Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 152 of 207
Found at i:46625744 original size:19 final size:19
Alignment explanation
Indices: 46625720--46625759 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
46625710 ATCTCACCTC
46625720 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTAG-TTA
46625739 ATTCATTTGCATTTAGTTA
1 ATTCATTTGCATTTAGTTA
46625758 AT
1 AT
46625760 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTCATTTGCATTTAGTTA
Found at i:46638962 original size:58 final size:58
Alignment explanation
Indices: 46638834--46638969 Score: 170
Period size: 58 Copynumber: 2.3 Consensus size: 58
46638824 AGTGATCATC
*
46638834 TTAAAT-TTAAATTTAATTTAATATTTATGTTCTTGATAAATATTATATTAATATAATAGA
1 TTAAATATTAAATTTAATCTAATATTTA--TTCTTGATAAATATTATATTAATATAATA-A
* *
46638894 TTTAATATTAAATTTAATCTAATATTTA-TCTTGATAAATATTATATTAATTTAAT-A
1 TTAAATATTAAATTTAATCTAATATTTATTCTTGATAAATATTATATTAATATAATAA
*
46638950 TTAAAGTGATTAAGTTTAAT
1 TTAAA-T-ATTAAATTTAAT
46638970 TATAGTTGAA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
56 5 0.07
57 1 0.01
58 37 0.54
60 5 0.07
61 20 0.29
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (58 bp):
TTAAATATTAAATTTAATCTAATATTTATTCTTGATAAATATTATATTAATATAATAA
Found at i:46642840 original size:31 final size:31
Alignment explanation
Indices: 46642805--46642864 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
46642795 TCAAACTTTG
*
46642805 GACATAGGTATCGATACCCAAATCAGGTACC
1 GACATAGGTATCGATACACAAATCAGGTACC
*
46642836 GACATAGGTATCGATACACAGATCAGGTA
1 GACATAGGTATCGATACACAAATCAGGTA
46642865 TCGATACCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (31 bp):
GACATAGGTATCGATACACAAATCAGGTACC
Found at i:46642865 original size:19 final size:19
Alignment explanation
Indices: 46642841--46642879 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
46642831 GTACCGACAT
46642841 AGGTATCGATACACAGATC
1 AGGTATCGATACACAGATC
*
46642860 AGGTATCGATACCCAGATC
1 AGGTATCGATACACAGATC
46642879 A
1 A
46642880 AGTACCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (19 bp):
AGGTATCGATACACAGATC
Found at i:46643053 original size:20 final size:19
Alignment explanation
Indices: 46643011--46643058 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
46643001 AAGTCAATTC
*
46643011 GTATTGATACCTTTATAAA
1 GTATTGATACCTTGATAAA
46643030 GTATTGAT-CCTTGATGATAA
1 GTATTGATACCTTGAT-A-AA
*
46643050 GTATCGATA
1 GTATTGATA
46643059 TTGTATACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 6 0.25
19 9 0.38
20 9 0.38
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (19 bp):
GTATTGATACCTTGATAAA
Found at i:46645922 original size:13 final size:12
Alignment explanation
Indices: 46645895--46645928 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
46645885 CCTTTTTACA
46645895 TTATTTTAATTT
1 TTATTTTAATTT
*
46645907 TTATTTTAGTTTT
1 TTATTTTA-ATTT
46645920 TTATTTTAA
1 TTATTTTAA
46645929 ATCCATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTATTTTAATTT
Found at i:46647308 original size:16 final size:16
Alignment explanation
Indices: 46647287--46647355 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
46647277 TTTGGTTCGC
46647287 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
46647303 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
46647319 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
46647336 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
46647352 TGTA
1 TGTA
46647356 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 35 0.70
17 15 0.30
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:46647333 original size:33 final size:32
Alignment explanation
Indices: 46647287--46647355 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
46647277 TTTGGTTCGC
46647287 TGTATTGGATTAGAGGTGTATTGGATTAGAAG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAAG
*
46647319 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAAG
46647352 TGTA
1 TGTA
46647356 ATAGCAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAAG
Found at i:46647611 original size:16 final size:16
Alignment explanation
Indices: 46647571--46647625 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
46647561 TTAATCATAT
*
46647571 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
46647587 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
46647602 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
46647620 -TAAAAT
1 TTAAAAT
46647626 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:46647618 original size:18 final size:17
Alignment explanation
Indices: 46647591--46647625 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46647581 TTTTTATTAA
*
46647591 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46647609 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46647626 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:46647735 original size:120 final size:114
Alignment explanation
Indices: 46647539--46648106 Score: 445
Period size: 120 Copynumber: 4.8 Consensus size: 114
46647529 TAATAAGATT
* * * *
46647539 ATTATTATCAATAATAAATAATTT-AATCAT-ATTTAAACATAATTTTTATTAAATATATTTTAA
1 ATTATTATTAA-AATAAATAATTTAAAACATAATTT-AACATAATTATTATTAAATATAATTTAA
*
46647602 TTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATT-TGT-TTTGGTAA
64 -TAAAATATATAATTTAATAAAATTCTTAATAATTA--A-AAATTCT-TATAT-G-AA
*
46647658 ATTATTATTAACAATAAATAATTTAAAAGATAATTTAACATAATTATTATTAAATATAATTTAAT
1 ATTATTATTAA-AATAAATAATTTAAAACATAATTTAACATAATTATTATTAAATATAATTTAAT
*
46647723 AATAATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATGAA
65 AA-AATATATAATTTAATAAAATTCTTAATAATTAAAAATTCTTATATGAA
* * * * * *
46647773 TTTAATAAAATTATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAAT
1 ATT-AT--TATTA-AA-ATA-AATAATTTAAAACATAATTTAACATAATTATTATTAAATATAAT
* * *
46647838 TTAATAGAAATATATAATTTAATAAAATTCTTAATATTTAAATATTCTTAAATGAA
60 TTAATA-AAATATATAATTTAATAAAATTCTTAATAATTAAAAATTCTTATATGAA
* * * * * * *
46647894 TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAAATATA
1 ATTA-T--TAT--TAAAATA-AATAATTTAAAACATAATTTAACATAATTATTATT--AAATATA
* *
46647959 ATTTAGTAAAAATATATAATTTAATAAAATTCTTTAAT-ATTAAATATTC-T-TA-GAA
58 ATTTAAT-AAAATATATAATTTAATAAAATTC-TTAATAATTAAAAATTCTTATATGAA
* * * * * * *
46648014 TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAA-ATTAATTATTTTTAAATATAA
1 ATTA-T--TAT--TAAAATA-AATAATTTAAAACATAATTTAACA-TAATTATTATTAAATATAA
*
46648078 TTTAATAAAAATATATAATTTAATCAAAT
59 TTTAAT-AAAATATATAATTTAATAAAAT
46648107 CATTATATTC
Statistics
Matches: 405, Mismatches: 23, Indels: 43
0.86 0.05 0.09
Matches are distributed among these distances:
115 4 0.01
116 8 0.02
117 4 0.01
118 40 0.10
119 34 0.08
120 187 0.46
121 72 0.18
122 2 0.00
123 48 0.12
124 6 0.01
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (114 bp):
ATTATTATTAAAATAAATAATTTAAAACATAATTTAACATAATTATTATTAAATATAATTTAATA
AAATATATAATTTAATAAAATTCTTAATAATTAAAAATTCTTATATGAA
Found at i:46647819 original size:22 final size:23
Alignment explanation
Indices: 46647777--46647819 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
46647767 TATGAATTTA
*
46647777 ATAAAATTATAATATATAATACT
1 ATAAAATTATAATATAAAATACT
*
46647800 ATAAAA-TATAATTTAAAATA
1 ATAAAATTATAATATAAAATA
46647820 ATTATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAAATTATAATATAAAATACT
Found at i:46647872 original size:17 final size:18
Alignment explanation
Indices: 46647831--46647865 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
46647821 TTATTATTAA
46647831 ATATAATTTAATAGAAAT
1 ATATAATTTAATAGAAAT
46647849 ATATAATTTAATA-AAAT
1 ATATAATTTAATAGAAAT
46647866 TCTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAGAAAT
Found at i:46647969 original size:15 final size:16
Alignment explanation
Indices: 46647923--46647987 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
46647913 ATAATACTAT
46647923 AAAATATAATTTAA-A
1 AAAATATAATTTAATA
* *
46647938 ATAAT-T-A-TTATTA
1 AAAATATAATTTAATA
*
46647951 AAAATATAATTTAGTAA
1 AAAATATAATTTAAT-A
46647968 AAATATATAATTTAATA
1 AAA-ATATAATTTAATA
46647985 AAA
1 AAA
46647988 TTCTTTAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
12 3 0.08
13 6 0.15
14 2 0.05
15 5 0.13
16 4 0.10
17 8 0.21
18 11 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
AAAATATAATTTAATA
Found at i:46647975 original size:18 final size:17
Alignment explanation
Indices: 46647950--46647987 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
46647940 AATTATTATT
*
46647950 AAAAATATAATTTAGTA
1 AAAAATATAATTTAATA
46647967 AAAATATATAATTTAATA
1 AAAA-ATATAATTTAATA
46647985 AAA
1 AAA
46647988 TTCTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAAATATAATTTAATA
Found at i:46652360 original size:23 final size:23
Alignment explanation
Indices: 46652334--46652384 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
46652324 TTTGCTGAAG
*
46652334 TTAAATGAAAATATTCGTGAACA
1 TTAAATGAAAATATTCGTAAACA
* *
46652357 TTAAATTAATATATTCGTAAACA
1 TTAAATGAAAATATTCGTAAACA
46652380 TTAAA
1 TTAAA
46652385 CAAATATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (23 bp):
TTAAATGAAAATATTCGTAAACA
Found at i:46652390 original size:23 final size:23
Alignment explanation
Indices: 46652344--46652391 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
46652334 TTAAATGAAA
* **
46652344 ATATTCGTGAACATTAAATTAAT
1 ATATTCGTAAACATTAAACAAAT
46652367 ATATTCGTAAACATTAAACAAAT
1 ATATTCGTAAACATTAAACAAAT
46652390 AT
1 AT
46652392 GTTTAGTAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATTCGTAAACATTAAACAAAT
Found at i:46658664 original size:7 final size:8
Alignment explanation
Indices: 46658647--46658673 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
46658637 TCTCTCTCTC
46658647 TTTTTCTT
1 TTTTTCTT
46658655 TTTTTCTT
1 TTTTTCTT
46658663 TTTTTCTT
1 TTTTTCTT
46658671 TTT
1 TTT
46658674 GTAATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTCTT
Found at i:46661643 original size:28 final size:28
Alignment explanation
Indices: 46661612--46661763 Score: 92
Period size: 28 Copynumber: 5.2 Consensus size: 28
46661602 AAAAGCTTTC
46661612 TTTTCAGAGATTTGCCACAAAGGCATCA
1 TTTTCAGAGATTTGCCACAAAGGCATCA
* * * * * * * *
46661640 TTTTTATTCAGTACTCGCTAAAAAGGCTTCCC
1 TTTTCA--GAG-ATTTGCCACAAAGGCAT-CA
46661672 TTTT-AGAGATTTGCCACAAAGGCATCA
1 TTTTCAGAGATTTGCCACAAAGGCATCA
* * * * * *
46661699 TTTTCATTCAGTACTCGCCAAAAAGGCTTTCC
1 TTTTCA--GAG-ATTTGCCACAAAGGC-ATCA
46661731 TTTT-AGAGATTTGCCACAAAGGCATCA
1 TTTTCAGAGATTTGCCACAAAGGCATCA
46661758 TTTTCA
1 TTTTCA
46661764 TTCAATACTC
Statistics
Matches: 87, Mismatches: 27, Indels: 20
0.65 0.20 0.15
Matches are distributed among these distances:
27 11 0.13
28 31 0.36
29 4 0.05
30 4 0.05
31 26 0.30
32 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (28 bp):
TTTTCAGAGATTTGCCACAAAGGCATCA
Found at i:46661665 original size:31 final size:31
Alignment explanation
Indices: 46661625--46661725 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 31
46661615 TCAGAGATTT
*
46661625 GCCACAAAGGCATCATTTTTATTCAGTACTC
1 GCCAAAAAGGCATCATTTTTATTCAGTACTC
* * ** * * *
46661656 GCTAAAAAGGCTTCCCTTTTA--GAG-ATTT
1 GCCAAAAAGGCATCATTTTTATTCAGTACTC
* *
46661684 GCCACAAAGGCATCATTTTCATTCAGTACTC
1 GCCAAAAAGGCATCATTTTTATTCAGTACTC
46661715 GCCAAAAAGGC
1 GCCAAAAAGGC
46661726 TTTCCTTTTA
Statistics
Matches: 49, Mismatches: 18, Indels: 6
0.67 0.25 0.08
Matches are distributed among these distances:
28 17 0.35
29 2 0.04
30 2 0.04
31 28 0.57
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
GCCAAAAAGGCATCATTTTTATTCAGTACTC
Found at i:46661682 original size:59 final size:59
Alignment explanation
Indices: 46661597--46662159 Score: 614
Period size: 59 Copynumber: 9.7 Consensus size: 59
46661587 AACAGAGGTA
* *
46661597 GCCACAAAAGCTTT-CTTTTCAGAGATTTGCCACAAAGGCATCATTTTTATTCAGTACTC
1 GCCACAAAGGCTTTCCTTTT-AGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * *
46661656 GCTAAAAAGGCTTCCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* *
46661715 GCCAAAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAATACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * *
46661774 -CCTACAAAGGCTTT-CTTTTAAGTGATTTTCCACAAAATGCATCACTTTT-ATTTAGTATTC
1 GCC-ACAAAGGCTTTCCTTTT-AGAGATTTGCCAC-AAAGGCATCA-TTTTCATTCAGTACTC
* * * *
46661834 GTCACAAAGGCTTTCCTTTAAGAGATTTGCCACAAAGGTATCCTTTTCATTCAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * *
46661893 GCCACAAATGCTTTCCTTTCAAAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * *
46661952 GCCACAAAGGCTTTCCTTTAAGAGATTTTCCACAAAGGCATCCTTTTCATTCAATA-TC
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * * *
46662010 GCCACAAAGGCTCTCCTTTCAAAGATTTGCCACAAAGACATCCTTTTCATTCAGTACTT
1 GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* * * * * *
46662069 GCCACAAA-G--TT-C----A-ATGATTTTCTACAAATGAATCATTTTCTTTTAGTACTC
1 GCCACAAAGGCTTTCCTTTTAGA-GATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
* *
46662120 GCCACAAAGGCTTTCCTTTTTGTAGGTTTGCCACAAAGGC
1 GCCACAAAGGCTTTCCTTTTAG-AGATTTGCCACAAAGGC
46662160 TTTCCTTTTC
Statistics
Matches: 427, Mismatches: 57, Indels: 39
0.82 0.11 0.07
Matches are distributed among these distances:
50 1 0.00
51 36 0.08
52 1 0.00
54 2 0.00
55 2 0.00
56 1 0.00
58 64 0.15
59 255 0.60
60 55 0.13
61 10 0.02
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (59 bp):
GCCACAAAGGCTTTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTC
Found at i:46661908 original size:178 final size:175
Alignment explanation
Indices: 46661597--46662077 Score: 644
Period size: 178 Copynumber: 2.7 Consensus size: 175
46661587 AACAGAGGTA
* * * * *
46661597 GCCACAAAAGCTTTCTTTTCAGAGATTTGCCACAAAGGCATCATTTTTATTCAGTACTCGCTAAA
1 GCCACAAAGGCTTTCTTTTAAGAGATTTTCCACAAAGGCATCACTTTTATTCAGTA-TCGC-ACA
* * * *
46661662 AAGGCTTCCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAGTACTCGCCAAAAAGGCT
64 AAGGCTTTCCTTTAAGAGATTTGCCACAAAGGCATCCTTTTCATTCAGTACTCGCCACAAAGGCT
* *
46661727 TTCCTTTTAGAGATTTGCCACAAAGGCATCATTTTCATTCAATACTC
129 TTCCTTTCAAAGATTTGCCACAAAGGCATCATTTTCATTCAATACTC
* * *
46661774 -CCTACAAAGGCTTTCTTTTAAGTGATTTTCCACAAAATGCATCACTTTTATTTAGTATTCGTCA
1 GCC-ACAAAGGCTTTCTTTTAAGAGATTTTCCAC-AAAGGCATCACTTTTATTCAGTA-TCG-CA
* *
46661838 CAAAGGCTTTCCTTTAAGAGATTTGCCACAAAGGTATCCTTTTCATTCAGTACTCGCCACAAATG
62 CAAAGGCTTTCCTTTAAGAGATTTGCCACAAAGGCATCCTTTTCATTCAGTACTCGCCACAAAGG
* * *
46661903 CTTTCCTTTCAAAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTC
127 CTTTCCTTTCAAAGATTTGCCACAAAGGCATCATTTTCATTCAATACTC
* *
46661952 GCCACAAAGGCTTTCCTTTAAGAGATTTTCCACAAAGGCATC-CTTTTCATTCAATATCGCCACA
1 GCCACAAAGGCTTTCTTTTAAGAGATTTTCCACAAAGGCATCACTTTT-ATTCAGTATCG-CACA
* * *
46662016 AAGGCTCTCCTTTCAA-AGATTTGCCACAAAGACATCCTTTTCATTCAGTACTTGCCACAAAG
64 AAGGCTTTCCTTT-AAGAGATTTGCCACAAAGGCATCCTTTTCATTCAGTACTCGCCACAAAG
46662078 TTCAATGATT
Statistics
Matches: 267, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
176 68 0.25
177 42 0.16
178 154 0.58
179 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (175 bp):
GCCACAAAGGCTTTCTTTTAAGAGATTTTCCACAAAGGCATCACTTTTATTCAGTATCGCACAAA
GGCTTTCCTTTAAGAGATTTGCCACAAAGGCATCCTTTTCATTCAGTACTCGCCACAAAGGCTTT
CCTTTCAAAGATTTGCCACAAAGGCATCATTTTCATTCAATACTC
Found at i:46662108 original size:51 final size:51
Alignment explanation
Indices: 46662027--46662128 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 51
46662017 AGGCTCTCCT
* *
46662027 TTCAAAGATTTGCCACAAAGACATCCTTTTCATTCAGTACTTGCCACAAAG
1 TTCAAAGATTTGCCACAAAGACATCATTTTCATTCAGTACTCGCCACAAAG
* * * * *
46662078 TTCAATGATTTTCTACAAATGA-ATCATTTTCTTTTAGTACTCGCCACAAAG
1 TTCAAAGATTTGCCACAAA-GACATCATTTTCATTCAGTACTCGCCACAAAG
46662129 GCTTTCCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 41 0.95
52 2 0.05
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (51 bp):
TTCAAAGATTTGCCACAAAGACATCATTTTCATTCAGTACTCGCCACAAAG
Found at i:46662182 original size:29 final size:29
Alignment explanation
Indices: 46662121--46662198 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
46662111 TTAGTACTCG
** * **
46662121 CCACAAAGGCTTTCCTTTTTGTAGGTTTG
1 CCACAAAGGCTTTCCTTTTCATAAGTTCA
46662150 CCACAAAGGCTTTCCTTTTCATAAGTTCA
1 CCACAAAGGCTTTCCTTTTCATAAGTTCA
* *
46662179 CCACAAAGGTTTTTCTTTTC
1 CCACAAAGGCTTTCCTTTTC
46662199 TGACGTGTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (29 bp):
CCACAAAGGCTTTCCTTTTCATAAGTTCA
Found at i:46675813 original size:12 final size:12
Alignment explanation
Indices: 46675796--46675822 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46675786 ATGAAGTGGA
46675796 TCCTTGCAAGGC
1 TCCTTGCAAGGC
46675808 TCCTTGCAAGGC
1 TCCTTGCAAGGC
46675820 TCC
1 TCC
46675823 AAGTATTGAT
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:0.15, C:0.37, G:0.22, T:0.26
Consensus pattern (12 bp):
TCCTTGCAAGGC
Found at i:46681852 original size:44 final size:45
Alignment explanation
Indices: 46681707--46681840 Score: 150
Period size: 45 Copynumber: 3.0 Consensus size: 45
46681697 GCTCCACTGT
* ** *
46681707 AACTTAAGGGAGATAAGATTTGCCATCTTCGATCTGC-CTCACTAC
1 AACTTCAGGGAGATAAGACCTGCCATCTTCGATCTGCTC-CGCTAC
* * *
46681752 AACTTCAGGGGGATAAGACCTG-CTTGC-TC-AGTCTGCTCCGCTGC
1 AACTTCAGGGAGATAAGACCTGCCAT-CTTCGA-TCTGCTCCGCTAC
46681796 AACTTCAGGGAGATAAGACCTGCCATCTTCGATCTGCTCCGCTAC
1 AACTTCAGGGAGATAAGACCTGCCATCTTCGATCTGCTCCGCTAC
46681841 TGCTTAGGGA
Statistics
Matches: 73, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
43 1 0.01
44 35 0.48
45 36 0.49
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (45 bp):
AACTTCAGGGAGATAAGACCTGCCATCTTCGATCTGCTCCGCTAC
Found at i:46681963 original size:131 final size:131
Alignment explanation
Indices: 46681821--46682300 Score: 766
Period size: 131 Copynumber: 3.7 Consensus size: 131
46681811 AGACCTGCCA
* ** * *
46681821 TCTTCGATCTGCTCCGCTACT-GCTTAGGGAGACCAGATCTATAATTTCCAACCTATTCCACTAC
1 TCTTCGATCTGCTCCACTA-TAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTAC
* * ** *
46681885 TGAC-CAGGGACATAGGACTTGTGGCTTGAATCTGCTTCCCTACTCCTGGGGAAGATAAGATTCA
65 TG-CTCAGGGAAATAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCG
46681949 CCG
129 CCG
**
46681952 TCTTCGATCTGCTCCACTATTTCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
1 TCTTCGATCTGCTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
*
46682017 GCTCAGGGAAATAAGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
66 GCTCAGGGAAATAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
46682082 G
131 G
*
46682083 TCTTCGATCTGCTCCACTATAGCTTACGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
1 TCTTCGATCTGCTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
* *
46682148 GCTCAGGGAAATAGAACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCT
66 GCTCAGGGAAATAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
46682213 G
131 G
* *
46682214 TCTTCGATCTACTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCT
1 TCTTCGATCTGCTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
46682279 GCTCAGGGAAATAGGACTTGTG
66 GCTCAGGGAAATAGGACTTGTG
46682301 ATTTCACCAA
Statistics
Matches: 325, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
130 2 0.01
131 323 0.99
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (131 bp):
TCTTCGATCTGCTCCACTATAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTACT
GCTCAGGGAAATAGGACTTGTGGCTTAAATCTATTTCCCTACTCCTGGGGAAGATAAGATTCGCC
G
Found at i:46682274 original size:44 final size:43
Alignment explanation
Indices: 46681964--46682287 Score: 148
Period size: 44 Copynumber: 7.4 Consensus size: 43
46681954 TTCGATCTGC
* *
46681964 TCCACTATTTCTTAGGGAGATAAGATCTGTAGTTTCCAACCTAT
1 TCCACTACTGCTTAGGGAGATAAGATCTGTAGTTT-CAACCTAT
* * * * * *
46682008 TCCACTACTGCTCAGGGAAATAAGA-CTTGTGGCTTAAATCTATT
1 TCCACTACTGCTTAGGGAGATAAGATC-TGTAGTTTCAACCTA-T
* * ** * * **
46682052 TCC-CTACT-CCTGGGGAAGATAAGAT-TCGCCGTCTTCGATCTGC
1 TCCACTACTGCTTAGGG-AGATAAGATCT-GTAGT-TTCAACCTAT
*
46682095 TCCACTA-TAGCTTACGGAGATAAGATCTGTAGTTTCCAACCTAT
1 TCCACTACT-GCTTAGGGAGATAAGATCTGTAGTTT-CAACCTAT
* * * * * * *
46682139 TCCACTACTGCTCAGGGAAAT-AGAACTTGTGGCTTAAATCTATT
1 TCCACTACTGCTTAGGGAGATAAGATC-TGTAGTTTCAACCTA-T
* * * * *
46682183 TCC-CTACT-CCTGGGGAAGATAAGAT-TCGCT-GTCTTCGATCTAC
1 TCCACTACTGCTTAGGG-AGATAAGATCT-G-TAGT-TTCAACCTAT
46682226 TCCACTA-TAGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTAT
1 TCCACTACT-GCTTAGGGAGATAAGATCTGTAGTTT-CAACCTAT
* *
46682270 TCCACTGCTGCTCAGGGA
1 TCCACTACTGCTTAGGGA
46682288 AATAGGACTT
Statistics
Matches: 202, Mismatches: 52, Indels: 52
0.66 0.17 0.17
Matches are distributed among these distances:
42 10 0.05
43 52 0.26
44 127 0.63
45 13 0.06
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
TCCACTACTGCTTAGGGAGATAAGATCTGTAGTTTCAACCTAT
Found at i:46683541 original size:7 final size:7
Alignment explanation
Indices: 46683520--46683576 Score: 73
Period size: 7 Copynumber: 8.0 Consensus size: 7
46683510 CCTTAGCCTC
46683520 TTCATTT
1 TTCATTT
46683527 TT-ACTTT
1 TTCA-TTT
46683534 TTCATTT
1 TTCATTT
46683541 TTCATTT
1 TTCATTT
46683548 TTCA-TT
1 TTCATTT
46683554 TTCATTTTT
1 TTCA--TTT
46683563 TTCATTT
1 TTCATTT
46683570 TTCATTT
1 TTCATTT
46683577 CTTTTTTTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.16
7 31 0.69
8 1 0.02
9 6 0.13
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCATTT
Found at i:46683544 original size:21 final size:21
Alignment explanation
Indices: 46683520--46683584 Score: 80
Period size: 22 Copynumber: 3.1 Consensus size: 21
46683510 CCTTAGCCTC
*
46683520 TTCATTTTTACTTTTTCA-TTT
1 TTCATTTTT-CATTTTCATTTT
46683541 TTCATTTTTCATTTTCATTTTT
1 TTCATTTTTCATTTTCA-TTTT
*
46683563 TTCATTTTTCA-TTTCTTTTT
1 TTCATTTTTCATTTTCATTTT
46683583 TT
1 TT
46683585 TGACTCAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
20 13 0.32
21 13 0.32
22 14 0.35
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCATTTTTCATTTTCATTTT
Found at i:46684506 original size:6 final size:6
Alignment explanation
Indices: 46684497--46684537 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
46684487 TTTCTCTCAT
*
46684497 TTTTGA TTTTGA TTTTTTA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA -TTTTGA TTTTGA TTTTGA TTTTGA TTTT
46684538 TTTCCTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (6 bp):
TTTTGA
Found at i:46684513 original size:13 final size:13
Alignment explanation
Indices: 46684495--46684538 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
46684485 TTTTTCTCTC
46684495 ATTTTTGATTTTG
1 ATTTTTGATTTTG
*
46684508 ATTTTTTATTTTG
1 ATTTTTGATTTTG
46684521 A-TTTTGATTTTG
1 ATTTTTGATTTTG
46684533 ATTTTT
1 ATTTTT
46684539 TTCCTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.73
Consensus pattern (13 bp):
ATTTTTGATTTTG
Found at i:46684538 original size:19 final size:18
Alignment explanation
Indices: 46684497--46684537 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
46684487 TTTCTCTCAT
*
46684497 TTTTGATTTTGATTTTTTA
1 TTTTGATTTTGA-TTTTGA
46684516 TTTTGATTTTGATTTTGA
1 TTTTGATTTTGATTTTGA
46684534 TTTT
1 TTTT
46684538 TTTCCTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (18 bp):
TTTTGATTTTGATTTTGA
Found at i:46684550 original size:25 final size:25
Alignment explanation
Indices: 46684496--46684550 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
46684486 TTTTCTCTCA
* *
46684496 TTTTTGATTTTGATTTTTTATTTTG
1 TTTTTGATTTTGATTTTTTATCTTC
*
46684521 ATTTTGATTTTGATTTTTT-TCCTTC
1 TTTTTGATTTTGATTTTTTAT-CTTC
46684546 TTTTT
1 TTTTT
46684551 TTTCTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.11, C:0.05, G:0.09, T:0.75
Consensus pattern (25 bp):
TTTTTGATTTTGATTTTTTATCTTC
Found at i:46686730 original size:22 final size:22
Alignment explanation
Indices: 46686713--46686763 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
46686703 TCCCAAATAT
46686713 CCAAAGAAAGACAACCAAACAAC
1 CCAAA-AAAGACAACCAAACAAC
*
46686736 CCAAAATAGACAACCAAACAAC
1 CCAAAAAAGACAACCAAACAAC
46686758 CCAAAA
1 CCAAAA
46686764 TAGTGATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.61, C:0.31, G:0.06, T:0.02
Consensus pattern (22 bp):
CCAAAAAAGACAACCAAACAAC
Found at i:46686764 original size:22 final size:22
Alignment explanation
Indices: 46686721--46686766 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
46686711 ATCCAAAGAA
46686721 AGACAACCAAACAACCCAAAAT
1 AGACAACCAAACAACCCAAAAT
46686743 AGACAACCAAACAACCCAAAAT
1 AGACAACCAAACAACCCAAAAT
46686765 AG
1 AG
46686767 TGATATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.59, C:0.30, G:0.07, T:0.04
Consensus pattern (22 bp):
AGACAACCAAACAACCCAAAAT
Found at i:46692210 original size:30 final size:30
Alignment explanation
Indices: 46692176--46692254 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
46692166 GGTTGACATG
* **
46692176 TCCCTTTTCATAATTTGATAGCCGAAGTTA
1 TCCCTTTTCATAATTTGATAACCGAAGCAA
** * *
46692206 TCCCTTAACATAGTTTGATAATCGAAGCAA
1 TCCCTTTTCATAATTTGATAACCGAAGCAA
*
46692236 TCCCTTTTTATAATTTGAT
1 TCCCTTTTCATAATTTGAT
46692255 GGTCGTCACC
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (30 bp):
TCCCTTTTCATAATTTGATAACCGAAGCAA
Found at i:46692270 original size:30 final size:30
Alignment explanation
Indices: 46692235--46692394 Score: 130
Period size: 30 Copynumber: 5.3 Consensus size: 30
46692225 AATCGAAGCA
*
46692235 ATCCCTTTTTATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* ** *
46692265 GTCCCTTTTCATAATTCAATGGTCTTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
*
46692295 ATCCCTTTTCATAATTTGATGG-CAG-AAGCC
1 ATCCCTTTTCATAATTTGATGGTC-GTCA-CC
* * * ***
46692325 ATCCCTTTTCA-AAGATCGATAG-CCAAAGCC
1 ATCCCTTTTCATAA-TTTGATGGTCGTCA-CC
* *
46692355 ATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
46692385 ATCCCTTTTC
1 ATCCCTTTTC
46692395 TTGAACGATA
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
29 4 0.04
30 97 0.93
31 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:46705600 original size:129 final size:129
Alignment explanation
Indices: 46705357--46705845 Score: 791
Period size: 129 Copynumber: 3.8 Consensus size: 129
46705347 GTGAAGATAG
* *
46705357 CAGATCTTGTCACCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGTGTA
* *
46705422 AGGAAGCAGATTTAAGGCACAAGTCCTATATCCCTGGTCAGCAGTGGAATAGGTTGAGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTGGAATAGGTTGAGAAATTA
*
46705486 CAGATCTTGCCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGTGTA
* * * *
46705551 AGGAAGCAGATTTAAGCCATAAGTCCTATATCCCTGATCAGTAGCGGAATAGGTTGGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTGGAATAGGTTGAGAAATTA
* *
46705615 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCAAAGACGGCGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGTGTA
* * *
46705680 AGGAAGGAGATTTAAGCCACAAGTCATATATCCCTGGTCAGCAGTGGAATAGGTT-AGGAAATTA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTGGAATAGGTTGA-GAAATTA
* * *
46705744 CAGATTTTGTCTCCCTATGCAGTAGCGGAGCAGATCGAAGACGATGAATCTTATCTTCAAGTGTA
1 CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGTGTA
* *
46705809 AGGAAGCAGATTTAAGCCACAAATCCTATCTCCCTGA
66 AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGA
46705846 AGTTGTAGTG
Statistics
Matches: 330, Mismatches: 29, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
129 330 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (129 bp):
CAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCAAGTGTA
AGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGATCAGCAGTGGAATAGGTTGAGAAATTA
Found at i:46705908 original size:44 final size:45
Alignment explanation
Indices: 46705835--46706073 Score: 144
Period size: 44 Copynumber: 5.6 Consensus size: 45
46705825 CCACAAATCC
* * *
46705835 TATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAG-TAATAGATCA
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCTAATAGATCT
* * * *
46705879 TATCTCTCTGAAGTTGCAGTAGAGTGGATC---GCT-TTAAATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCTAATAGATCT
* * * * ** *
46705920 TATCTCCCTGAGGTTGCAGT-GAAACAGATTAAAGCCGATA-ATCC
1 TATCTCCCTGAAGTTGCAGTAG-AGCGGATCAAAGCTAATAGATCT
* * * * *
46705964 TATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAG-TAATAGGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCTAATAGATCT
* * * *
46706008 TATCTCTCTGAAGTTGCTGTAGAGTGGATC---GC--ATCAGGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCTAAT-AGATCT
* *
46706049 TATCTCCCTGAGGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTAGAGC
46706074 ACACTGAGAA
Statistics
Matches: 148, Mismatches: 37, Indels: 23
0.71 0.18 0.11
Matches are distributed among these distances:
40 3 0.02
41 55 0.37
42 1 0.01
43 3 0.02
44 83 0.56
45 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTAGAGCGGATCAAAGCTAATAGATCT
Found at i:46706107 original size:129 final size:129
Alignment explanation
Indices: 46705830--46706069 Score: 372
Period size: 129 Copynumber: 1.9 Consensus size: 129
46705820 TTAAGCCACA
46705830 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
* * * * *
46705895 CAGTAGAGTGGATCGCTTTAAATCTTATCTCCCTGAGGTTGCAGTGAAACAGATTAAAGCCGAT
66 CAGTAGAGTGGATCGCATCAAATCTTATCTCCCTGAGGTTGCAGTGAAACACATGAAAGACGAT
* * * *
46705959 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGGTCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
* **
46706024 CTGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTG
66 CAGTAGAGTGGATCGCATCAAATCTTATCTCCCTGAGGTTGCAGTG
46706070 GAGCACACTG
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 102 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
CAGTAGAGTGGATCGCATCAAATCTTATCTCCCTGAGGTTGCAGTGAAACACATGAAAGACGAT
Found at i:46706123 original size:129 final size:129
Alignment explanation
Indices: 46705830--46706124 Score: 317
Period size: 129 Copynumber: 2.3 Consensus size: 129
46705820 TTAAGCCACA
* * * * * *
46705830 AATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATCAAAGTAATAGATCATATCTCTCTGAAGTTG
1 AATCCTATCCCCCTAAAGTTATAGCGGAGCAGATTAAAGTAATAGATCATATCTCTCTGAAGTTG
* * * * *
46705895 CAGTAGAGTGGATCGCTTTAAATCTTATCTCCCTGAGGTTGCAGTGAAACAGATTAAAGCCGAT
66 CAGTAGAGTGGATCGCATCAAATCTTATCTCCCTGAGGTTGCAGTGAAACACATGAAAGACGAT
* * * * * *
46705959 AATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGTAATAGGTCTTATCTCTCTGAAGTTG
1 AATCCTATCCCCCTAAAGTTATAGCGGAGCAGATTAAAGTAATAGATCATATCTCTCTGAAGTTG
* ** * *
46706024 CTGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCACACTGAGAAGAC-A
66 CAGTAGAGTGGATCGCATCAAATCTTATCTCCCTGAGGTTGCAGTGAAACACA-TGA-AAGACGA
46706088 -
129 T
* * *
46706088 AGTCTTATCCCCCTGAAGTTATAGCGTG-GCAGATTAA
1 AATCCTATCCCCCTAAAGTTATAGCG-GAGCAGATTAA
46706125 GAATAGCAAT
Statistics
Matches: 142, Mismatches: 21, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
129 134 0.94
130 4 0.03
131 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (129 bp):
AATCCTATCCCCCTAAAGTTATAGCGGAGCAGATTAAAGTAATAGATCATATCTCTCTGAAGTTG
CAGTAGAGTGGATCGCATCAAATCTTATCTCCCTGAGGTTGCAGTGAAACACATGAAAGACGAT
Found at i:46707434 original size:5 final size:5
Alignment explanation
Indices: 46707420--46707453 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
46707410 TGGGCTCTTG
46707420 TTTT- TTTTA TTTTA TTTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTT
46707454 TTTCTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTA
Found at i:46707445 original size:16 final size:15
Alignment explanation
Indices: 46707420--46707456 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 15
46707410 TGGGCTCTTG
46707420 TTTTTTTTATTTTAT
1 TTTTTTTTATTTTAT
46707435 TTTTATTTTATTTTAT
1 TTTT-TTTTATTTTAT
46707451 TTTTTT
1 TTTTTT
46707457 CTTTTTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTTTTTTATTTTAT
Found at i:46707454 original size:11 final size:11
Alignment explanation
Indices: 46707423--46707453 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
46707413 GCTCTTGTTT
46707423 TTTTTATTTTA
1 TTTTTATTTTA
46707434 TTTTTATTTTA
1 TTTTTATTTTA
46707445 -TTTTATTTT
1 TTTTTATTTT
46707454 TTTCTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:46713474 original size:27 final size:27
Alignment explanation
Indices: 46713444--46713498 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
46713434 TATTATAAAA
*
46713444 TTAATTAAAATTTA-ATATTTTAATAAT
1 TTAAGTAAAATTTATATATTTT-ATAAT
* *
46713471 TTAAGTACAATTTATTTATTTTATAAT
1 TTAAGTAAAATTTATATATTTTATAAT
46713498 T
1 T
46713499 ATATTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
TTAAGTAAAATTTATATATTTTATAAT
Found at i:46713796 original size:106 final size:106
Alignment explanation
Indices: 46713589--46714215 Score: 729
Period size: 106 Copynumber: 5.9 Consensus size: 106
46713579 TGTGTTTCTA
* * * * * *
46713589 GTAGGTCATCGAGCCGTTTTAGAATTTTCGATATTAAATCAGCTAACT-AAA-AAAGCTTGGGTT
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAA-CTTAGGTT
* *
46713652 GCAATCTTAAATCAACTAAACTTTATAATATCAGTTATGAAT
65 GCGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
*
46713694 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATTAGCTAACTCAAAGAAACTTAGGTTG
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
* * *
46713759 CGATATTAAACCAACTAACCTTTATAATATCAATTATGAAT
66 CGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
** * * * * *
46713800 GTAGGTCATCGATTTTTTTTAAGAGTTGCAATCTTAAATCAGTTAACTCAATGAAACTTAGGTTG
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
* * ** * **
46713865 AGATCTTAAATCAGCTAACCTTTATAATATCAACTGTGAGC
66 CGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
* * * * * * *
46713906 ATAGGTCATCGAACTGTTTTTGGATTTGCGATCTTAAATTAGTTACCTCAAAGAAACTTAGGTTG
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
* * * * * *
46713971 CAATCCTAAATTAGCTAACCTTTATAATATCAGTTGTGAAC
66 CGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
* * * * * * * *
46714012 ATGGGTGATCAAGTTGTTTTAGGAGTTGCGATATTAAATCATCTAACTCAAAGAAACTTAGGTTA
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
*** *
46714077 CGATCTTCGGTCAACTAACCTTTATAATATCAGCTA-GTAAT
66 CGATCTTAAATCAACTAACCTTTATAATATCAGTTATG-AAT
* *
46714118 GTAGATCATCGAGCTATTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
1 GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
*
46714183 CGATCTTAAATCAACTAACTTTTATAATATCAG
66 CGATCTTAAATCAACTAACCTTTATAATATCAG
46714216 CACTTTTAAA
Statistics
Matches: 436, Mismatches: 83, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
105 43 0.10
106 390 0.89
107 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (106 bp):
GTAGGTCATCGAGCTGTTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGAAACTTAGGTTG
CGATCTTAAATCAACTAACCTTTATAATATCAGTTATGAAT
Found at i:46732448 original size:25 final size:25
Alignment explanation
Indices: 46732420--46732475 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
46732410 AAGCCCTTGG
*
46732420 GGCGAAATCTTTGAAAATCC-TATGT
1 GGCGAAATATTTGAAAATCCTTA-GT
***
46732445 GGCGTGTTATTTGAAAATCCTTAGT
1 GGCGAAATATTTGAAAATCCTTAGT
46732470 GGCGAA
1 GGCGAA
46732476 GTTATCTGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (25 bp):
GGCGAAATATTTGAAAATCCTTAGT
Found at i:46732617 original size:72 final size:71
Alignment explanation
Indices: 46732491--46732629 Score: 188
Period size: 72 Copynumber: 1.9 Consensus size: 71
46732481 CTGGAAAGCC
* * * * *
46732491 TTTGTGTCAAGTCATTTGGAAACCCGTATGGCAAATTCTGCGATGCCTACGTGGCGAGTTGTTAC
1 TTTGTGGCAAGTCATTTGCAAACCCGTATGGCAAATTCTACAATGCCTAAGTGGCGAGTTGTTAC
46732556 TCCACA
66 TCCACA
* ** *
46732562 TTTGTGGCAAGTCATTTGCAAAGCCTGTATGGTGAATTCTACAATGCGTAAGTGGCGAGTTGTTA
1 TTTGTGGCAAGTCATTTGCAAA-CCCGTATGGCAAATTCTACAATGCCTAAGTGGCGAGTTGTTA
46732627 CTC
65 CTC
46732630 TGCCTTTGTA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
71 20 0.34
72 38 0.66
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (71 bp):
TTTGTGGCAAGTCATTTGCAAACCCGTATGGCAAATTCTACAATGCCTAAGTGGCGAGTTGTTAC
TCCACA
Found at i:46735180 original size:18 final size:19
Alignment explanation
Indices: 46735146--46735181 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
46735136 TTCTAATTAG
*
46735146 TTTTAAATGTTAATTATTC
1 TTTTAAATGTGAATTATTC
46735165 TTTTAAA-GTGAATTATT
1 TTTTAAATGTGAATTATT
46735182 AGTCATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTTAAATGTGAATTATTC
Found at i:46736481 original size:39 final size:39
Alignment explanation
Indices: 46736438--46736555 Score: 166
Period size: 39 Copynumber: 3.0 Consensus size: 39
46736428 AACATGTTTT
*
46736438 TGAGTATTACGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
* * *
46736477 TGAGTATTGTGATATGTGCTTGAACGTTATGT-ACTTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGA-TTATA
* *
46736516 TGAGTATTGCAATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
46736555 T
1 T
46736556 ATGTCCTATG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 66 0.97
40 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (39 bp):
TGAGTATTGCGATATATGCTTGAATGTTATGTGATTATA
Found at i:46736570 original size:39 final size:37
Alignment explanation
Indices: 46736438--46736578 Score: 133
Period size: 39 Copynumber: 3.6 Consensus size: 37
46736428 AACATGTTTT
*
46736438 TGAGTATTACGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATT--GATATATGCTTAAATGTTATGTGATTATA
* * *
46736477 TGAGTATTGTGATATGTGCTTGAACGTTATGT-ACTTATA
1 TGAGTA-T-TGATATATGCTTAAATGTTATGTGA-TTATA
46736516 TGAGTATTGCAATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTG--ATATATGCTTAAATGTTATGTGATTATA
*
46736555 T-ATGTCCTATGATATATGCTTAAA
1 TGA-GT-AT-TGATATATGCTTAAA
46736579 AGTGAATATG
Statistics
Matches: 87, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
37 2 0.02
38 3 0.03
39 76 0.87
40 3 0.03
41 3 0.03
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.43
Consensus pattern (37 bp):
TGAGTATTGATATATGCTTAAATGTTATGTGATTATA
Found at i:46737944 original size:24 final size:23
Alignment explanation
Indices: 46737891--46737944 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
46737881 TTAGAATAAT
*
46737891 TTTGTA-TTAGTTTATTTTTCTT
1 TTTGTATTTAGTTTATTTTTCTC
* *
46737913 TTTATATTTAGTGTTATTTTTGTC
1 TTTGTATTTAGT-TTATTTTTCTC
46737937 TTTGTATT
1 TTTGTATT
46737945 GAAGTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 5 0.19
23 5 0.19
24 16 0.62
ACGTcount: A:0.15, C:0.04, G:0.11, T:0.70
Consensus pattern (23 bp):
TTTGTATTTAGTTTATTTTTCTC
Found at i:46748962 original size:41 final size:42
Alignment explanation
Indices: 46748917--46749002 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 42
46748907 AAGCATAAAG
*
46748917 CTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTG-AT
1 CTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGAAT
* *
46748958 CTGAATCAGGCTATAAGCCTAGCGGGCTAAGTGCCGGTGAAT
1 CTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGAAT
46749000 CTG
1 CTG
46749003 TTAAATTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 36 0.88
42 5 0.12
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (42 bp):
CTGAATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGAAT
Found at i:46756162 original size:41 final size:41
Alignment explanation
Indices: 46756105--46756254 Score: 273
Period size: 41 Copynumber: 3.6 Consensus size: 41
46756095 GACTATACAT
46756105 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
46756146 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
46756187 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
46756228 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
46756255 TTAAATTAAG
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
41 101 0.95
42 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:46762399 original size:12 final size:12
Alignment explanation
Indices: 46762370--46762406 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
46762360 TGTCATTTTT
46762370 TTTATT-TT-TA
1 TTTATTATTATA
*
46762380 TATATTATTATA
1 TTTATTATTATA
46762392 TTTATTATTATA
1 TTTATTATTATA
46762404 TTT
1 TTT
46762407 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 5 0.22
11 2 0.09
12 16 0.70
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATTATTATA
Found at i:46762408 original size:37 final size:35
Alignment explanation
Indices: 46762341--46762410 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
46762331 AAAATTTACA
* * *
46762341 TTTATATATTATTATTTCTTGTCATTTTTTTTATT
1 TTTATATATTATTATTTATTATCATATTTTTTATT
*
46762376 TTTATATATTATTATATTTATTATTATATTTTTTA
1 TTTATATATTA-T-TATTTATTATCATATTTTTTA
46762411 AAAAATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 11 0.38
36 1 0.03
37 17 0.59
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (35 bp):
TTTATATATTATTATTTATTATCATATTTTTTATT
Found at i:46763319 original size:9 final size:9
Alignment explanation
Indices: 46763284--46763442 Score: 88
Period size: 9 Copynumber: 16.9 Consensus size: 9
46763274 TATTTTTTTA
46763284 AAAAATTAT
1 AAAAATTAT
*
46763293 ATAAACTTAT
1 A-AAAATTAT
**
46763303 AATGATTAT
1 AAAAATTAT
46763312 AAAAATTAT
1 AAAAATTAT
*
46763321 AAAACTTA-
1 AAAAATTAT
*
46763329 AAGATATTAT
1 AA-AAATTAT
46763339 AAAAATTTAT
1 AAAAA-TTAT
46763349 AATAAATTAT
1 AA-AAATTAT
*
46763359 AAAAATAAT
1 AAAAATTAT
46763368 AAAAA-TATT
1 AAAAATTA-T
* * *
46763377 TAAGATTTT
1 AAAAATTAT
*
46763386 AAAATTTTAT
1 AAAA-ATTAT
*
46763396 ATAAATTAT
1 AAAAATTAT
* *
46763405 AAAAAATCAC
1 -AAAAATTAT
*
46763415 ACAAACTTAT
1 A-AAAATTAT
*
46763425 AAATATTAT
1 AAAAATTAT
46763434 AAAATATTA
1 AAAA-ATTA
46763443 CAAGAAGAAA
Statistics
Matches: 109, Mismatches: 30, Indels: 21
0.68 0.19 0.13
Matches are distributed among these distances:
8 3 0.03
9 58 0.53
10 45 0.41
11 3 0.03
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (9 bp):
AAAAATTAT
Found at i:46765153 original size:18 final size:19
Alignment explanation
Indices: 46765106--46765153 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
46765096 TTATTTCAAA
46765106 ATTATAAAA-TATTAAAAT
1 ATTATAAAAGTATTAAAAT
* *
46765124 ATTAAAAAAAGTATTATAAT
1 ATT-ATAAAAGTATTAAAAT
46765144 -TTATAAAAGT
1 ATTATAAAAGT
46765154 GTTCAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 10 0.40
19 7 0.28
20 8 0.32
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATTATAAAAGTATTAAAAT
Found at i:46766044 original size:30 final size:32
Alignment explanation
Indices: 46765988--46766053 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 32
46765978 TTCTTATAGA
*
46765988 TTGATGGATTTTTATTTGTTATGTTAATTTT-
1 TTGATGGATTTTTATTTGTGATGTTAATTTTC
46766019 TTGATGGATTTTGT-TTT-TGATGTTAATTTTC
1 TTGATGGATTTT-TATTTGTGATGTTAATTTTC
46766050 TTGA
1 TTGA
46766054 GTTTTTTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 12 0.38
31 19 0.59
32 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.18, T:0.62
Consensus pattern (32 bp):
TTGATGGATTTTTATTTGTGATGTTAATTTTC
Found at i:46770852 original size:25 final size:25
Alignment explanation
Indices: 46770796--46770914 Score: 93
Period size: 25 Copynumber: 4.8 Consensus size: 25
46770786 GCTCTCTCTT
* *
46770796 GAGCCATATAATGGGAAGCTCATAT
1 GAGCCATATAACGGGAAGCTCATAA
* *
46770821 GAACCATATAACGGGAAGCTTATAA
1 GAGCCATATAACGGGAAGCTCATAA
* ** **
46770846 GAGCCATA-ATCAAGAAGCTCATGC
1 GAGCCATATAACGGGAAGCTCATAA
* *
46770870 GAGCCA-ATAATGGGTAGCTC-TGAA
1 GAGCCATATAACGGGAAGCTCAT-AA
46770894 GAGCCAT-TAATCGGGAAGCTC
1 GAGCCATATAA-CGGGAAGCTC
46770915 CGGATAGCCA
Statistics
Matches: 70, Mismatches: 20, Indels: 8
0.71 0.20 0.08
Matches are distributed among these distances:
23 2 0.03
24 32 0.46
25 36 0.51
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAA
Found at i:46782208 original size:26 final size:26
Alignment explanation
Indices: 46782139--46782208 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
46782129 TTTAAAGCAC
* *
46782139 AAAAGTATATATAC-ATAAATATTTTT
1 AAAAATATATA-ACAATAAATATTATT
*
46782165 AAAAATATCATAAAAATAAA-ATTATT
1 AAAAATAT-ATAACAATAAATATTATT
46782191 AAAAATATATAGACAATA
1 AAAAATATATA-ACAATA
46782209 TTAGATTAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
25 3 0.08
26 26 0.70
27 8 0.22
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (26 bp):
AAAAATATATAACAATAAATATTATT
Found at i:46783246 original size:18 final size:18
Alignment explanation
Indices: 46783208--46783246 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
46783198 CTTCTTGTAG
*
46783208 GTACGGAGGCTAGCTGGC
1 GTACGGAGGCTAGCTGAC
46783226 GTACGGAGGCGTAG-TGAC
1 GTACGGAGGC-TAGCTGAC
46783244 GTA
1 GTA
46783247 GAGGGAACGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.21, C:0.18, G:0.44, T:0.18
Consensus pattern (18 bp):
GTACGGAGGCTAGCTGAC
Found at i:46786232 original size:37 final size:37
Alignment explanation
Indices: 46786191--46786312 Score: 144
Period size: 37 Copynumber: 3.3 Consensus size: 37
46786181 TCCATTTGAA
46786191 AACACGCCAAATGCTCATAAGAACTCATCCACCTGAT
1 AACACGCCAAATGCTCATAAGAACTCATCCACCTGAT
* * * *
46786228 AACACGCCAATTGCTC-TGAAGAGCT-AGTGCAACC-GAA
1 AACACGCCAAATGCTCAT-AAGAACTCA-T-CCACCTGAT
46786265 AACACGCCAAATGCTCATAA-AAGCTCATCCACCTGAT
1 AACACGCCAAATGCTCATAAGAA-CTCATCCACCTGAT
46786302 AACACGCCAAA
1 AACACGCCAAA
46786313 ACAAGGAGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
36 7 0.10
37 57 0.81
38 6 0.09
ACGTcount: A:0.39, C:0.31, G:0.14, T:0.16
Consensus pattern (37 bp):
AACACGCCAAATGCTCATAAGAACTCATCCACCTGAT
Found at i:46790407 original size:9 final size:9
Alignment explanation
Indices: 46790395--46790435 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
46790385 TTTTGGTTAA
46790395 AATTAACCG
1 AATTAACCG
*
46790404 AATTACCCG
1 AATTAACCG
46790413 AATTAACCG
1 AATTAACCG
*
46790422 AATTACCCG
1 AATTAACCG
46790431 AATTA
1 AATTA
46790436 TATGTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:46790418 original size:18 final size:18
Alignment explanation
Indices: 46790395--46790435 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
46790385 TTTTGGTTAA
46790395 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
46790413 AATTAACCGAATTACCCG
1 AATTAACCGAATTACCCG
46790431 AATTA
1 AATTA
46790436 TATGTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:46790470 original size:25 final size:26
Alignment explanation
Indices: 46790442--46790491 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
46790432 ATTATATGTT
*
46790442 TTTTATTTTTA-AACTTTAATTTTAG
1 TTTTAGTTTTAGAACTTTAATTTTAG
* *
46790467 TTTTAGTTTTAGAATTTTATTTTTA
1 TTTTAGTTTTAGAACTTTAATTTTA
46790492 TTTATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (26 bp):
TTTTAGTTTTAGAACTTTAATTTTAG
Found at i:46790534 original size:5 final size:5
Alignment explanation
Indices: 46790524--46790571 Score: 69
Period size: 5 Copynumber: 9.0 Consensus size: 5
46790514 TTATGATTGT
46790524 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG GTAATTGG GTTGG GTTGG
1 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG G---TTGG GTTGG GTTGG
46790572 ATACTTGGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
5 35 0.88
8 5 0.12
ACGTcount: A:0.04, C:0.00, G:0.56, T:0.40
Consensus pattern (5 bp):
GTTGG
Found at i:46790563 original size:18 final size:17
Alignment explanation
Indices: 46790525--46790592 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 17
46790515 TATGATTGTG
46790525 TTGGGTTGGGTTGGG--
1 TTGGGTTGGGTTGGGTA
46790540 TTGGGTTGGGTTGGGTAA
1 TTGGGTTGGGTTGGGT-A
*
46790558 TTGGGTTGGGTTGGATA
1 TTGGGTTGGGTTGGGTA
*
46790575 CTTGGGTTTGGATTGGGT
1 -TTGGG-TTGGGTTGGGT
46790593 TTAGGTGAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
15 15 0.33
17 1 0.02
18 20 0.44
19 9 0.20
ACGTcount: A:0.07, C:0.01, G:0.50, T:0.41
Consensus pattern (17 bp):
TTGGGTTGGGTTGGGTA
Found at i:46791307 original size:43 final size:43
Alignment explanation
Indices: 46791230--46791362 Score: 151
Period size: 43 Copynumber: 3.1 Consensus size: 43
46791220 AGCATATTGT
* ** * *
46791230 GGCATTTGTAGCTAGAATTGCCGCAAAAGATCATGTTCTTTAGC
1 GGCATTTGTAG-TAAAAGCGCCGCTAAAGATCATGTTCTATAGC
*
46791274 GGCATTTGTAGTAAAAGCGCCGCTAAATATCATGTTCTATAGC
1 GGCATTTGTAGTAAAAGCGCCGCTAAAGATCATGTTCTATAGC
* ** *
46791317 GGCGA-TTGTAATAAAAGCGTTGTTAAAGATCATGTTCTATAGC
1 GGC-ATTTGTAGTAAAAGCGCCGCTAAAGATCATGTTCTATAGC
46791360 GGC
1 GGC
46791363 GTTTTCCCAC
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
43 65 0.84
44 12 0.16
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GGCATTTGTAGTAAAAGCGCCGCTAAAGATCATGTTCTATAGC
Found at i:46791363 original size:43 final size:44
Alignment explanation
Indices: 46791249--46791363 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 44
46791239 AGCTAGAATT
* * *
46791249 GCCGCAAAAGATCATGTTCTTTAGCGGC-ATTTGTAGTAAAAGC
1 GCCGCTAAAGATCATGTTCTATAGCGGCGATTTGTAATAAAAGC
*
46791292 GCCGCTAAATATCATGTTCTATAGCGGCGA-TTGTAATAAAAGC
1 GCCGCTAAAGATCATGTTCTATAGCGGCGATTTGTAATAAAAGC
** *
46791335 GTTGTTAAAGATCATGTTCTATAGCGGCG
1 GCCGCTAAAGATCATGTTCTATAGCGGCG
46791364 TTTTCCCACA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 62 0.98
44 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
GCCGCTAAAGATCATGTTCTATAGCGGCGATTTGTAATAAAAGC
Found at i:46794198 original size:25 final size:24
Alignment explanation
Indices: 46794148--46794195 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
46794138 ATGGGAAAGA
*
46794148 AAAAATTAAGTTAGGGAATTGGGG
1 AAAAACTAAGTTAGGGAATTGGGG
*
46794172 AAAAACTAAGTTAGGGATTTGGGG
1 AAAAACTAAGTTAGGGAATTGGGG
46794196 GAATAAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.33, T:0.25
Consensus pattern (24 bp):
AAAAACTAAGTTAGGGAATTGGGG
Found at i:46794353 original size:43 final size:41
Alignment explanation
Indices: 46794255--46794372 Score: 112
Period size: 41 Copynumber: 2.8 Consensus size: 41
46794245 TTAAAAAATA
* * * *
46794255 TTTGTGGCGTTTATGGGCAAAACACCGCTATTG-CTTTACCT
1 TTTGTGGCGTTTAT-GGAAAAACGCCGCTATCGTTTTTACCT
* *
46794296 TTAGTGGCATTTATGAGAAAAACGCCGCTATCGTTTTTAACCT
1 TTTGTGGCGTTTATG-GAAAAACGCCGCTATCGTTTTT-ACCT
* * * *
46794339 TTTGCGGCGTTTATGCAAAAACGCTGCTAACGTT
1 TTTGTGGCGTTTATGGAAAAACGCCGCTATCGTT
46794373 GCTCCCATTC
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
40 1 0.02
41 26 0.42
42 19 0.31
43 16 0.26
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (41 bp):
TTTGTGGCGTTTATGGAAAAACGCCGCTATCGTTTTTACCT
Found at i:46797089 original size:44 final size:44
Alignment explanation
Indices: 46797055--46797584 Score: 708
Period size: 44 Copynumber: 12.5 Consensus size: 44
46797045 ATCTGTAACT
* *
46797055 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAAGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGACTCACAATC
*
46797099 TTCAACCTATTCCACTGCTGACTAGGGAGATAGG-------A--
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
* *
46797134 TTC-ACCAATTCCACTACTGACCAGGGAGATAGGAC-CTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTC-ACAATC
46797177 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
*
46797221 TTCAACCTATTCCATTGCTGACCAGGGAGATAGG-------A--
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
* *
46797256 TTC-ACCTATTCCACTGCTGATCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
46797299 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
*
46797343 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
* * *
46797387 TTCAACCTATTCCACTACTGACCAGGGAGATAAGACTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
* *
46797431 TTCAACCTATTCCACTGCTGACTAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
* *
46797475 TTCAACCTATTCCACTGCTGACTAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
* *
46797519 TTCAACCTATTCCACTGCTGACCAAGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
* *
46797563 TTCAACCTATTCTAGTGCTGAC
1 TTCAACCTATTCCACTGCTGAC
46797585 TAGGTGATGC
Statistics
Matches: 434, Mismatches: 30, Indels: 44
0.85 0.06 0.09
Matches are distributed among these distances:
34 55 0.13
35 6 0.01
37 2 0.00
41 2 0.00
43 6 0.01
44 361 0.83
45 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
Found at i:46797251 original size:122 final size:122
Alignment explanation
Indices: 46797055--46797584 Score: 704
Period size: 122 Copynumber: 4.2 Consensus size: 122
46797045 ATCTGTAACT
* *
46797055 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAAGATTCACAATCTTCAACCTATTCCACTGCTG
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTG
* *
46797119 ACTAGGGAGATAGGATTCACCAATTCCACTACTGACCAGGGAGATAGGACCTACAATC
65 ACCAGGGAGATAGGATTCACCAATTCCACTACTGACCAGGGAGATAGGACTTACAATC
*
46797177 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCATTGCTGA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
* * *
46797242 CCAGGGAGATAGGATTCACCTATTCCACTGCTGATCAGGGAGATAGGACTTACAATC
66 CCAGGGAGATAGGATTCACCAATTCCACTACTGACCAGGGAGATAGGACTTACAATC
46797299 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
*
46797364 CCAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAAGACTTACAA
66 CCAGGGAGATAGGATT--C-A-C--C-A---ATTCCACTACTGACCAGGGAGATAGGACTTACAA
46797429 TC
121 TC
* *
46797431 TTCAACCTATTCCACTGCTGACTAGGGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGA
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
* * *
46797496 CTAGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGACCAAGGAGATAGGA-TTCACA
66 CCAGGGAGATAGGA-TT-C-A-C--C-A---ATTCCACTACTGACCAGGGAGATAGGACTT-ACA
46797560 ATC
120 ATC
* *
46797563 TTCAACCTATTCTAGTGCTGAC
1 TTCAACCTATTCCACTGCTGAC
46797585 TAGGTGATGC
Statistics
Matches: 374, Mismatches: 21, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
122 192 0.51
123 1 0.00
124 1 0.00
125 1 0.00
126 1 0.00
128 1 0.00
131 2 0.01
132 173 0.46
133 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (122 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGA
CCAGGGAGATAGGATTCACCAATTCCACTACTGACCAGGGAGATAGGACTTACAATC
Found at i:46798084 original size:31 final size:31
Alignment explanation
Indices: 46797991--46798086 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
46797981 GGCAAATTAC
* *
46797991 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAAAAAAACTCTTTA
46798022 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAA-AAAAACTCTTTA
46798054 AAGAGTAATTGAATCCTAAAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAAAAAACTCTTTA
46798085 AA
1 AA
46798087 ATTATCTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 33 0.53
32 29 0.47
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAAAAAAACTCTTTA
Found at i:46798487 original size:44 final size:44
Alignment explanation
Indices: 46798424--46798569 Score: 238
Period size: 44 Copynumber: 3.3 Consensus size: 44
46798414 TTGTATCACT
* *
46798424 AGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGACC
1 AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACC
*
46798468 AGGGAGATAGGACTCACAATCTTCAACCTATTCCATTGCTGACC
1 AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACC
* **
46798512 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTTTCC
1 AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACC
46798556 AGGGAGATAGGACT
1 AGGGAGATAGGACT
46798570 AGTCTCTTCG
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 95 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (44 bp):
AGGGAGATAGGACTCACAATCTTCAACCTATTCCACTGCTGACC
Found at i:46801425 original size:5 final size:5
Alignment explanation
Indices: 46801415--46801480 Score: 54
Period size: 5 Copynumber: 14.2 Consensus size: 5
46801405 AATGTATATG
* *
46801415 ATGCA ATGCA AAGCTA ATGC- ATG-A ATGCA ATG-A ATGCC ATG-A ATGCA
1 ATGCA ATGCA ATGC-A ATGCA ATGCA ATGCA ATGCA ATGCA ATGCA ATGCA
*
46801462 ATG-A ATGCC ATG-A ATGCA A
1 ATGCA ATGCA ATGCA ATGCA A
46801481 AAGAAGAGAG
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
4 20 0.42
5 24 0.50
6 4 0.08
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (5 bp):
ATGCA
Found at i:46801449 original size:9 final size:9
Alignment explanation
Indices: 46801430--46801480 Score: 77
Period size: 9 Copynumber: 5.8 Consensus size: 9
46801420 ATGCAAAGCT
46801430 AATGC-ATG
1 AATGCAATG
46801438 AATGCAATG
1 AATGCAATG
*
46801447 AATGCCATG
1 AATGCAATG
46801456 AATGCAATG
1 AATGCAATG
*
46801465 AATGCCATG
1 AATGCAATG
46801474 AATGCAA
1 AATGCAA
46801481 AAGAAGAGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
8 5 0.13
9 33 0.87
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (9 bp):
AATGCAATG
Found at i:46801457 original size:18 final size:18
Alignment explanation
Indices: 46801430--46801480 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
46801420 ATGCAAAGCT
46801430 AATG-CATGAATGCAATG
1 AATGCCATGAATGCAATG
46801447 AATGCCATGAATGCAATG
1 AATGCCATGAATGCAATG
46801465 AATGCCATGAATGCAA
1 AATGCCATGAATGCAA
46801481 AAGAAGAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 4 0.12
18 29 0.88
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (18 bp):
AATGCCATGAATGCAATG
Found at i:46802700 original size:23 final size:22
Alignment explanation
Indices: 46802664--46802707 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
46802654 AAATTATAAA
46802664 ATATAAAAAAATATATATGTAC
1 ATATAAAAAAATATATATGTAC
46802686 ATATAAGAAAAATATATATGTA
1 ATATAA-AAAAATATATATGTA
46802708 TGTGAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:46802739 original size:11 final size:10
Alignment explanation
Indices: 46802718--46802748 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
46802708 TGTGAATTAT
46802718 AAAATATAAA
1 AAAATATAAA
46802728 AAAATAATAAA
1 AAAAT-ATAAA
46802739 AAAATATAAA
1 AAAATATAAA
46802749 TTTAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAATATAAA
Found at i:46803460 original size:23 final size:22
Alignment explanation
Indices: 46803417--46803474 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
46803407 AAAGGATATC
* *
46803417 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
46803438 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
46803461 TGCATATCATATCT
1 TACAAATCATATCT
46803475 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:46803823 original size:15 final size:16
Alignment explanation
Indices: 46803782--46803846 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 16
46803772 CAAATATAAA
* *
46803782 TAAATAATGA-ATTGA
1 TAAATAATTATATTGT
*
46803797 TAAAT-ATAATATTGT
1 TAAATAATTATATTGT
46803812 T-AATCAA-TATATT-T
1 TAAAT-AATTATATTGT
46803826 TAAATAATTATATTG-
1 TAAATAATTATATTGT
46803841 TAAATA
1 TAAATA
46803847 TTTTTTGTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
14 10 0.24
15 30 0.73
16 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (16 bp):
TAAATAATTATATTGT
Found at i:46808913 original size:14 final size:15
Alignment explanation
Indices: 46808880--46808915 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
46808870 CCACTTGTTT
*
46808880 TTTTAATTTTATATA
1 TTTTAGTTTTATATA
46808895 TTTTAGTTTTATA-A
1 TTTTAGTTTTATATA
46808909 TTTTAGT
1 TTTTAGT
46808916 CACTTGTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTAGTTTTATATA
Found at i:46814875 original size:18 final size:18
Alignment explanation
Indices: 46814852--46814892 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
46814842 TTGATTGCTG
46814852 ATTTTGGATGCAAATGGA
1 ATTTTGGATGCAAATGGA
46814870 ATTTTGGATGCAAATGGA
1 ATTTTGGATGCAAATGGA
46814888 ATTTT
1 ATTTT
46814893 CTTTCTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.39
Consensus pattern (18 bp):
ATTTTGGATGCAAATGGA
Found at i:46815782 original size:21 final size:20
Alignment explanation
Indices: 46815744--46815783 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
46815734 AATTTTAAAA
**
46815744 TATTTTTAAAATTCTTTTTT
1 TATTTTTAAAATAATTTTTT
46815764 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
46815784 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:46850589 original size:20 final size:20
Alignment explanation
Indices: 46850555--46850592 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46850545 CATCCATACC
46850555 ATTTGGCATACATTCAAAGG
1 ATTTGGCATACATTCAAAGG
46850575 ATTTGAGCATA-ATTCAAA
1 ATTTG-GCATACATTCAAA
46850593 CACACATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (20 bp):
ATTTGGCATACATTCAAAGG
Found at i:46853468 original size:47 final size:49
Alignment explanation
Indices: 46853409--46853502 Score: 129
Period size: 47 Copynumber: 1.9 Consensus size: 49
46853399 ATTACTTTAA
* * **
46853409 TATTAAATTAATATAATATTTA-T-CAAGATAAATTTAATATTAAACAT
1 TATTAAAATAATAGAATATTTACTACAAGATAAACATAATATTAAACAT
46853456 TATTAAAATAATAGAATATTTATCTACAAGATAAACATAATATTAAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAACATAATATTAAA
46853503 TTTAATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 20 0.50
49 1 0.03
50 19 0.47
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (49 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAACATAATATTAAACAT
Found at i:46857834 original size:6 final size:6
Alignment explanation
Indices: 46857783--46857857 Score: 50
Period size: 6 Copynumber: 12.5 Consensus size: 6
46857773 GATAATCACT
* * *
46857783 TTAATA TT-ATA TTAATAA ATACTA TTAAGA -TAAGTA TTAA-A TTAATA
1 TTAATA TTAATA TTAAT-A TTAATA TTAATA TTAA-TA TTAATA TTAATA
*
46857830 TTAATA TTAAAATA TTATTA -TAATA TTA
1 TTAATA TT--AATA TTAATA TTAATA TTA
46857858 TTTTTGCAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
5 17 0.32
6 23 0.43
7 7 0.13
8 6 0.11
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (6 bp):
TTAATA
Found at i:46859480 original size:17 final size:17
Alignment explanation
Indices: 46859458--46859491 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46859448 CATTATGCAT
*
46859458 GAAAAATATAAAAGACA
1 GAAAAATACAAAAGACA
46859475 GAAAAATACAAAAGACA
1 GAAAAATACAAAAGACA
46859492 TAATAGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.09, G:0.12, T:0.09
Consensus pattern (17 bp):
GAAAAATACAAAAGACA
Found at i:46859818 original size:38 final size:38
Alignment explanation
Indices: 46859767--46859842 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
46859757 CCAAGACTAG
*
46859767 CCATCTTCCCAATTGAAATTGTAGACGACATAATAATC
1 CCATCTCCCCAATTGAAATTGTAGACGACATAATAATC
* *
46859805 CCATCTCCCCAATTGGAATTGTGGACGACATAATAATC
1 CCATCTCCCCAATTGAAATTGTAGACGACATAATAATC
46859843 TTTCTCAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (38 bp):
CCATCTCCCCAATTGAAATTGTAGACGACATAATAATC
Found at i:46862949 original size:13 final size:11
Alignment explanation
Indices: 46862920--46862944 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46862910 CCTATTCACG
46862920 TAATTTTTTTC
1 TAATTTTTTTC
46862931 TAATTTTTTTC
1 TAATTTTTTTC
46862942 TAA
1 TAA
46862945 CATTTATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTTTC
Found at i:46865044 original size:23 final size:23
Alignment explanation
Indices: 46864998--46865050 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
46864988 TAAGAATTTG
* *
46864998 AAAAATATATTATAAAATGTAAT
1 AAAAATAAATTATAAAATGAAAT
46865021 AAAAATAAATTATATAAAT-AAAT
1 AAAAATAAATTATA-AAATGAAAT
46865044 ATAAAAT
1 A-AAAAT
46865051 TTTTCAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAAATAAATTATAAAATGAAAT
Found at i:46868602 original size:17 final size:16
Alignment explanation
Indices: 46868577--46868608 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
46868567 AATTTAATTC
46868577 TTTTTTTTGTTTTTTA
1 TTTTTTTTGTTTTTTA
46868593 TTTTTATTTGTTTTTT
1 TTTTT-TTTGTTTTTT
46868609 CGTTAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.88
Consensus pattern (16 bp):
TTTTTTTTGTTTTTTA
Found at i:46871811 original size:18 final size:17
Alignment explanation
Indices: 46871785--46871818 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
46871775 GTTACTCTTG
46871785 TAAAATATTAAATTAAAA
1 TAAAATATT-AATTAAAA
*
46871803 TAAATTATTAATTAAA
1 TAAAATATTAATTAAA
46871819 TTCCAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAAATATTAATTAAAA
Found at i:46872121 original size:18 final size:20
Alignment explanation
Indices: 46872098--46872135 Score: 53
Period size: 18 Copynumber: 1.9 Consensus size: 20
46872088 TTACATGTAC
46872098 AAATAA-TTGAAA-AATAAA
1 AAATAACTTGAAACAATAAA
46872116 AAATAACTTTGAAACAATAA
1 AAATAAC-TTGAAACAATAA
46872136 TATTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (20 bp):
AAATAACTTGAAACAATAAA
Found at i:46886102 original size:24 final size:23
Alignment explanation
Indices: 46886066--46886152 Score: 79
Period size: 24 Copynumber: 3.7 Consensus size: 23
46886056 TTTCTTTTAA
* *
46886066 AATAATGCCTAATAAATCTGAAAT
1 AATAATACATAATAAATCT-AAAT
* *
46886090 AATAATACATAATAAAT-TTAAG
1 AATAATACATAATAAATCTAAAT
* *
46886112 AATAAATATATAATAAATCTAAGCT
1 AAT-AATACATAATAAATCTAA-AT
46886137 AATAATACATAA-AAAT
1 AATAATACATAATAAAT
46886153 TTATGATGTT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
22 5 0.10
23 18 0.35
24 25 0.49
25 3 0.06
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (23 bp):
AATAATACATAATAAATCTAAAT
Found at i:46886124 original size:23 final size:23
Alignment explanation
Indices: 46886090--46886155 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
46886080 AATCTGAAAT
46886090 AATAATACATAATAAATTTAAG-
1 AATAATACATAATAAATTTAAGC
* *
46886112 AATAAATATATAATAAATCTAAGC
1 AAT-AATACATAATAAATTTAAGC
46886136 TAATAATACATAA-AAATTTA
1 -AATAATACATAATAAATTTA
46886156 TGATGTTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 3 0.08
23 23 0.62
24 8 0.22
25 3 0.08
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (23 bp):
AATAATACATAATAAATTTAAGC
Found at i:46890765 original size:13 final size:13
Alignment explanation
Indices: 46890747--46890772 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46890737 GTTGAATAAA
46890747 GTAATAAAGTGAT
1 GTAATAAAGTGAT
46890760 GTAATAAAGTGAT
1 GTAATAAAGTGAT
46890773 AAGTAAGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
GTAATAAAGTGAT
Found at i:46916196 original size:17 final size:18
Alignment explanation
Indices: 46916174--46916210 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
46916164 CTAAATTTAC
*
46916174 AACCTTAAACTC-TAAAA
1 AACCTTAAACCCTTAAAA
46916191 AACCTTAAACCCTTAAAA
1 AACCTTAAACCCTTAAAA
46916209 AA
1 AA
46916211 AGGCCGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (18 bp):
AACCTTAAACCCTTAAAA
Found at i:46918011 original size:51 final size:51
Alignment explanation
Indices: 46917890--46918071 Score: 188
Period size: 51 Copynumber: 3.6 Consensus size: 51
46917880 AAAGTGATGG
* * * * *
46917890 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGA-AATAATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGCGTATCAGATAGTAAT-GA
* * * * **
46917940 TCGCATGTGTAGTACCATGTGCAGACTACTATGCGTATCAGATAGTTTTGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGCGTATCAGATAGTAATGA
* * * *
46917991 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGCGTATCAGATAGTAATGA
* *
46918042 TCACATATGTAGTACTATGTGTAGGCTACT
1 TCACATGTGTAGTACTATGTGCAGGCTACT
46918072 GTGTGAACCG
Statistics
Matches: 107, Mismatches: 23, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
50 31 0.29
51 73 0.68
52 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGCGTATCAGATAGTAATGA
Found at i:46918134 original size:45 final size:45
Alignment explanation
Indices: 46918078--46918172 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
46918068 TACTGTGTGA
* * *
46918078 ACCGAACATCATTGATTAGTAAGGTGATTGCTATGTGCT-AATTCC
1 ACCGAACATCATTGATTAATAAGGTGATTACTATATGCTGAA-TCC
* *
46918123 ACCGGACATCATTGATTAATAAGGTGGTTACTATATGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGATTACTATATGCTGAATCC
46918168 ACCGA
1 ACCGA
46918173 GTATCTGTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 41 0.95
46 2 0.05
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGATTACTATATGCTGAATCC
Found at i:46928667 original size:29 final size:29
Alignment explanation
Indices: 46928604--46928667 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
46928594 TCTTTTTCTC
* * *
46928604 TTAAAAATTGAGTTATTTCTCTAAATATT
1 TTAAAAATTGACTCATTTCCCTAAATATT
* * *
46928633 TAAAAAATTGACTCATTTCCCTAATTTTT
1 TTAAAAATTGACTCATTTCCCTAAATATT
46928662 TTAAAA
1 TTAAAA
46928668 TATGACATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (29 bp):
TTAAAAATTGACTCATTTCCCTAAATATT
Found at i:46932670 original size:23 final size:23
Alignment explanation
Indices: 46932639--46932696 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
46932629 CCAATAGGGG
*
46932639 ACTTTTGTTACTAGTACTCTAGT
1 ACTTATGTTACTAGTACTCTAGT
* * * *
46932662 ACTTCTGTTATTAGTACTTTGGT
1 ACTTATGTTACTAGTACTCTAGT
46932685 ACTTATGTTACT
1 ACTTATGTTACT
46932697 GGCACTACGG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.50
Consensus pattern (23 bp):
ACTTATGTTACTAGTACTCTAGT
Found at i:46934017 original size:32 final size:32
Alignment explanation
Indices: 46933976--46934041 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
46933966 ACAATAAATG
*
46933976 TTTGGATAATTACCCTTGAATTTTTGTAGACA
1 TTTGGATAATTACCCTTGAACTTTTGTAGACA
46934008 TTTGGATAATTACCCTTGAACTTTTGTAGACA
1 TTTGGATAATTACCCTTGAACTTTTGTAGACA
46934040 TT
1 TT
46934042 AATTTATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (32 bp):
TTTGGATAATTACCCTTGAACTTTTGTAGACA
Found at i:46936748 original size:12 final size:13
Alignment explanation
Indices: 46936726--46936754 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
46936716 ATGCAAAATT
46936726 AGAAAGAAAAGAA
1 AGAAAGAAAAGAA
46936739 AGAAAG-AAAGAA
1 AGAAAGAAAAGAA
46936751 AGAA
1 AGAA
46936755 TTGAATGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAGAA
Found at i:46938181 original size:42 final size:42
Alignment explanation
Indices: 46938039--46938183 Score: 211
Period size: 42 Copynumber: 3.5 Consensus size: 42
46938029 GTGTAACACA
*
46938039 CCCGTGTGCTAGGCTGTGTAACTCTCTGAGTTGCCCCACATG
1 CCCGTGTGCTAGGCCGTGTAACTCTCTGAGTTGCCCCACATG
*
46938081 CCCGTAG-GCTAGGTCGTGTAACTCTCTGAGTTGCCCCACATG
1 CCCGT-GTGCTAGGCCGTGTAACTCTCTGAGTTGCCCCACATG
* * *
46938123 CTCGTGTGCTAGGCCGTATAACTCTCTTAGTTGCCCCACATG
1 CCCGTGTGCTAGGCCGTGTAACTCTCTGAGTTGCCCCACATG
* *
46938165 CCCATGTGCTAAGCCGTGT
1 CCCGTGTGCTAGGCCGTGT
46938184 GTTAGGCCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
41 1 0.01
42 89 0.98
43 1 0.01
ACGTcount: A:0.16, C:0.31, G:0.25, T:0.28
Consensus pattern (42 bp):
CCCGTGTGCTAGGCCGTGTAACTCTCTGAGTTGCCCCACATG
Found at i:46939819 original size:60 final size:60
Alignment explanation
Indices: 46939721--46939834 Score: 201
Period size: 60 Copynumber: 1.9 Consensus size: 60
46939711 GAAAGGACTG
*
46939721 TTCATAATAGACTTCGAGAACAAAGAAATATGGCTCTACCAAGGAACAATGCAGGTACTA
1 TTCAGAATAGACTTCGAGAACAAAGAAATATGGCTCTACCAAGGAACAATGCAGGTACTA
* *
46939781 TTCAGAATAGACTTCGAGAACAATGAAATATGGCTCTACCAGGGAACAATGCAG
1 TTCAGAATAGACTTCGAGAACAAAGAAATATGGCTCTACCAAGGAACAATGCAG
46939835 CCATACCCCC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.21
Consensus pattern (60 bp):
TTCAGAATAGACTTCGAGAACAAAGAAATATGGCTCTACCAAGGAACAATGCAGGTACTA
Found at i:46946182 original size:18 final size:20
Alignment explanation
Indices: 46946158--46946237 Score: 87
Period size: 18 Copynumber: 4.1 Consensus size: 20
46946148 AAGAAGACAC
46946158 TGTTGTTG-AGAA-AGAAGT
1 TGTTGTTGAAGAAGAGAAGT
* *
46946176 TGATGTTGCAGAAGCAGAAGT
1 TGTTGTTGAAGAAG-AGAAGT
*
46946197 TGTTGTAGAAG-AG-GAAGT
1 TGTTGTTGAAGAAGAGAAGT
46946215 TGTTGTTGAAGAAGAGAAAGT
1 TGTTGTTGAAGAAGAG-AAGT
46946236 TG
1 TG
46946238 CTAAAAATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
18 22 0.43
19 6 0.12
20 3 0.06
21 20 0.39
ACGTcount: A:0.34, C:0.03, G:0.35, T:0.29
Consensus pattern (20 bp):
TGTTGTTGAAGAAGAGAAGT
Found at i:46946201 original size:39 final size:39
Alignment explanation
Indices: 46946159--46946237 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
46946149 AGAAGACACT
*
46946159 GTTGTTG-AGAA-A-GAAGTTGATGTTGCAGAAGCAG-AA
1 GTTGTTGTAGAAGAGGAAGTTGATGTTGAAGAAG-AGAAA
*
46946195 GTTGTTGTAGAAGAGGAAGTTGTTGTTGAAGAAGAGAAA
1 GTTGTTGTAGAAGAGGAAGTTGATGTTGAAGAAGAGAAA
46946234 GTTG
1 GTTG
46946238 CTAAAAATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.19
37 4 0.11
38 3 0.08
39 23 0.62
ACGTcount: A:0.34, C:0.03, G:0.35, T:0.28
Consensus pattern (39 bp):
GTTGTTGTAGAAGAGGAAGTTGATGTTGAAGAAGAGAAA
Found at i:46946221 original size:21 final size:21
Alignment explanation
Indices: 46946158--46946237 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
46946148 AAGAAGACAC
46946158 TGTTGTTG-AGAA-AG-AAGT
1 TGTTGTTGAAGAAGAGAAAGT
* *
46946176 TGATGTTGCAGAAGCAG-AAGT
1 TGTTGTTGAAGAAG-AGAAAGT
*
46946197 TGTTG-T--AGAAGAGGAAGT
1 TGTTGTTGAAGAAGAGAAAGT
46946215 TGTTGTTGAAGAAGAGAAAGT
1 TGTTGTTGAAGAAGAGAAAGT
46946236 TG
1 TG
46946238 CTAAAAATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
17 2 0.04
18 21 0.40
19 5 0.10
20 1 0.02
21 23 0.44
ACGTcount: A:0.34, C:0.03, G:0.35, T:0.29
Consensus pattern (21 bp):
TGTTGTTGAAGAAGAGAAAGT
Found at i:46946695 original size:17 final size:17
Alignment explanation
Indices: 46946673--46946706 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46946663 GATAAGTATA
*
46946673 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
46946690 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
46946707 AGTGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.53
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:46949551 original size:20 final size:19
Alignment explanation
Indices: 46949526--46949591 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
46949516 TAAATGCGTT
46949526 CAGGGGTACTGAAGTACACA
1 CAGGGGTACTGAAGTACA-A
* * *
46949546 CAGGGGCA-TGTATGTGCAA
1 CAGGGGTACTG-AAGTACAA
*
46949565 TCAGGGGTGCTGAAGTACAAA
1 -CAGGGGTACTGAAGTAC-AA
46949586 CAGGGG
1 CAGGGG
46949592 CACGTCTATG
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
19 3 0.09
20 28 0.80
21 4 0.11
ACGTcount: A:0.30, C:0.17, G:0.36, T:0.17
Consensus pattern (19 bp):
CAGGGGTACTGAAGTACAA
Found at i:46949580 original size:40 final size:40
Alignment explanation
Indices: 46949525--46949687 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 40
46949515 GTAAATGCGT
* *
46949525 TCAGGGGTACTGAAGTACACACAGGGGCATGTATGTGCAA
1 TCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGCAA
* * *
46949565 TCAGGGGTGCTGAAGTACAAACAGGGGCACGTCTATGCAAA
1 TCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGC-AA
* * * *
46949606 T-AGGGGTA-TCAAAGTACAAAAAAGGGCACGTATGTCCAA
1 TCAGGGGTACT-GAAGTACAAACAGGGGCACGTATGTGCAA
* * * *
46949645 TTAGGGGTACCGAAGTACAAATAGGGGCACGTATGAGCAA
1 TCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGCAA
46949685 TCA
1 TCA
46949688 TTCAATAATT
Statistics
Matches: 100, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
39 4 0.04
40 93 0.93
41 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.18
Consensus pattern (40 bp):
TCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTGCAA
Found at i:46955031 original size:42 final size:42
Alignment explanation
Indices: 46954972--46955057 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
46954962 TTTAGTATGA
46954972 AAGAAATTTGAATTAATATGATCACTCGATGTCATCGTGCTC
1 AAGAAATTTGAATTAATATGATCACTCGATGTCATCGTGCTC
46955014 AAGAAATTTGAATTAATATGATCACTCGATGTCATCGTGCTC
1 AAGAAATTTGAATTAATATGATCACTCGATGTCATCGTGCTC
46955056 AA
1 AA
46955058 AGTGCCCCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (42 bp):
AAGAAATTTGAATTAATATGATCACTCGATGTCATCGTGCTC
Found at i:46957214 original size:26 final size:26
Alignment explanation
Indices: 46957178--46957229 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
46957168 CACCACTGAA
* *
46957178 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
46957204 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
46957230 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:46957306 original size:70 final size:71
Alignment explanation
Indices: 46957190--46957340 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 71
46957180 GGGGAATCAT
*
46957190 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
46957254 ATATCG
66 ATATCG
* ***
46957260 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATG
46957325 GATATCG
65 GATATCG
46957332 CACTTAGCA
1 CACTTAGCA
46957341 CCACCAATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 16 0.22
71 28 0.38
72 30 0.41
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:46957383 original size:104 final size:104
Alignment explanation
Indices: 46957259--46957482 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
46957249 AATGGATATC
46957259 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
46957324 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
46957363 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
46957428 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
46957467 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
46957483 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:46957844 original size:29 final size:29
Alignment explanation
Indices: 46957811--46957874 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46957801 TAATCCACCA
46957811 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
46957840 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
46957870 CCCAA
1 CCCAA
46957875 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Done.