:102 final size:102
Alignment explanation
Indices: 449617--449897 Score: 510
Period size: 102 Copynumber: 2.8 Consensus size: 102
449607 TGTATGTCTG
*
449617 TATGTATGTACAAACCTCGTTTCTATGGTGGAAAATTGCTTGTATTAACACGAACTACTTCTATA
1 TATGTATGTACAAACCTCGTTTCTATGGTGGAAAATTGCTTGTATTAACACGAACTACTTCTGTA
449682 CGAGTGGTGAAATACTCTATGTATGCATGCATGCATA
66 CGAGTGGTGAAATACTCTATGTATGCATGCATGCATA
*
449719 TATGTATGCACAAACCTCGTTTCTATGGTGGAAAATTGCTTGTATTAACACGAACTACTTCTGTA
1 TATGTATGTACAAACCTCGTTTCTATGGTGGAAAATTGCTTGTATTAACACGAACTACTTCTGTA
*
449784 CGAGTGGTGAGATACTCTATGTATGCATGCATGCATA
66 CGAGTGGTGAAATACTCTATGTATGCATGCATGCATA
* *
449821 TATGTATGTACAAACCTCGTTTCTATAGTGGAAAATTGCTTGTATT-ACACGAACTACATCTGTA
1 TATGTATGTACAAACCTCGTTTCTATGGTGGAAAATTGCTTGTATTAACACGAACTACTTCTGTA
449885 CGAGTGGTGAAAT
66 CGAGTGGTGAAAT
449898 GTTTTAAACC
Statistics
Matches: 172, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
101 29 0.17
102 143 0.83
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (102 bp):
TATGTATGTACAAACCTCGTTTCTATGGTGGAAAATTGCTTGTATTAACACGAACTACTTCTGTA
CGAGTGGTGAAATACTCTATGTATGCATGCATGCATA
Found at i:453649 original size:26 final size:27
Alignment explanation
Indices: 453595--453648 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
453585 TTAACTAAGA
453595 TAACATTTTTAGCTAAAAAGTAGATTT
1 TAACATTTTTAGCTAAAAAGTAGATTT
453622 TAACATTTTTAGCTAAAAAGTAGATTT
1 TAACATTTTTAGCTAAAAAGTAGATTT
453649 AGGATTGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (27 bp):
TAACATTTTTAGCTAAAAAGTAGATTT
Found at i:456201 original size:9 final size:9
Alignment explanation
Indices: 456157--456212 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
456147 GAAGGAAGAG
456157 GATGATGAC
1 GATGATGAC
*
456166 GACGATGAC
1 GATGATGAC
456175 GATGATGAC
1 GATGATGAC
*
456184 GA-GACTGAT
1 GATGA-TGAC
*
456193 GATGATGAT
1 GATGATGAC
*
456202 GATGGTGAC
1 GATGATGAC
456211 GA
1 GA
456213 CAATGGCGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
8 2 0.05
9 36 0.90
10 2 0.05
ACGTcount: A:0.32, C:0.11, G:0.36, T:0.21
Consensus pattern (9 bp):
GATGATGAC
Found at i:465405 original size:18 final size:18
Alignment explanation
Indices: 465374--465408 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
465364 GGACAAAAAA
465374 AAACTTAAATACCAAATT
1 AAACTTAAATACCAAATT
465392 AAACATTAAA-ACCAAAT
1 AAAC-TTAAATACCAAAT
465409 ATAAGTAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (18 bp):
AAACTTAAATACCAAATT
Found at i:465608 original size:30 final size:30
Alignment explanation
Indices: 465552--465608 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
465542 AATATATTTA
* * *
465552 AAAATTTTAATTAAGCTCTCATAATTTTTG
1 AAAATTTCAATTAAGCCCTCAAAATTTTTG
465582 AAAATTTCAATT-AGACCCTCAAAATTT
1 AAAATTTCAATTAAG-CCCTCAAAATTT
465609 GATATCAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (30 bp):
AAAATTTCAATTAAGCCCTCAAAATTTTTG
Found at i:474815 original size:220 final size:219
Alignment explanation
Indices: 474420--475352 Score: 981
Period size: 220 Copynumber: 4.2 Consensus size: 219
474410 TGCCATCGTC
* * * *
474420 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC-ATCGTCGATCCA
1 GATCTGCTTTCTTCGATCTACTTC-CCACCAATATGGGAAGACAAGATCTGCTATCTTCGATCTA
* * * * * * *
474484 CTTC-CTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCA-CGCCAATACATGAA
65 CTTCAC-ACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAA
* **
474547 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC-ATCTTCG
129 GACAAGATCTGC-ATCTTCGATCTACTTCA-CACCAATACAGGAAGACAAGATCTGCTATCTTCG
* *
474611 ATCCACTTCACGCTAATGCAT-GAAGACAA
192 ATCTACTTCACGCCAAT--ATGGAAGACAA
* *
474640 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGGCAAGATCTGCTTTCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTC-CCACCAATATGGGAAGACAAGATCTGCTATCTTCGATCTA
* ** * *
474705 CTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAA
65 CTTC-ACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAA
* * * * * * * *
474768 AATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCAA
129 GACAAGATCTG-CATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGA
* *
474833 TCTACTTCGCCACCAATATGGGAAGACAA
193 TCTACTTC-ACGCCAATAT-GGAAGACAA
* * * * * * *
474862 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGACAAGATCTGCTATCTTCGATCTAC
* * * *
474926 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGA
66 TTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAAGA
** * * * *
474991 CAAGATCTGCATCTTCGATCTACTTCATGCTAATGCATGAAGACAAGATCTGCTTTCTTCGATCT
131 CAAGATCTGCATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCT
*
475056 ACTTTGC-CACCAATATGGGAAGACAA
196 AC-TT-CACGCCAATAT-GGAAGACAA
* * * * * * *
475082 GATCTGC-CTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGACAAGATCTGCTATCTTCGATCTAC
* * * * * *
475146 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGA
66 TTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAAGA
* * * * * *
475211 CAAGATCTGCCTCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGATATCTTCGATC
131 CAAGATCTGCATCTTCGATCTACTTCAC-ACCAATACAGGAAGACAAGATCTGCTATCTTCGATC
475275 TACTTCACGCCAATACAT-GAAGACAA
195 TACTTCACGCCAAT--ATGGAAGACAA
*
475301 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC
1 GATCTGCTTTCTTCGATCTACTTC-CCACCAATATGGGAAGACAAGATCTGC
475353 GTCGTCAATC
Statistics
Matches: 613, Mismatches: 81, Indels: 37
0.84 0.11 0.05
Matches are distributed among these distances:
218 1 0.00
219 45 0.07
220 388 0.63
221 136 0.22
222 42 0.07
223 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (219 bp):
GATCTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGACAAGATCTGCTATCTTCGATCTAC
TTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCAATATAGGAAGA
CAAGATCTGCATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTATCTTCGATCT
ACTTCACGCCAATATGGAAGACAA
Found at i:475079 original size:352 final size:353
Alignment explanation
Indices: 474429--475352 Score: 1310
Period size: 352 Copynumber: 2.6 Consensus size: 353
474419 CGATCGGCTT
* * *** * * * *
474429 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-CTAC
1 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCAC
* * * * * * * * * *
474492 CAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATC
65 CAATATGGGAAGACAAGATCTG-CATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATC
* * * *** * *
474556 TGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC
128 TGATATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC
* * * * *
474620 A-CGCTAATGCAT--GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGG
192 ACCACCAAT--ATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCGACACCAATAT-GGAAGA
474682 CAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
254 CAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
474747 CACTTCCTACCAATATAGGAAAATAGGATCTGATA
319 CACTTCCTACCAATATAGGAAAATAGGATCTGATA
*
474782 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACC
474847 AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGA
66 AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGA
474912 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCA
131 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCA
** *
474977 CCAATATGGGAAGACAAGATCTGC-ATCTTCGATCTACTTC-ATGCTAATGCAT-GAAGACAAGA
196 CCAATATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCGACACCAAT--ATGGAAGACAAGA
* *
475039 TCTGCTTTCTTCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCCTCTTCGATCCACTT
259 TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
*
475104 CCTACCAATATAGGAAGATAGGATCTGATA
324 CCTACCAATATAGGAAAATAGGATCTGATA
*
475134 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACC
1 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACC
*
475199 AATATGGGAAGACAAGATCTGCCTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGA
66 AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGA
* *
475264 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCA
131 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCA
475329 CCAATATGGGAAGACAAGATCTGC
196 CCAATATGGGAAGACAAGATCTGC
475353 GTCGTCAATC
Statistics
Matches: 518, Mismatches: 44, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
352 365 0.70
353 109 0.21
354 44 0.08
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (353 bp):
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACC
AATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGA
TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCA
CCAATATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCGACACCAATATGGAAGACAAGATC
TGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCC
TACCAATATAGGAAAATAGGATCTGATA
Found at i:475369 original size:132 final size:133
Alignment explanation
Indices: 474420--475352 Score: 1121
Period size: 132 Copynumber: 7.1 Consensus size: 133
474410 TGCCATCGTC
* * * *
474420 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
* * * * * * * * * ***
474485 TTC-CTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTC-ACGCCAATACATGAAG
66 TTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAG
474548 ACAA
130 ACAA
*
474552 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
* * *
474617 TTCACGCTAATGCATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGG
66 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
474682 CAA
131 CAA
* *
474685 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
* * * * * * * * * * ***
474750 TTC-CTACCAATATAGGAAAATAGGATCTGATATCTTCGATCTACTTC-ACGCCAATACATGAAG
66 TTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAG
474813 ACAA
130 ACAA
* * *
474817 GATCTGCTTTCTTCAATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
* * * * * * * * * ***
474882 TTC-CTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTC-ACGCCAATACATGAAG
66 TTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAG
474945 ACAA
130 ACAA
474949 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
* * * *
475014 TTCATGCTAATGCATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCACCAATATGGGAAGA
66 TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
475079 CAA
131 CAA
* * * * * * *
475082 GATCTGC-CTCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTG-CATCTTCGATCTA
*
475145 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAG
65 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAG
475210 ACAA
130 ACAA
* * * * * * *
475214 GATCTGC-CTCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTG-CATCTTCGATCTA
*
475277 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAG
65 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAG
475342 ACAA
130 ACAA
475346 GATCTGC
1 GATCTGC
475353 GTCGTCAATC
Statistics
Matches: 727, Mismatches: 68, Indels: 12
0.90 0.08 0.01
Matches are distributed among these distances:
131 22 0.03
132 569 0.78
133 136 0.19
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (133 bp):
GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
TTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
CAA
Found at i:475385 original size:88 final size:87
Alignment explanation
Indices: 474420--475412 Score: 930
Period size: 88 Copynumber: 11.3 Consensus size: 87
474410 TGCCATCGTC
* * * * * *
474420 GATCGGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTAC
* * *
474485 TTCCTACCAATATAGGAAGATAG
65 TTCCCACCAATATAGGAAGACAA
* * * * * *
474508 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTAC
*
474573 TTCACCACCAATATGGGAAGACAA
65 TTC-CCACCAATATAGGAAGACAA
* * * * ** * *
474597 GATCTGC-ATCTTCGATCCACTTCACGCTAATGCATGAAGACAAGATCTGCTTTCTTCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTAC
* *
474661 TTCGCCACCAATATGGGAAGGCAA
65 TTC-CCACCAATATAGGAAGACAA
* * *
474685 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTAC
* * * *
474750 TTCCTACCAATATAGGAAAATAG
65 TTCCCACCAATATAGGAAGACAA
* * * * * * *
474773 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCAATCTAC
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTAC
*
474838 TTCGCCACCAATATGGGAAGACAA
65 TTC-CCACCAATATAGGAAGACAA
* * * * *
474862 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTG-CATCTTCGATCTAC
* * * *
474926 TTCACGCCAATACATGAAGACAA
65 TTCCCACCAATATAGGAAGACAA
* *
474949 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
1 GATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTAC
*** * ** *
475014 TTCATGCTAATGCATGAAGACAA
65 TTCCCACCAATATAGGAAGACAA
* * * * *
475037 GATCTGCTTTCTTCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCCTCTTCGATCCAC
1 GATCTGCTATCTTCGATCTAC-TTCCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTAC
* * *
475102 TTCCTACCAATATAGGAAGATAG
65 TTCCCACCAATATAGGAAGACAA
* * * * * * *
475125 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTAC
*
475190 TTCGCCACCAATATGGGAAGACAA
65 TTC-CCACCAATATAGGAAGACAA
* * * * * *
475214 GATCTGC-CTCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTAC
1 GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTG-CATCTTCGATCTAC
* * * *
475278 TTCACGCCAATACATGAAGACAA
65 TTCCCACCAATATAGGAAGACAA
* * * * * * *
475301 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCAATCCAC
1 GATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTAC
* * * * *
475366 TTCCAATCATTATAGGAAGATAG
65 TTCCCACCAATATAGGAAGACAA
* * *
475389 GACCTGTTATCTTTGATCTACTTC
1 GATCTGCTATCTTCGATCTACTTC
475413 TTGCCCCGGG
Statistics
Matches: 739, Mismatches: 151, Indels: 30
0.80 0.16 0.03
Matches are distributed among these distances:
87 111 0.15
88 469 0.63
89 139 0.19
90 20 0.03
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (87 bp):
GATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACT
TCCCACCAATATAGGAAGACAA
Found at i:475640 original size:95 final size:95
Alignment explanation
Indices: 475527--475715 Score: 299
Period size: 95 Copynumber: 2.0 Consensus size: 95
475517 GATCTACAAT
*
475527 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTAACGACTTCAATGTACTCC-CATGT
1 CTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTAACGACTTCAATGTACTCCAC-TGT
475591 AGTCAGGGAAGTAAAATCTGCCATCTTTGAC
65 AGTCAGGGAAGTAAAATCTGCCATCTTTGAC
* * * *
475622 CTTCAATCTATTCCACTGCCAAATGCAGAGAGATAGAGTTATCGGCTTTAATGTACTCCACTGTA
1 CTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTAACGACTTCAATGTACTCCACTGTA
* *
475687 GTCAGGGAGGTAAAATCTTCCATCTTTGA
66 GTCAGGGAAGTAAAATCTGCCATCTTTGA
475716 TCTGCTTCGC
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
95 85 0.99
96 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (95 bp):
CTTCAATCTATTCCACTGCCAAATACAGAGAGATAGAGTTAACGACTTCAATGTACTCCACTGTA
GTCAGGGAAGTAAAATCTGCCATCTTTGAC
Found at i:475774 original size:134 final size:134
Alignment explanation
Indices: 475622--475988 Score: 617
Period size: 134 Copynumber: 2.7 Consensus size: 134
475612 CATCTTTGAC
* * * *
475622 CTTCAATCTATTCCACTGCCAAATGCAGAGAGATAGAGTTATCGGCTTTAATGTACTCCACTGTA
1 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
* * *
475687 GTCAGGGAGGTAAAATCTTCCATCTTTGATCTGCTTCGCTGTCAAATACAGGAAGGCAAGATCTG
66 GTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTG
*
475752 TAAT
131 CAAT
*
475756 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTG
1 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
475821 GTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTG
66 GTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTG
475886 CAAT
131 CAAT
475890 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
1 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
* *
475955 GTCACATGGAGGTAAAATCTGCCATCCTTGATCT
66 GT--CAGGGAGGTAAAATCTGCCATCTTTGATCT
475989 TCAATCTATT
Statistics
Matches: 219, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 191 0.87
136 28 0.13
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (134 bp):
CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
GTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTG
CAAT
Found at i:475782 original size:46 final size:46
Alignment explanation
Indices: 475729--475918 Score: 117
Period size: 46 Copynumber: 4.2 Consensus size: 46
475719 GCTTCGCTGT
*
475729 CAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGC
1 CAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
* * ** * *
475775 CAAATACAGGGA-G-ATAGAAT-TATC-GGCTTCAATGTACTCCACTG-
1 CAAATACAGGAAGGCA-AG-ATCT-GCAATCTTCAATCTATTCCACTGC
*** * * * * ** * *
475819 -TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CGCTGC
1 CAAATACAGGAAGGCAAGATCTGCAATCTTCAATCT-ATTCCACTGC
*
475863 CAAATACAGGAAAGCAAGATCTGCAATCTTCAATCTATTCCACTGC
1 CAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
475909 CAAATACAGG
1 CAAATACAGG
475919 GAGATAGAAT
Statistics
Matches: 100, Mismatches: 32, Indels: 24
0.64 0.21 0.15
Matches are distributed among these distances:
42 9 0.09
43 14 0.14
44 3 0.03
45 23 0.23
46 51 0.51
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (46 bp):
CAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
Found at i:475827 original size:229 final size:229
Alignment explanation
Indices: 475422--475849 Score: 696
Period size: 229 Copynumber: 1.9 Consensus size: 229
475412 CTTGCCCCGG
475422 GAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTCGA
1 GAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTCGA
*
475487 TCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAAATA
66 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAAATA
*
475552 CAGGGAGATAGAGTTAACGACTTCAATGTACTCCCATGTAGTCAGGGAAGTAAAATCTGCCATCT
131 CAGGGAGATAGAATTAACGACTTCAATGTACTCCCATGTAGTCAGGGAAGTAAAATCTGCCATCT
475617 TTGACCTTCAATCTATTCCACTGCCAAATGCAGA
196 TTGACCTTCAATCTATTCCACTGCCAAATGCAGA
** * * * * *
475651 GAGATAGAGTTATCGGCTTTAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTTCCATCTTTGA
1 GAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTCGA
* **
475716 TCTGCTTCGCTGTCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATA
66 TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAAATA
* * * *
475781 CAGGGAGATAGAATTATCGGCTTCAATGTACT-CCACTGTGGTCAGGGAGGTAAAATCTGCCATC
131 CAGGGAGATAGAATTAACGACTTCAATGTACTCCCA-TGTAGTCAGGGAAGTAAAATCTGCCATC
475845 TTTGA
195 TTTGA
475850 TCTGCTTCGC
Statistics
Matches: 182, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
228 3 0.02
229 179 0.98
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (229 bp):
GAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTCGA
TCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCACTGCCAAATA
CAGGGAGATAGAATTAACGACTTCAATGTACTCCCATGTAGTCAGGGAAGTAAAATCTGCCATCT
TTGACCTTCAATCTATTCCACTGCCAAATGCAGA
Found at i:475952 original size:45 final size:45
Alignment explanation
Indices: 475756--476049 Score: 129
Period size: 45 Copynumber: 6.4 Consensus size: 45
475746 GATCTGTAAT
*
475756 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGG
* *** * * ** **
475801 CTTCAATGTACTCCACTG--TGGT-CAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAAT-TATCGG
** * * * * *
475844 CTTTGATCTGCTTCGCTGCCAAATACA-GGA-A-AGCAA-GATCTGCAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAG-AATTATC-G---G
*
475890 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGG
* * * * * * *
475935 CTTCAATGTACTCCACTG--TAGTCACATGGAGGTAAAATCTGCCATCCTTGAT
1 CTTCAATCTACTCCACTGCCAAAT-ACAGGGAGATAGAAT-T---AT-C--G-G
* *
475987 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGG
*
476032 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
476050 TAGTCAGAGA
Statistics
Matches: 172, Mismatches: 53, Indels: 48
0.63 0.19 0.18
Matches are distributed among these distances:
42 13 0.08
43 18 0.10
44 14 0.08
45 53 0.31
46 25 0.15
47 3 0.02
48 7 0.04
49 8 0.05
51 1 0.01
52 17 0.10
53 11 0.06
54 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGG
Found at i:476054 original size:97 final size:95
Alignment explanation
Indices: 475888--476083 Score: 347
Period size: 97 Copynumber: 2.0 Consensus size: 95
475878 AAGATCTGCA
475888 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
475953 TAGTCACATGGAGGTAAAATCTGCCATCCTTG
66 TAGTCACA--GAGGTAAAATCTGCCATCCTTG
*
475985 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
* *
476050 TAGTCAGAGAGGTAAAATCTGCCATCTTTG
66 TAGTCACAGAGGTAAAATCTGCCATCCTTG
476080 ATCT
1 ATCT
476084 GCTTCGCTGC
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 25 0.26
97 71 0.74
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
TAGTCACAGAGGTAAAATCTGCCATCCTTG
Found at i:486466 original size:20 final size:20
Alignment explanation
Indices: 486441--486481 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
486431 TGCTCAAAAC
486441 AACACTAAACTAACTAAAGA
1 AACACTAAACTAACTAAAGA
486461 AACACTAAACTAACTAAAGA
1 AACACTAAACTAACTAAAGA
486481 A
1 A
486482 CCTGATTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.20, G:0.05, T:0.15
Consensus pattern (20 bp):
AACACTAAACTAACTAAAGA
Found at i:488154 original size:26 final size:29
Alignment explanation
Indices: 488100--488165 Score: 84
Period size: 26 Copynumber: 2.4 Consensus size: 29
488090 AGTGCTTTTA
*
488100 AATTAATTTTATTATTATAAGCATAAAAT
1 AATTAATTTTATTATTATAAGAATAAAAT
*
488129 AATTATTTTTA-TATTATAA-AAT-AAAT
1 AATTAATTTTATTATTATAAGAATAAAAT
*
488155 AATAAATTTTA
1 AATTAATTTTA
488166 ATAAAGGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 13 0.39
27 2 0.06
28 8 0.24
29 10 0.30
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
AATTAATTTTATTATTATAAGAATAAAAT
Found at i:488865 original size:22 final size:23
Alignment explanation
Indices: 488823--488870 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
488813 TCTAAATATC
*
488823 ATAATTAAATTATATATTTTTATT
1 ATAATTAAA-TATATAATTTTATT
488847 ATAATTAAA-ATATAATTTTATT
1 ATAATTAAATATATAATTTTATT
488869 AT
1 AT
488871 TTTAATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.61
24 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATAATTAAATATATAATTTTATT
Found at i:490646 original size:27 final size:29
Alignment explanation
Indices: 490616--490677 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 29
490606 TAAAAATCAC
*
490616 AAAAGTATTAAAAA-ATAAAAAAAT-TGA
1 AAAAGAATTAAAAATATAAAAAAATATGA
* * *
490643 AAAAAAATTAAAAATATATAAAATTATGA
1 AAAAGAATTAAAAATATAAAAAAATATGA
490672 AAAAGA
1 AAAAGA
490678 GTTTGCATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 12 0.43
28 8 0.29
29 8 0.29
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (29 bp):
AAAAGAATTAAAAATATAAAAAAATATGA
Found at i:491777 original size:22 final size:22
Alignment explanation
Indices: 491752--491801 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
491742 TTGTTTTCTC
*
491752 ATTATTTTGCTACAATTTTATT
1 ATTATTTTGCAACAATTTTATT
* * *
491774 ATTATGTTGCAACTATTTTGTT
1 ATTATTTTGCAACAATTTTATT
*
491796 GTTATT
1 ATTATT
491802 GTTTGGATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.58
Consensus pattern (22 bp):
ATTATTTTGCAACAATTTTATT
Found at i:491872 original size:30 final size:30
Alignment explanation
Indices: 491836--491892 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
491826 TTTATTGTTA
491836 ATTTTGTTATTATTTTAAAGGCATTTATTG
1 ATTTTGTTATTATTTTAAAGGCATTTATTG
*
491866 ATTTTGTTATTATTTTAGAGGCATTTA
1 ATTTTGTTATTATTTTAAAGGCATTTA
491893 CTTATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (30 bp):
ATTTTGTTATTATTTTAAAGGCATTTATTG
Found at i:494205 original size:70 final size:71
Alignment explanation
Indices: 494086--494227 Score: 182
Period size: 70 Copynumber: 2.0 Consensus size: 71
494076 TGCCTCACCG
* * *
494086 TTTGCTATCTAATTTTATGTCTCTAGTCAAAGCGATTGGATCACCA-TTTTCTAATTTAATTAAT
1 TTTGCTATCTAATTTTATGCCTCTAGTCAAAGCGATAGGATCACCATTTTTC-AATTCAATTAAT
494150 TC-AACT
65 TCTAACT
* * **
494156 TTTGCTGTCTGATTTTATGCCTCTAGTCAAAGCGATAGGAT-ATTTATTTTTCAATTCAATTAAT
1 TTTGCTATCTAATTTTATGCCTCTAGTCAAAGCGATAGGATCA-CCATTTTTCAATTCAATTAAT
494220 TCTAACT
65 TCTAACT
494227 T
1 T
494228 AATTTTATGC
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
69 1 0.02
70 51 0.82
71 10 0.16
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.45
Consensus pattern (71 bp):
TTTGCTATCTAATTTTATGCCTCTAGTCAAAGCGATAGGATCACCATTTTTCAATTCAATTAATT
CTAACT
Found at i:499344 original size:12 final size:12
Alignment explanation
Indices: 499327--499353 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
499317 TATGTGTGCT
499327 TCTTCCTTTGCC
1 TCTTCCTTTGCC
499339 TCTTCCTTTGCC
1 TCTTCCTTTGCC
499351 TCT
1 TCT
499354 CCACCTCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.41, G:0.07, T:0.52
Consensus pattern (12 bp):
TCTTCCTTTGCC
Found at i:508264 original size:2 final size:2
Alignment explanation
Indices: 508257--508285 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
508247 ATGACATCTG
508257 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
508286 AAGAAGCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:509227 original size:27 final size:28
Alignment explanation
Indices: 509171--509229 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
509161 ATAACTTAAA
* *
509171 TTCAGTATTTATTTTTAATGTTTAACTT
1 TTCAATATTTATTTTTAATATTTAACTT
*
509199 TTCAATATTTA-TTTTAATTATTTAATTT
1 TTCAATATTTATTTTTAA-TATTTAACTT
509227 TTC
1 TTC
509230 TGTTTATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (28 bp):
TTCAATATTTATTTTTAATATTTAACTT
Found at i:511792 original size:16 final size:15
Alignment explanation
Indices: 511767--511814 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
511757 CTATTTTAAG
511767 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
511782 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
511799 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
511814 T
1 T
511815 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:512753 original size:19 final size:19
Alignment explanation
Indices: 512706--512745 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
512696 CATTTTGTTA
512706 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
512725 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
512744 TT
1 TT
512746 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:516987 original size:16 final size:15
Alignment explanation
Indices: 516962--517009 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
516952 CTATTTTAAG
516962 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
516977 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
516994 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
517009 T
1 T
517010 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:517947 original size:19 final size:19
Alignment explanation
Indices: 517895--517939 Score: 81
Period size: 19 Copynumber: 2.3 Consensus size: 19
517885 TAAATCATTT
517895 TCTTATTTATTTTTATTTCA
1 TCTT-TTTATTTTTATTTCA
517915 TCTTTTTATTTTTATTTCA
1 TCTTTTTATTTTTATTTCA
517934 TCTTTT
1 TCTTTT
517940 ACTTTTTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTTTTATTTTTATTTCA
Found at i:519823 original size:19 final size:17
Alignment explanation
Indices: 519801--519843 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
519791 ATCAAATTAT
*
519801 ATTTTTACTTTATAATTTA
1 ATTTTTACTTT-TAA-TAA
*
519820 ATTTTGACTTTTAATAA
1 ATTTTTACTTTTAATAA
519837 ATTTTTA
1 ATTTTTA
519844 AATTCATCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 3 0.14
19 10 0.48
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (17 bp):
ATTTTTACTTTTAATAA
Found at i:525701 original size:12 final size:12
Alignment explanation
Indices: 525684--525708 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
525674 TGTTCGACGC
525684 ATCAAAATTTGA
1 ATCAAAATTTGA
525696 ATCAAAATTTGA
1 ATCAAAATTTGA
525708 A
1 A
525709 AATAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
ATCAAAATTTGA
Found at i:525937 original size:3 final size:3
Alignment explanation
Indices: 525929--525958 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
525919 GTCTCATCGG
525929 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
525959 CCATGAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:526961 original size:12 final size:12
Alignment explanation
Indices: 526946--526972 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
526936 TTATTATCAT
526946 CTCTAATTCTAA
1 CTCTAATTCTAA
526958 CTCTAATTCTAA
1 CTCTAATTCTAA
526970 CTC
1 CTC
526973 GGATAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (12 bp):
CTCTAATTCTAA
Found at i:529418 original size:149 final size:149
Alignment explanation
Indices: 529146--529742 Score: 948
Period size: 149 Copynumber: 4.0 Consensus size: 149
529136 GATCAGCACT
** * *
529146 TTTTCCATTGTTTGATTTATTATCATCACCATTGACATGGAAAGGCCCGTATTTTTTAGGTCGGT
1 TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAAGTCGGT
* ** *
529211 CCTAGAGAA-AACTTACAGAGATTAGAAGAGTTCCAGTGTGAAGAGATAATCAGACAAGTAAAG-
66 CCTAGAGAACAA-TTACAGAGATCAGAAGAGTTCCAGTGTGAAGAGGCAATCAGGCAAGTAAAGA
529274 TGCAAACACGAGGGATACCTG
130 T-CAAACACGAGGGATACCTG
*
529295 TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTACTTTTTAAGTCGGT
1 TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAAGTCGGT
* *
529360 CCTAGAGAACAATTACAGAGATCATAA-ATGTTCCAGTGTGAAAAGGCAATCAGGCAAGTAAAGA
66 CCTAGAGAACAATTACAGAGATCAGAAGA-GTTCCAGTGTGAAGAGGCAATCAGGCAAGTAAAGA
529424 TCAAACACGAGGGATACCTG
130 TCAAACACGAGGGATACCTG
529444 TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAAGTCGGT
1 TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAAGTCGGT
* * * *
529509 CCTAGAGAACAATTACAGAGATCAGAAGAGTTTCAGCGTGAAGATGAAATCAGGCAAGTAAAGAT
66 CCTAGAGAACAATTACAGAGATCAGAAGAGTTCCAGTGTGAAGAGGCAATCAGGCAAGTAAAGAT
529574 CAAACACGAGGGATACCTG
131 CAAACACGAGGGATACCTG
* *
529593 TTTTCCATAATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAGGTCGGT
1 TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAAGTCGGT
* * * *
529658 CCTAGAGAACAGTTACAGAGATCAGAAGAGTTCCAATGCGAAGAGGCAATTAGGCAAGTAAAGAT
66 CCTAGAGAACAATTACAGAGATCAGAAGAGTTCCAGTGTGAAGAGGCAATCAGGCAAGTAAAGAT
*
529723 CAAACACAAGGGATACCTG
131 CAAACACGAGGGATACCTG
529742 T
1 T
529743 GGCTGTGGGA
Statistics
Matches: 415, Mismatches: 29, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
148 1 0.00
149 410 0.99
150 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (149 bp):
TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAAGTCGGT
CCTAGAGAACAATTACAGAGATCAGAAGAGTTCCAGTGTGAAGAGGCAATCAGGCAAGTAAAGAT
CAAACACGAGGGATACCTG
Found at i:534711 original size:23 final size:22
Alignment explanation
Indices: 534680--534746 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
534670 TATTTCAAAG
*
534680 ATAAGAAATTATAAATTAATAT
1 ATAAAAAATTATAAATTAATAT
** *
534702 ATAATAAAATTATATTTTAATCT
1 ATAA-AAAATTATAAATTAATAT
* *
534725 CTAAAAATTTATAAATTTAATA
1 ATAAAAAATTATAAA-TTAATA
534747 CCAATCACTA
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
22 12 0.35
23 22 0.65
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (22 bp):
ATAAAAAATTATAAATTAATAT
Found at i:536421 original size:12 final size:11
Alignment explanation
Indices: 536388--536422 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
536378 ATTTTTTTAA
*
536388 AATTTTTAATG
1 AATTTTTAATT
536399 AATTTTTAATT
1 AATTTTTAATT
536410 AATTATTTAATT
1 AATT-TTTAATT
536422 A
1 A
536423 TTACTGGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (11 bp):
AATTTTTAATT
Found at i:539756 original size:47 final size:47
Alignment explanation
Indices: 539702--540016 Score: 477
Period size: 47 Copynumber: 6.6 Consensus size: 47
539692 TATTTGAATA
539702 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
539749 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
539798 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
539845 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
539896 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
539943 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
539990 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
540017 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
47 155 0.63
49 45 0.18
51 46 0.19
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:539894 original size:98 final size:96
Alignment explanation
Indices: 539702--540016 Score: 508
Period size: 98 Copynumber: 3.3 Consensus size: 96
539692 TATTTGAATA
539702 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
539767 TATGTGATAAGGCCTAATGGCCGACGTGATG
66 TATGTGATAAGGCCTAATGGCCGACGTGATG
*
539798 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
539863 TATATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCTAATGGCCGACGTGATG
*
539896 AATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * *
539959 TATGTGACAGGGCCGAGTGGCCAACGTGATG
66 TATGTGATAAGGCCTAATGGCCGACGTGATG
* *
539990 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
540017 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 53 0.26
96 58 0.28
98 95 0.46
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGACGTGATG
Found at i:539961 original size:145 final size:146
Alignment explanation
Indices: 539714--540005 Score: 478
Period size: 145 Copynumber: 2.0 Consensus size: 146
539704 TGTGAAAGTG
539714 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGG
* * * * *
539779 CCTAATGGCCGACGTGATGAATGTGAGAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
65 CCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGAT
539844 GAATGTGAAAGTGTATA
130 GAATGTGAAAGTGTATA
*
539861 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTG-TATATATGTGATAAGGC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGC
* * *
539925 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
66 CTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
*
539990 GATGTGAAAGTGTATA
131 AATGTGAAAGTGTATA
540006 AATGTGATAA
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
145 89 0.66
147 46 0.34
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (146 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGC
CTAATGGCCGACGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATG
AATGTGAAAGTGTATA
Found at i:540191 original size:37 final size:37
Alignment explanation
Indices: 540135--540213 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
540125 CCGAGCTCTA
* *
540135 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
540172 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
540209 AAGAC
1 AAGAC
540214 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:542088 original size:50 final size:50
Alignment explanation
Indices: 541964--542212 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
541954 GATAATAACA
* * ** * *
541964 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
542015 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
542065 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
542115 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
542170 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
542213 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:542142 original size:100 final size:104
Alignment explanation
Indices: 541963--542212 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
541953 TGATAATAAC
**
541963 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
542028 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
542065 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
542128 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
542170 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
542213 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:542327 original size:13 final size:13
Alignment explanation
Indices: 542306--542337 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
542296 GCTTGGATCA
*
542306 TCATCAAATAAAT
1 TCATAAAATAAAT
542319 TCATAAAATAAAT
1 TCATAAAATAAAT
542332 TCATAA
1 TCATAA
542338 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:542585 original size:30 final size:30
Alignment explanation
Indices: 542549--542606 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
542539 CCTCGACTCT
*
542549 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
542579 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
542607 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:543375 original size:40 final size:40
Alignment explanation
Indices: 543313--543407 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
543303 CTTTTCTTTC
* *
543313 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
543354 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
543394 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
543408 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:543433 original size:3 final size:3
Alignment explanation
Indices: 543425--543473 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
543415 TCATATATAT
*
543425 ATA ATA ATA AT- ATA ATA AT- ATA AT- ATA AT- ATA TTA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
543468 ATA ATA
1 ATA ATA
543474 TAAAAACATA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 10 0.26
3 29 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:543441 original size:5 final size:5
Alignment explanation
Indices: 543417--543476 Score: 65
Period size: 5 Copynumber: 12.2 Consensus size: 5
543407 TTTCTTTGTC
543417 ATATA TATATA ATAATA ATAT- A-ATA ATATA ATATA ATAT- AT-TA ATAATA
1 ATATA -ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA
543466 ATATA ATATA A
1 ATATA ATATA A
543477 AAACATAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
3 3 0.06
4 6 0.12
5 25 0.52
6 14 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:543441 original size:8 final size:8
Alignment explanation
Indices: 543428--543473 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
543418 TATATATATA
543428 ATAATAAT
1 ATAATAAT
543436 ATAATAAT
1 ATAATAAT
543444 ATAAT-AT
1 ATAATAAT
*
543451 A-ATATATT
1 ATA-ATAAT
543459 AATAATAAT
1 -ATAATAAT
543468 ATAATA
1 ATAATA
543474 TAAAAACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
6 1 0.03
7 5 0.16
8 20 0.62
9 5 0.16
10 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATAATAAT
Found at i:543451 original size:24 final size:24
Alignment explanation
Indices: 543417--543476 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
543407 TTTCTTTGTC
543417 ATATATATATAATAATAAT-ATAATA
1 ATATA-ATATAAT-ATAATAATAATA
*
543442 ATATAATATAATATATTAATAATA
1 ATATAATATAATATAATAATAATA
543466 ATATAATATAA
1 ATATAATATAA
543477 AAACATAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 4 0.12
24 24 0.73
25 5 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATAATATAATATAATAATAATA
Found at i:543485 original size:24 final size:24
Alignment explanation
Indices: 543417--543485 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 24
543407 TTTCTTTGTC
543417 ATATATATATAATAATAAT-ATAATA
1 ATATA-ATATAATAA-AATAATAATA
* *
543442 ATATAATATAATATATTAATAATA
1 ATATAATATAATAAAATAATAATA
543466 ATATAATATAA-AAACATAAT
1 ATATAATATAATAAA-ATAAT
543486 TATTACTTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 4 0.11
24 29 0.76
25 5 0.13
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATAATATAATAAAATAATAATA
Found at i:545417 original size:21 final size:20
Alignment explanation
Indices: 545372--545425 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 20
545362 ATATATAAAG
545372 TTTTGG-TAATTTTATTTTC
1 TTTTGGTTAATTTTATTTTC
545391 --TTGGTTAATTTTATTTTC
1 TTTTGGTTAATTTTATTTTC
*
545409 TTTTTGGTTTATTTTAT
1 -TTTTGGTTAATTTTAT
545426 GTCCGTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 13 0.43
21 13 0.43
ACGTcount: A:0.15, C:0.04, G:0.11, T:0.70
Consensus pattern (20 bp):
TTTTGGTTAATTTTATTTTC
Found at i:545434 original size:21 final size:21
Alignment explanation
Indices: 545391--545434 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
545381 TTTTATTTTC
* * *
545391 TTGGTTAATTTTATTTTCTTT
1 TTGGTTAATTTTATGTCCGTT
*
545412 TTGGTTTATTTTATGTCCGTT
1 TTGGTTAATTTTATGTCCGTT
545433 TT
1 TT
545435 ACAATTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.11, C:0.07, G:0.14, T:0.68
Consensus pattern (21 bp):
TTGGTTAATTTTATGTCCGTT
Found at i:553774 original size:3 final size:3
Alignment explanation
Indices: 553768--553792 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
553758 CAACAATTGT
553768 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
553793 GTGCTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:557946 original size:48 final size:48
Alignment explanation
Indices: 557894--557992 Score: 180
Period size: 48 Copynumber: 2.1 Consensus size: 48
557884 TTTATATCAA
557894 TTTTTAAATTTCAAGTAATCTATGTTTAAATAAAGTAATTAGTATTTT
1 TTTTTAAATTTCAAGTAATCTATGTTTAAATAAAGTAATTAGTATTTT
* *
557942 TTTTTCAGTTTCAAGTAATCTATGTTTAAATAAAGTAATTAGTATTTT
1 TTTTTAAATTTCAAGTAATCTATGTTTAAATAAAGTAATTAGTATTTT
557990 TTT
1 TTT
557993 AAAATTCTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (48 bp):
TTTTTAAATTTCAAGTAATCTATGTTTAAATAAAGTAATTAGTATTTT
Found at i:562608 original size:7 final size:7
Alignment explanation
Indices: 562596--562620 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
562586 CCCTTTTACG
562596 TTGTACA
1 TTGTACA
562603 TTGTACA
1 TTGTACA
562610 TTGTACA
1 TTGTACA
562617 TTGT
1 TTGT
562621 TAATTTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (7 bp):
TTGTACA
Found at i:563046 original size:17 final size:17
Alignment explanation
Indices: 563024--563070 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
563014 AACTTGTTTA
*
563024 AGTCATTTCAAGTTCGG
1 AGTCATTTCAAGTTCAG
** *
563041 AGTCATTTTGAGTTTAG
1 AGTCATTTCAAGTTCAG
563058 A-TCATTTCAAGTT
1 AGTCATTTCAAGTT
563071 TGCGTGCTAG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.43
Consensus pattern (17 bp):
AGTCATTTCAAGTTCAG
Found at i:563070 original size:16 final size:17
Alignment explanation
Indices: 563019--563071 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
563009 TGGGTAACTT
563019 GTTTA-AGTCATTTCAA
1 GTTTAGAGTCATTTCAA
** **
563035 GTTCGGAGTCATTTTGA
1 GTTTAGAGTCATTTCAA
563052 GTTTAGA-TCATTTCAA
1 GTTTAGAGTCATTTCAA
563068 GTTT
1 GTTT
563072 GCGTGCTAGA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (17 bp):
GTTTAGAGTCATTTCAA
Found at i:565507 original size:7 final size:7
Alignment explanation
Indices: 565491--565538 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
565481 CAGTTATATC
565491 CGAAACT
1 CGAAACT
*
565498 CGAAATT
1 CGAAACT
565505 CGAAACT
1 CGAAACT
*
565512 TGAAACT
1 CGAAACT
*
565519 CGAAACC
1 CGAAACT
*
565526 CGAAACC
1 CGAAACT
565533 CGAAAC
1 CGAAAC
565539 CTGAAACCCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.44, C:0.29, G:0.15, T:0.12
Consensus pattern (7 bp):
CGAAACT
Found at i:565529 original size:21 final size:21
Alignment explanation
Indices: 565490--565550 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
565480 TCAGTTATAT
**
565490 CCGAAACTCGAAATTCGAAAC
1 CCGAAACTCGAAACCCGAAAC
**
565511 TTGAAACTCGAAACCCGAAAC
1 CCGAAACTCGAAACCCGAAAC
565532 CCGAAAC-CTGAAACCCGAA
1 CCGAAACTC-GAAACCCGAA
565551 GTGTTCATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.43, C:0.31, G:0.15, T:0.11
Consensus pattern (21 bp):
CCGAAACTCGAAACCCGAAAC
Found at i:565539 original size:7 final size:7
Alignment explanation
Indices: 565490--565550 Score: 59
Period size: 7 Copynumber: 8.7 Consensus size: 7
565480 TCAGTTATAT
565490 CCGAAAC
1 CCGAAAC
* *
565497 TCGAAAT
1 CCGAAAC
*
565504 TCGAAAC
1 CCGAAAC
**
565511 TTGAAAC
1 CCGAAAC
*
565518 TCGAAAC
1 CCGAAAC
565525 CCGAAAC
1 CCGAAAC
565532 CCGAAAC
1 CCGAAAC
*
565539 CTGAAAC
1 CCGAAAC
565546 CCGAA
1 CCGAA
565551 GTGTTCATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.43, C:0.31, G:0.15, T:0.11
Consensus pattern (7 bp):
CCGAAAC
Found at i:572560 original size:10 final size:10
Alignment explanation
Indices: 572547--572580 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
572537 ATATATATAT
*
572547 CATATCATAC
1 CATACCATAC
572557 CATACCATAC
1 CATACCATAC
*
572567 CATACCATAT
1 CATACCATAC
572577 CATA
1 CATA
572581 ATCATTGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (10 bp):
CATACCATAC
Found at i:572570 original size:15 final size:15
Alignment explanation
Indices: 572547--572580 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
572537 ATATATATAT
*
572547 CATATCATACCATAC
1 CATACCATACCATAC
*
572562 CATACCATACCATAT
1 CATACCATACCATAC
572577 CATA
1 CATA
572581 ATCATTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
CATACCATACCATAC
Found at i:572922 original size:29 final size:28
Alignment explanation
Indices: 572811--572933 Score: 75
Period size: 29 Copynumber: 4.1 Consensus size: 28
572801 AAATTTGTTG
** * *
572811 AAAATTTTAATTTGGCCCCAAAATTTTTTG
1 AAAATTTTAA-TTAACCCC-AATTTTTTTA
* * *
572841 AAAATTTTAATTAAGCTCGTCTATTTTTATTC
1 AAAATTTTAATTAA-C-C-CCAATTTTT-TTA
* * * *
572873 AAAATTCTCATTAATCTCAATTTTTTTA
1 AAAATTTTAATTAACCCCAATTTTTTTA
*
572901 AAAATTTTAATTAGACCCCAATTTTTTGA
1 AAAATTTTAATTA-ACCCCAATTTTTTTA
572930 AAAA
1 AAAA
572934 AAAATCTGAT
Statistics
Matches: 72, Mismatches: 16, Indels: 11
0.73 0.16 0.11
Matches are distributed among these distances:
28 13 0.18
29 26 0.36
30 12 0.17
31 6 0.08
32 15 0.21
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.45
Consensus pattern (28 bp):
AAAATTTTAATTAACCCCAATTTTTTTA
Found at i:579498 original size:44 final size:44
Alignment explanation
Indices: 579432--580061 Score: 528
Period size: 44 Copynumber: 14.3 Consensus size: 44
579422 TCCACTTCCT
* *
579432 ACCAATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCGC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * * *
579476 GCCAATACATGAAGACAAGATCTGC-GTCGTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * *
579518 TACCCATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * *
579563 GCCAATACATGAAGACAAGATCTGCTTTCTGT-GATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCT-TCGATCTACTTCG-C
* * * * *
579608 ACCATTATGGGAAGACAAAATCTGC-ATCGTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
** * * * *
579650 TACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * * *
579695 GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTATTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG-C
* * * *
579740 ACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCAC-TCCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * *
579782 TACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * *
579827 GCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCG-C
* * *
579872 ACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * *
579914 TACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCAC
1 -ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
* * * * *
579959 GCCAATACATGAAGACAAGATCTACTTTCTGT-GATCTACTTCGCC
1 ACCAATATAGGAAGACAAGATCTGCTATCT-TCGATCTACTTCG-C
* *
580004 ACCAATATGGGAAGACAAGATCTGC-ATCTTTGATCTACTTC-C
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
580046 TACCAATATAGGAAGA
1 -ACCAATATAGGAAGA
580062 TAGGATATGT
Statistics
Matches: 454, Mismatches: 111, Indels: 43
0.75 0.18 0.07
Matches are distributed among these distances:
42 5 0.01
43 111 0.24
44 245 0.54
45 93 0.20
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGC
Found at i:579661 original size:132 final size:132
Alignment explanation
Indices: 579450--580066 Score: 984
Period size: 132 Copynumber: 4.7 Consensus size: 132
579440 AGGAAGGCAG
* * * *** *
579450 GATCTGCTATCTTCGATCTACTTCG-CGCCAATACATGAAGACAAGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* * * *
579514 TTCCTACCCATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
579579 AA
131 AA
* * *
579581 GATCTGCTTTCTGTGATCTACTTCGCCACCATTATGGGAAGACAAAATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* **
579646 TTCCTACCAATATAGGAAGACCGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
579711 AA
131 AA
*
579713 GATCTGCTTTCTGCGATCTATTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
* *
579778 TCCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
579843 AA
131 AA
579845 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
*
579910 TTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
579975 AA
131 AA
* * * * *
579977 GATCTACTTTCTGTGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGATCTAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
*
580042 TTCCTACCAATATAGGAAGATAGGA
66 TTCCTACCAATATAGGAAGACAGGA
580067 TATGTTCCTT
Statistics
Matches: 452, Mismatches: 33, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
131 22 0.05
132 430 0.95
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
TTCCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:593635 original size:33 final size:33
Alignment explanation
Indices: 593593--593660 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
593583 TGCCAATGGT
* *
593593 TGGCCTAGAGGTTCGGCCGCACACCTGGGGTGC
1 TGGCCTAGAGGTTCGGCAGCACACCTGGGGGGC
593626 TGGCCTAGAGGTTCGGCAGCACACCTGGGGGGC
1 TGGCCTAGAGGTTCGGCAGCACACCTGGGGGGC
593659 TG
1 TG
593661 AGTTGCGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.13, C:0.28, G:0.41, T:0.18
Consensus pattern (33 bp):
TGGCCTAGAGGTTCGGCAGCACACCTGGGGGGC
Found at i:597769 original size:27 final size:27
Alignment explanation
Indices: 597738--597790 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
597728 ATAGCCCCAG
597738 AAAAATAGAAAAATTACTTGTTAATCA
1 AAAAATAGAAAAATTACTTGTTAATCA
597765 AAAAATAGAAAAATTACTTGTTAATC
1 AAAAATAGAAAAATTACTTGTTAATC
597791 CTCTCCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAAATAGAAAAATTACTTGTTAATCA
Found at i:600362 original size:27 final size:26
Alignment explanation
Indices: 600319--600370 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
600309 AAATTTTAGA
600319 TATAAAAAAATAGATATTATAAAAATT
1 TATAAAAAAATAGATATTA-AAAAATT
*
600346 TATAATAAAATCA-ATATTAAAAAAT
1 TATAAAAAAAT-AGATATTAAAAAAT
600371 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 16 0.70
28 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
TATAAAAAAATAGATATTAAAAAATT
Found at i:601768 original size:48 final size:48
Alignment explanation
Indices: 601736--601852 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 48
601726 TCGCCGCCAT
* *
601736 CCACCGCAAATCCGCCGCCAACTACCACTCCTTCCACACCACCACCAA
1 CCACAGCAAATCCGCCGCCAACTAACACTCCTTCCACACCACCACCAA
* *
601784 CCGCAGCAACTCCGCCGCCAACTAACACTCC-T--ACACCACCACCAA
1 CCACAGCAAATCCGCCGCCAACTAACACTCCTTCCACACCACCACCAA
* **
601829 CCGCAGCAGCTCCGCCGCCAACTA
1 CCACAGCAAATCCGCCGCCAACTA
601853 GTCCTCCCTC
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
45 36 0.56
47 1 0.02
48 27 0.42
ACGTcount: A:0.28, C:0.52, G:0.10, T:0.09
Consensus pattern (48 bp):
CCACAGCAAATCCGCCGCCAACTAACACTCCTTCCACACCACCACCAA
Found at i:602599 original size:25 final size:25
Alignment explanation
Indices: 602571--602621 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
602561 TAAGTTCCAA
602571 GTTAGTTTTAGATTCGGGTCAAATC
1 GTTAGTTTTAGATTCGGGTCAAATC
602596 GTTAGTTTTAGATTCGGGTCAAATC
1 GTTAGTTTTAGATTCGGGTCAAATC
602621 G
1 G
602622 GATTGTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (25 bp):
GTTAGTTTTAGATTCGGGTCAAATC
Found at i:606021 original size:18 final size:18
Alignment explanation
Indices: 605979--606025 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
605969 AACTACCAAT
605979 ATAGTTA-TTTTTATTAA
1 ATAGTTATTTTTTATTAA
**
605996 ATTCTTATTTTTTA-TATA
1 ATAGTTATTTTTTATTA-A
606014 ATAGTTATTTTT
1 ATAGTTATTTTT
606026 ATTTAATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
ATAGTTATTTTTTATTAA
Found at i:606024 original size:17 final size:16
Alignment explanation
Indices: 605979--606033 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
605969 AACTACCAAT
605979 ATAGTTATTTTTATTAA
1 ATAGTTATTTTTATT-A
**
605996 ATTCTTATTTTTTATATA
1 ATAGTTA-TTTTTAT-TA
606014 ATAGTTATTTTTATTTA
1 ATAGTTATTTTTA-TTA
606031 ATA
1 ATA
606034 TGAAATCCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 16 0.52
18 14 0.45
19 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (16 bp):
ATAGTTATTTTTATTA
Found at i:607700 original size:29 final size:31
Alignment explanation
Indices: 607653--607714 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
607643 TTGATTTAAC
** *
607653 GTGCAATTATATGTATGAA-CTTTAATT-TG
1 GTGCAATTATATACATGAAGCTATAATTGTG
*
607682 GTGCAATTATATACGTGAAGCTATAATTGTG
1 GTGCAATTATATACATGAAGCTATAATTGTG
607713 GT
1 GT
607715 TCAGATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 16 0.59
30 7 0.26
31 4 0.15
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (31 bp):
GTGCAATTATATACATGAAGCTATAATTGTG
Found at i:613880 original size:21 final size:22
Alignment explanation
Indices: 613856--613904 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
613846 TGTAGCTTGT
613856 AAACAT-GTATTTCATAA-AAAA
1 AAACATAG-ATTTCATAATAAAA
613877 AAACATAAGATTTCATAATAAAA
1 AAACAT-AGATTTCATAATAAAA
613900 AAACA
1 AAACA
613905 AGAGTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.24
22 9 0.36
23 10 0.40
ACGTcount: A:0.61, C:0.10, G:0.04, T:0.24
Consensus pattern (22 bp):
AAACATAGATTTCATAATAAAA
Found at i:627114 original size:198 final size:198
Alignment explanation
Indices: 626552--627114 Score: 697
Period size: 198 Copynumber: 2.8 Consensus size: 198
626542 ACAAACAGGT
* * *
626552 GCGAGAATTTTCTTTCCTACCAAACACGCTCAAACATCCATCTTCTTTTTCAGTTTTTCACCACC
1 GCGAGAATTTTCTTTCCTACCAAACACGCTCAAACATTCATATTCTTTTTCAGTTTTTCACCATC
** *
626617 CTA-ATTCCATTTCTTCTAGATTTTTC-ACTCTGCTAAGCAAACCACTAATCT-TGTTTCCGTAT
66 CTATA-TCCATTTCTTC-ACTTTTTTCTACTCTGCCAAGCAAACCACTAATCTCT-TTTCCGTAT
* *
626679 TTTTGCTTTACAATCTATGAACAAGAAAGCTAATGAAGACGATGCTAATCTTTTGTAATGCAGCT
128 TTTTGCTTTACAATCTATGAACAAGAAAGCTAATGAAGACAAAGCTAATCTTTTGTAATGCAGCT
626744 AAATGA
193 AAATGA
* *
626750 ACAAGAATTCTT-TTTCCTACCAAACACGCTCAAACATTCATATTCTTTTTCAGTTTTTCACCAT
1 GCGAGAATT-TTCTTTCCTACCAAACACGCTCAAACATTCATATTCTTTTTCAGTTTTTCACCAT
* * * * *** *
626814 CTTTTGTTCATTCTTCTGTTGTTTTTTTTTCTCACTCTGCCAAGCAAACCACTAAACTCGTTTT-
65 CCTATATCCA-T-TTC--TT-CACTTTTTTCT-ACTCTGCCAAGCAAACCACTAATCTC-TTTTC
*
626878 CGTATTTTTGCTTTACTATCTATGAACAAGAAAGCTAATGAAGACAAAGCTAATC-TTTGTAATG
123 CGTATTTTTGCTTTACAATCTATGAACAAGAAAGCTAATGAAGACAAAGCTAATCTTTTGTAATG
* *
626942 CAGTTAAGTGA
188 CAGCTAAATGA
* * * * * **
626953 GCGAGAATTTTCTTCCCTACCTAACACACTCAAACATTTATGTTCTTTTTTGGTTTTTCACCATC
1 GCGAGAATTTTCTTTCCTACCAAACACGCTCAAACATTCATATTCTTTTTCAGTTTTTCACCATC
* **
627018 CTATATCCATTTCTTCCCTTTTTTCTACTCTGCCAAGCAAACCACTAATCTCATTTTCCAAATTT
66 CTATATCCATTTCTTCACTTTTTTCTACTCTGCCAAGCAAACCACTAATCTC-TTTTCCGTATTT
627083 TTGCTTTACAATCTATGAACAAGAAAGCTAAT
130 TTGCTTTACAATCTATGAACAAGAAAGCTAAT
627115 TATTTCCTTC
Statistics
Matches: 311, Mismatches: 41, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
197 29 0.09
198 105 0.34
199 5 0.02
200 3 0.01
201 3 0.01
202 11 0.04
203 76 0.24
204 75 0.24
205 3 0.01
206 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (198 bp):
GCGAGAATTTTCTTTCCTACCAAACACGCTCAAACATTCATATTCTTTTTCAGTTTTTCACCATC
CTATATCCATTTCTTCACTTTTTTCTACTCTGCCAAGCAAACCACTAATCTCTTTTCCGTATTTT
TGCTTTACAATCTATGAACAAGAAAGCTAATGAAGACAAAGCTAATCTTTTGTAATGCAGCTAAA
TGA
Found at i:635266 original size:3 final size:3
Alignment explanation
Indices: 635258--635295 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
635248 AGCATTTTGG
635258 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
635296 AACTTAGCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:647169 original size:20 final size:21
Alignment explanation
Indices: 647141--647179 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
647131 ATGATATTTA
*
647141 TTTTTAAATATTTA-TTATCG
1 TTTTGAAATATTTAGTTATCG
*
647161 TTTTGAAATTTTTAGTTAT
1 TTTTGAAATATTTAGTTAT
647180 TATTTATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (21 bp):
TTTTGAAATATTTAGTTATCG
Found at i:648594 original size:30 final size:30
Alignment explanation
Indices: 648549--648624 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
648539 ATTAACAATT
*
648549 AAACTAAAATTTTAAA-ATCTAAGAAATA-AA
1 AAACTAAATTTTTAAATAT-TAA-AAATATAA
* *
648579 ATATTAAATTTTTAAATATTAAAAATATAA
1 AAACTAAATTTTTAAATATTAAAAATATAA
648609 AAACTAAA-TTTTAAAT
1 AAACTAAATTTTTAAAT
648625 TTACTGAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 13 0.33
30 24 0.62
31 2 0.05
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (30 bp):
AAACTAAATTTTTAAATATTAAAAATATAA
Found at i:653018 original size:130 final size:125
Alignment explanation
Indices: 652790--653046 Score: 327
Period size: 130 Copynumber: 2.0 Consensus size: 125
652780 AATCAAATTG
*
652790 ATGTGTTTATTTTCACTGTTGTTTATGATTCATGCGGTTCTTTGCTTTTTCAAAAACTAAAACAT
1 ATGTGTTTATTTTCACTGTTGTTTATGATTCATGCGGTTCTTTGCTTTTTCAAAAACTAAAACAC
** * *
652855 TGTAACCGTAAATTTATTTAAAATCGATCCAAACCGAAATGTTATCCGCCTAACTTATTA
66 TGTAACCACAAATTTATTTAAAATAGATCCAAACCGAAATCTTATCCGCCTAACTTATTA
* * * * *
652915 ATGTGTTTGTTTTCACTGTTGTTTATGGTTCATGTTATATGGTTCTTTGTTTTTTCAAAAATTAA
1 ATGTGTTTATTTTCACTGTTGTTTATGATTCATG-----CGGTTCTTTGCTTTTTCAAAAACTAA
* * * *
652980 AATACTGTAACTACAAATTTA-TTAAAAGTAGATCCAAACCGAAATCTTTTCTGCCTAACTTATT
61 AACACTGTAACCACAAATTTATTTAAAA-TAGATCCAAACCGAAATCTTATCCGCCTAACTTATT
653044 A
125 A
653045 AT
1 AT
653047 ATTATCCACC
Statistics
Matches: 112, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
125 32 0.29
129 6 0.05
130 74 0.66
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (125 bp):
ATGTGTTTATTTTCACTGTTGTTTATGATTCATGCGGTTCTTTGCTTTTTCAAAAACTAAAACAC
TGTAACCACAAATTTATTTAAAATAGATCCAAACCGAAATCTTATCCGCCTAACTTATTA
Found at i:660498 original size:16 final size:16
Alignment explanation
Indices: 660477--660525 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
660467 TAAATTGAAG
660477 TGACCAAAACTCAAAA
1 TGACCAAAACTCAAAA
*
660493 TGACCAAAATTCAAAA
1 TGACCAAAACTCAAAA
* * *
660509 TAACCTAAACTCGAAA
1 TGACCAAAACTCAAAA
660525 T
1 T
660526 TAACCTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.53, C:0.22, G:0.06, T:0.18
Consensus pattern (16 bp):
TGACCAAAACTCAAAA
Found at i:664599 original size:29 final size:30
Alignment explanation
Indices: 664555--664618 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
664545 TTGGCCTTGT
* *
664555 TTGATTCTTTTTAATAGTACAGGGACTGAA
1 TTGATTCTATTTAATAGTACAGGGACTAAA
*
664585 TTGATTC-ATTTAATAGTAGAGGGACTAAA
1 TTGATTCTATTTAATAGTACAGGGACTAAA
664614 TTGAT
1 TTGAT
664619 GAGATCCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (30 bp):
TTGATTCTATTTAATAGTACAGGGACTAAA
Found at i:669749 original size:18 final size:17
Alignment explanation
Indices: 669708--669750 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
669698 TCACCATTTG
*
669708 CCATTGCACTTGTTCTT
1 CCATTCCACTTGTTCTT
*
669725 CAAATTCCACTTCGTTCTT
1 C-CATTCCACTT-GTTCTT
669744 CCATTCC
1 CCATTCC
669751 GCAATCTCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 13 0.62
19 7 0.33
ACGTcount: A:0.16, C:0.35, G:0.07, T:0.42
Consensus pattern (17 bp):
CCATTCCACTTGTTCTT
Found at i:671482 original size:23 final size:24
Alignment explanation
Indices: 671441--671491 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
671431 TTCGTAGGTC
* *
671441 AAATAAATTATACTAATAAATGTT
1 AAATAAATTATACCAATAAATATT
*
671465 AAATATATT-TACCAATAAATATT
1 AAATAAATTATACCAATAAATATT
671488 AAAT
1 AAAT
671492 TATCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACCAATAAATATT
Found at i:679079 original size:74 final size:74
Alignment explanation
Indices: 678988--679136 Score: 244
Period size: 74 Copynumber: 2.0 Consensus size: 74
678978 TAAATCTAAG
* * *
678988 TCATAATCTAGGAATGTGTGCTATAATTAACCCAAAATATGGGGGAAGCTCACAACAAAATTGGT
1 TCATAATCTAGGAATGTGTGATATAATTAACCCAAAAGATGGGGAAAGCTCACAACAAAATTGGT
679053 CCCAAACTA
66 CCCAAACTA
* *
679062 TCATATTCTAGGGATGTGTGATATAATTAACCCAAAAGATGGGGAAAGCTCACAACAAAATTGGT
1 TCATAATCTAGGAATGTGTGATATAATTAACCCAAAAGATGGGGAAAGCTCACAACAAAATTGGT
*
679127 CGCAAACTA
66 CCCAAACTA
679136 T
1 T
679137 ACTGTTCTTC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (74 bp):
TCATAATCTAGGAATGTGTGATATAATTAACCCAAAAGATGGGGAAAGCTCACAACAAAATTGGT
CCCAAACTA
Found at i:683565 original size:37 final size:37
Alignment explanation
Indices: 683500--683645 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
683490 TACGTATGAT
* *
683500 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
683535 CACCTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
683572 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
683609 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
683646 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:683662 original size:46 final size:46
Alignment explanation
Indices: 683609--683713 Score: 183
Period size: 46 Copynumber: 2.3 Consensus size: 46
683599 TAAGTGTAGC
* *
683609 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCAAAGCTAT
*
683655 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCAAAGCTAT
683701 CACTTATCACTTT
1 CACTTATCACTTT
683714 CCACTTGATC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCAAAGCTAT
Found at i:683710 original size:7 final size:7
Alignment explanation
Indices: 683698--683753 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 7
683688 TAGCCGAAGC
683698 TATCACT
1 TATCACT
683705 TATCACT
1 TATCACT
683712 T-TCCACT
1 TAT-CACT
683719 TGATCACT
1 T-ATCACT
683727 TATCACT
1 TATCACT
683734 T-TCCACT
1 TAT-CACT
*
683741 TGTCACT
1 TATCACT
683748 TGATCA
1 T-ATCA
683754 GATAAGTGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
6 2 0.05
7 30 0.71
8 9 0.21
9 1 0.02
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.41
Consensus pattern (7 bp):
TATCACT
Found at i:683724 original size:22 final size:22
Alignment explanation
Indices: 683699--683753 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
683689 AGCCGAAGCT
683699 ATCACTTATCACTTTCCACTTG
1 ATCACTTATCACTTTCCACTTG
683721 ATCACTTATCACTTTCCACTTG
1 ATCACTTATCACTTTCCACTTG
683743 -TCACTTGATCA
1 ATCACTT-ATCA
683754 GATAAGTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.24, C:0.31, G:0.05, T:0.40
Consensus pattern (22 bp):
ATCACTTATCACTTTCCACTTG
Found at i:683740 original size:29 final size:29
Alignment explanation
Indices: 683698--683753 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
683688 TAGCCGAAGC
683698 TATCACTTATCACTT-TCCACTTGATCACT
1 TATCACTTATCACTTGT-CACTTGATCACT
683727 TATCACTT-TCCACTTGTCACTTGATCA
1 TATCACTTAT-CACTTGTCACTTGATCA
683754 GATAAGTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 1 0.04
29 23 0.92
30 1 0.04
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.41
Consensus pattern (29 bp):
TATCACTTATCACTTGTCACTTGATCACT
Found at i:683771 original size:74 final size:76
Alignment explanation
Indices: 683652--683799 Score: 230
Period size: 74 Copynumber: 2.0 Consensus size: 76
683642 TAGCTAAAGC
*
683652 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT-CC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGCC
683716 ACTTGATCACT
66 ACTTGATCACT
* * *
683727 TATCACTT-TCCAC-TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGT
1 TATCACTTAT-CACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGC
683790 CACTTGATCA
65 CACTTGATCA
683800 GATAAGTATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
74 46 0.69
75 21 0.31
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.37
Consensus pattern (76 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGCC
ACTTGATCACT
Found at i:683798 original size:46 final size:46
Alignment explanation
Indices: 683727--683847 Score: 192
Period size: 46 Copynumber: 2.7 Consensus size: 46
683717 CTTGATCACT
* *
683727 TATCACTT-TCCAC-TTGTCACTTGATCAGATAAGTGTAGCTGAAGC
1 TATCACTTAT-CACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
683772 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
*
683818 TATCACTTATCACTTTATCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
683848 AGTACTCAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
45 11 0.15
46 60 0.85
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
Found at i:684754 original size:180 final size:180
Alignment explanation
Indices: 684541--684923 Score: 730
Period size: 180 Copynumber: 2.1 Consensus size: 180
684531 ATTTCTGTAA
684541 AATTTTTAATGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAA
1 AATTTTTAATGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAA
*
684606 AATCTATTATATCTCATGATTTACAATTCCATTTCTCACATCATTTCTTTTATAAGAAACTAGAC
66 AATCTATTATATCTCATGATTTACAATTCCATTGCTCACATCATTTCTTTTATAAGAAACTAGAC
684671 TCAATAAGCTTTAATTTCATATTTTATTCATCCTCTAATTCAATCTCTAC
131 TCAATAAGCTTTAATTTCATATTTTATTCATCCTCTAATTCAATCTCTAC
684721 AATTTTTAATGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAA
1 AATTTTTAATGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAA
684786 AATCTATTATATCTCATGATTTACAATTCCATTGCTCACATCATTTCTTTTATAAGAAACTAGAC
66 AATCTATTATATCTCATGATTTACAATTCCATTGCTCACATCATTTCTTTTATAAGAAACTAGAC
684851 TCAATAAGCTTTAATTTCATATTTTATTCATCCTCTAATTCAATCTCTAC
131 TCAATAAGCTTTAATTTCATATTTTATTCATCCTCTAATTCAATCTCTAC
** *
684901 AATTTTTGGTGATTTTTCAAAGT
1 AATTTTTAATGATTTTCCAAAGT
684924 TACACTACTG
Statistics
Matches: 199, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
180 199 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (180 bp):
AATTTTTAATGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAA
AATCTATTATATCTCATGATTTACAATTCCATTGCTCACATCATTTCTTTTATAAGAAACTAGAC
TCAATAAGCTTTAATTTCATATTTTATTCATCCTCTAATTCAATCTCTAC
Found at i:687197 original size:49 final size:49
Alignment explanation
Indices: 687142--687287 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
687132 TTCGTTTTCT
* * *
687142 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATAC
* *
687191 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATAC
*
687240 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACA-AATCACAT
687288 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:688605 original size:37 final size:37
Alignment explanation
Indices: 688544--688689 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
688534 TACGTATGAT
* *
688544 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
688579 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
688616 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
688653 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
688690 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:688706 original size:46 final size:46
Alignment explanation
Indices: 688653--688757 Score: 183
Period size: 46 Copynumber: 2.3 Consensus size: 46
688643 TAAGTGTAGC
* *
688653 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCAAAGCTAT
*
688699 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCAAAGCTAT
688745 CACTTATCACTTT
1 CACTTATCACTTT
688758 CACTTGTCAC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCAAAGCTAT
Found at i:688754 original size:7 final size:7
Alignment explanation
Indices: 688742--688844 Score: 108
Period size: 7 Copynumber: 14.7 Consensus size: 7
688732 TAGCCGAAGC
688742 TATCACT
1 TATCACT
688749 TATCACT
1 TATCACT
688756 T-TCACT
1 TATCACT
*
688762 TGTCACT
1 TATCACT
688769 TATCAC-
1 TATCACT
688775 T-TCACTT
1 TATCAC-T
688782 ATCATCACT
1 -T-ATCACT
688791 TATCACT
1 TATCACT
688798 TATCACT
1 TATCACT
688805 T-TCACT
1 TATCACT
688811 TGATCACT
1 T-ATCACT
688819 TATCACT
1 TATCACT
688826 T-TCACT
1 TATCACT
*
688832 TGTCACT
1 TATCACT
688839 TGATCA
1 T-ATCA
688845 GATAAGTATA
Statistics
Matches: 84, Mismatches: 2, Indels: 19
0.80 0.02 0.18
Matches are distributed among these distances:
5 4 0.05
6 19 0.23
7 45 0.54
8 11 0.13
9 1 0.01
10 4 0.05
ACGTcount: A:0.24, C:0.29, G:0.04, T:0.43
Consensus pattern (7 bp):
TATCACT
Found at i:688762 original size:13 final size:14
Alignment explanation
Indices: 688742--688844 Score: 108
Period size: 13 Copynumber: 7.4 Consensus size: 14
688732 TAGCCGAAGC
688742 TATCACTTATCACT
1 TATCACTTATCACT
*
688756 T-TCACTTGTCACT
1 TATCACTTATCACT
688769 TATCAC-T-TCACTT
1 TATCACTTATCAC-T
688782 ATCATCACTTATCACT
1 -T-ATCACTTATCACT
688798 TATCACTT-TCACT
1 TATCACTTATCACT
688811 TGATCACTTATCACT
1 T-ATCACTTATCACT
*
688826 T-TCACTTGTCACT
1 TATCACTTATCACT
688839 TGATCA
1 T-ATCA
688845 GATAAGTATA
Statistics
Matches: 77, Mismatches: 2, Indels: 19
0.79 0.02 0.19
Matches are distributed among these distances:
12 4 0.05
13 32 0.42
14 20 0.26
15 15 0.19
16 2 0.03
17 4 0.05
ACGTcount: A:0.24, C:0.29, G:0.04, T:0.43
Consensus pattern (14 bp):
TATCACTTATCACT
Found at i:688792 original size:22 final size:19
Alignment explanation
Indices: 688744--688844 Score: 87
Period size: 20 Copynumber: 4.9 Consensus size: 19
688734 GCCGAAGCTA
688744 TCACTTATCACTT-TCACTT
1 TCACTTATCACTTATCAC-T
* *
688763 GTCACTTATCACTTCACTTATCA
1 -TCACTTATCACTT-A-TCA-CT
688786 TCACTTATCACTTATCACTT
1 TCACTTATCACTTATCAC-T
688806 TCACTTGATCACTTATCACTT
1 TCACTT-ATCACTTATCAC-T
*
688827 TCACTTGTCACTTGATCA
1 TCACTTATCACTT-ATCA
688845 GATAAGTATA
Statistics
Matches: 69, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.01
20 27 0.39
21 25 0.36
22 13 0.19
23 2 0.03
24 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.04, T:0.43
Consensus pattern (19 bp):
TCACTTATCACTTATCACT
Found at i:688796 original size:29 final size:27
Alignment explanation
Indices: 688757--688832 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 27
688747 CTTATCACTT
*
688757 TCACTTGTCACTTATCACTTCACTTATCA
1 TCACTTATCACTTATCACTTCAC-T-TCA
*
688786 TCACTTATCACTTATCACTTTCACTTGA
1 TCACTTATCACTTATCAC-TTCACTTCA
688814 TCACTTATCACTT-TCACTT
1 TCACTTATCACTTATCACTT
688833 GTCACTTGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 2 0.05
27 4 0.09
28 15 0.34
29 18 0.41
30 5 0.11
ACGTcount: A:0.24, C:0.30, G:0.03, T:0.43
Consensus pattern (27 bp):
TCACTTATCACTTATCACTTCACTTCA
Found at i:688879 original size:45 final size:45
Alignment explanation
Indices: 688819--688936 Score: 186
Period size: 45 Copynumber: 2.6 Consensus size: 45
688809 CTTGATCACT
*
688819 TATCACTT-TCACTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTGTCACTTGATCAGATAAGTATAGCCAAAGC
*
688863 TATCACTTATCACTTGTCACTTGATCAGATAAGTATAGCTAAAGC
1 TATCACTTATCACTTGTCACTTGATCAGATAAGTATAGCCAAAGC
*
688908 TA-CACTTATCACTTTATCACTTGATCAGA
1 TATCACTTATCAC-TTGTCACTTGATCAGA
688937 AGTACTCAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
44 18 0.26
45 51 0.74
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (45 bp):
TATCACTTATCACTTGTCACTTGATCAGATAAGTATAGCCAAAGC
Found at i:692113 original size:50 final size:49
Alignment explanation
Indices: 692044--692189 Score: 220
Period size: 50 Copynumber: 2.9 Consensus size: 49
692034 TCGTTTTCTT
* * *
692044 GATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATACC
1 GATGCCATAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATACC
* *
692093 GATGCCATAGCGCCAGCTATGGTCTTACACGAAATCACATATCACTTACC
1 GATGCCATAGC-CCAGCTATGGTCTTACACGAAATCACAAATCACATACC
*
692143 GATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 GATGCCATAGCCCAGCTATGGTCTTACACGAAATCACA-AATCACAT
692190 GTTCACATGT
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
49 36 0.41
50 51 0.59
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (49 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGAAATCACAAATCACATACC
Found at i:693507 original size:37 final size:37
Alignment explanation
Indices: 693442--693587 Score: 224
Period size: 37 Copynumber: 4.0 Consensus size: 37
693432 TACGTATGAT
* * *
693442 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCACATAAGTGTAGC
*
693477 CACCTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCACATAAGTGTAGC
693514 CACTTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCACATAAGTGTAGC
* *
693551 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCACATAAGTGTAGC
693588 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCACATAAGTGTAGC
Found at i:693604 original size:46 final size:46
Alignment explanation
Indices: 693551--693655 Score: 174
Period size: 46 Copynumber: 2.3 Consensus size: 46
693541 TAAGTGTAGC
* * *
693551 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAAATAAGTATAGCCAAAGCTAT
*
693597 CACTTATCACTTTGTCTCTTGATCAAATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAAATAAGTATAGCCAAAGCTAT
693643 CACTTATCACTTT
1 CACTTATCACTTT
693656 CCACTTGATC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTGTCTCTTGATCAAATAAGTATAGCCAAAGCTAT
Found at i:693652 original size:7 final size:7
Alignment explanation
Indices: 693640--693749 Score: 99
Period size: 7 Copynumber: 15.7 Consensus size: 7
693630 TAGCCGAAGC
693640 TATCACT
1 TATCACT
693647 TATCACT
1 TATCACT
693654 T-TCCACT
1 TAT-CACT
693661 TGATCACT
1 T-ATCACT
693669 TATCACT
1 TATCACT
693676 T-TCCACT
1 TAT-CACT
693683 TATCAC-
1 TATCACT
693689 --TCACT
1 TATCACT
693694 TATCACT
1 TATCACT
693701 TATCACT
1 TATCACT
693708 T-TCCACT
1 TAT-CACT
693715 TGATCACT
1 T-ATCACT
693723 TATCACT
1 TATCACT
693730 T-TCCACT
1 TAT-CACT
*
693737 TGTCACT
1 TATCACT
693744 TGATCA
1 T-ATCA
693750 GATAAGTGTA
Statistics
Matches: 88, Mismatches: 1, Indels: 27
0.76 0.01 0.23
Matches are distributed among these distances:
4 4 0.05
6 4 0.05
7 63 0.72
8 15 0.17
9 2 0.02
ACGTcount: A:0.24, C:0.32, G:0.04, T:0.41
Consensus pattern (7 bp):
TATCACT
Found at i:693666 original size:22 final size:21
Alignment explanation
Indices: 693640--693749 Score: 98
Period size: 22 Copynumber: 5.6 Consensus size: 21
693630 TAGCCGAAGC
693640 TATCACTTATCACTTTCCACT
1 TATCACTTATCACTTTCCACT
693661 TGATCACTTATCACTTTCCACT
1 T-ATCACTTATCACTTTCCACT
693683 TATCAC---TCACTTAT-CACT
1 TATCACTTATCACTT-TCCACT
693701 TATCAC-------TTTCCACT
1 TATCACTTATCACTTTCCACT
693715 TGATCACTTATCACTTTCCACT
1 T-ATCACTTATCACTTTCCACT
*
693737 TGTCACTTGATCA
1 TATCACTT-ATCA
693750 GATAAGTGTA
Statistics
Matches: 76, Mismatches: 1, Indels: 23
0.76 0.01 0.23
Matches are distributed among these distances:
13 1 0.01
14 7 0.09
15 5 0.07
18 16 0.21
19 1 0.01
21 12 0.16
22 34 0.45
ACGTcount: A:0.24, C:0.32, G:0.04, T:0.41
Consensus pattern (21 bp):
TATCACTTATCACTTTCCACT
Found at i:693694 original size:18 final size:18
Alignment explanation
Indices: 693649--693707 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 18
693639 CTATCACTTA
693649 TCACTTTCCACTTGATCAC
1 TCACTTTCCACTT-ATCAC
693668 TTATCACTTTCCACTTATCAC
1 ---TCACTTTCCACTTATCAC
693689 TCACTTAT-CACTTATCAC
1 TCACTT-TCCACTTATCAC
693707 T
1 T
693708 TTCCACTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
18 17 0.47
19 1 0.03
21 5 0.14
22 13 0.36
ACGTcount: A:0.24, C:0.34, G:0.02, T:0.41
Consensus pattern (18 bp):
TCACTTTCCACTTATCAC
Found at i:693706 original size:54 final size:54
Alignment explanation
Indices: 693640--693743 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
693630 TAGCCGAAGC
693640 TATCACTTATCACTTTCCACTTGATCACTTATCACTTTCCACTTATCACTCACT
1 TATCACTTATCACTTTCCACTTGATCACTTATCACTTTCCACTTATCACTCACT
*
693694 TATCACTTATCACTTTCCACTTGATCACTTATCACTTTCCACTTGTCACT
1 TATCACTTATCACTTTCCACTTGATCACTTATCACTTTCCACTTATCACT
693744 TGATCAGATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.23, C:0.33, G:0.03, T:0.41
Consensus pattern (54 bp):
TATCACTTATCACTTTCCACTTGATCACTTATCACTTTCCACTTATCACTCACT
Found at i:693794 original size:46 final size:46
Alignment explanation
Indices: 693723--693839 Score: 184
Period size: 46 Copynumber: 2.6 Consensus size: 46
693713 CTTGATCACT
* *
693723 TATCACTT-TCCAC-TTGTCACTTGATCAGATAAGTGTAGCTGAAGC
1 TATCACTTAT-CACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
693768 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
*
693814 TATCACTTATCACTTTATCACTTGAT
1 TATCACTTATCACTTTGTCACTTGAT
693840 TAGAAGTACT
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
45 11 0.16
46 56 0.84
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
Found at i:694725 original size:175 final size:177
Alignment explanation
Indices: 694533--694907 Score: 661
Period size: 177 Copynumber: 2.1 Consensus size: 177
694523 AATTCTGTAA
694533 AATTTTTAATGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTC-CAA
1 AATTTTTAATGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAA
694597 AATCTATTATATCTCATGATTTAC-ATTCCATTGCTCACATCATTTCTTTTATAAG-AACTAGAC
66 AATCTATTATATCTCATGATTTACAATTCCATTGCTCACATCATTTCTTTTATAAGAAACTAGAC
694660 TCAATAAGCTTTAATTTCATATTTTATTC-T-CTCTAATTCAATCTCTAC
131 TCAATAAGC-TTAA-TTCATATTTTATTCATCCTCT-ATTCAATCTCTAC
694708 AATTTTTAATGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAA
1 AATTTTTAATGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAA
694773 AATCTATTATATCTCATGATTTACAATTCCATTGCTCACATCATTTCTTTTATAAGAAACTAGAC
66 AATCTATTATATCTCATGATTTACAATTCCATTGCTCACATCATTTCTTTTATAAGAAACTAGAC
694838 TCAATAAGCTTAATTCATATTTTATTCATCCTCTATTCAATCTCTAC
131 TCAATAAGCTTAATTCATATTTTATTCATCCTCTATTCAATCTCTAC
** *
694885 AATTTTTGGTGATTTTTCAAAGT
1 AATTTTTAATGATTTTCCAAAGT
694908 TACACTACTG
Statistics
Matches: 192, Mismatches: 3, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
175 61 0.32
176 41 0.21
177 69 0.36
178 21 0.11
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.39
Consensus pattern (177 bp):
AATTTTTAATGATTTTCCAAAGTCAGAACAGGGGAACCCGAATTCATTCTGACCTTGTCTCACAA
AATCTATTATATCTCATGATTTACAATTCCATTGCTCACATCATTTCTTTTATAAGAAACTAGAC
TCAATAAGCTTAATTCATATTTTATTCATCCTCTATTCAATCTCTAC
Found at i:699181 original size:10 final size:10
Alignment explanation
Indices: 699168--699192 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
699158 ATATATAAAA
699168 ATAAAATATT
1 ATAAAATATT
699178 ATAAAATATT
1 ATAAAATATT
699188 ATAAA
1 ATAAA
699193 CTTAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAAAATATT
Done.