Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 14 of 189
Found at i:4556599 original size:21 final size:22
Alignment explanation
Indices: 4556573--4556619 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
4556563 CTAGTAAAGG
4556573 GGAAAAAT-TAGAGTTT-TACAT
1 GGAAAAATATA-AGTTTCTACAT
4556594 GGAAAAATATAAGTTTCTACAT
1 GGAAAAATATAAGTTTCTACAT
4556616 GGAA
1 GGAA
4556620 TTGAGTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (22 bp):
GGAAAAATATAAGTTTCTACAT
Found at i:4560673 original size:6 final size:7
Alignment explanation
Indices: 4560656--4560680 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4560646 TAGTTTTTAA
4560656 AAAAAAT
1 AAAAAAT
4560663 AAAAAAT
1 AAAAAAT
4560670 AAAAAAT
1 AAAAAAT
4560677 AAAA
1 AAAA
4560681 TTAAACCTGC
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:4560975 original size:16 final size:16
Alignment explanation
Indices: 4560954--4560984 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4560944 ACCTAGATCT
4560954 AATCGATTTAGAAAAC
1 AATCGATTTAGAAAAC
4560970 AATCGATTTAGAAAA
1 AATCGATTTAGAAAA
4560985 TTATGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (16 bp):
AATCGATTTAGAAAAC
Found at i:4561657 original size:13 final size:13
Alignment explanation
Indices: 4561639--4561691 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
4561629 TATTATGTAT
4561639 ATTTAATCAATTA
1 ATTTAATCAATTA
* *
4561652 ATTTAATTAATTG
1 ATTTAATCAATTA
*
4561665 ATTTAACTAAATTA
1 ATTTAA-TCAATTA
*
4561679 ATTT-TTCAATTA
1 ATTTAATCAATTA
4561691 A
1 A
4561692 AATATTTTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
12 7 0.21
13 17 0.52
14 9 0.27
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (13 bp):
ATTTAATCAATTA
Found at i:4564306 original size:23 final size:24
Alignment explanation
Indices: 4564253--4564307 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
4564243 TATTAGCTTG
4564253 CAATTATAATCAATATATACATAT
1 CAATTATAATCAATATATACATAT
* * *
4564277 -AACTATAATCAATATATCCGT-T
1 CAATTATAATCAATATATACATAT
4564299 CAATTATAA
1 CAATTATAA
4564308 ACATAATCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (24 bp):
CAATTATAATCAATATATACATAT
Found at i:4568422 original size:13 final size:13
Alignment explanation
Indices: 4568404--4568428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4568394 TGCTCTTATT
4568404 AAAAATTAGAAAA
1 AAAAATTAGAAAA
4568417 AAAAATTAGAAA
1 AAAAATTAGAAA
4568429 GAATAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAAATTAGAAAA
Found at i:4568515 original size:16 final size:17
Alignment explanation
Indices: 4568481--4568517 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4568471 TAAAAATATA
4568481 AAAAATTTAAATTTATT
1 AAAAATTTAAATTTATT
4568498 AAAAA-TTAGAATTT-TT
1 AAAAATTTA-AATTTATT
4568514 AAAA
1 AAAA
4568518 GAAAATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
AAAAATTTAAATTTATT
Found at i:4568814 original size:19 final size:19
Alignment explanation
Indices: 4568790--4568874 Score: 61
Period size: 19 Copynumber: 4.5 Consensus size: 19
4568780 TTTCTATATA
4568790 TTTTATAATTTTTTA-AGAT
1 TTTTATAATTTTTTACA-AT
**
4568809 TTTTATAAAATTTTACAATT
1 TTTTATAATTTTTTACAA-T
* *
4568829 TTTTATGATTTTTATA-TAT
1 TTTTATAATTTTT-TACAAT
*
4568848 TTTTCTAATTTTTT-CTAAT
1 TTTTATAATTTTTTAC-AAT
4568867 TTTT-TAAT
1 TTTTATAAT
4568875 ATTTGAATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
18 5 0.10
19 32 0.62
20 13 0.25
21 2 0.04
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATAATTTTTTACAAT
Found at i:4568814 original size:46 final size:48
Alignment explanation
Indices: 4568726--4568823 Score: 130
Period size: 46 Copynumber: 2.1 Consensus size: 48
4568716 TTTTACGAAA
* *
4568726 TTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAAT
1 TTTATATTTCTATACATTTTGTATAATTTTCTTAAGACTTTATAAAAT
* *
4568774 TTTATATTTCTATATA-TTT-TATAATTTT-TTAAGATTTTTATAAAAT
1 TTTATATTTCTATACATTTTGTATAATTTTCTTAAGA-CTTTATAAAAT
4568820 TTTA
1 TTTA
4568824 CAATTTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
45 5 0.11
46 23 0.51
47 3 0.07
48 14 0.31
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (48 bp):
TTTATATTTCTATACATTTTGTATAATTTTCTTAAGACTTTATAAAAT
Found at i:4568828 original size:29 final size:28
Alignment explanation
Indices: 4568779--4568861 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 28
4568769 AAAATTTTAT
* * *
4568779 ATTTCTATATATTTTATAATTTTTTAAG
1 ATTTTTATAAATTTTACAATTTTTTAAG
*
4568807 ATTTTTATAAAATTTTACAATTTTTTATG
1 ATTTTTAT-AAATTTTACAATTTTTTAAG
* *
4568836 ATTTTTATATATTTTTCTAATTTTTT
1 ATTTTTATAAATTTTAC-AATTTTTT
4568862 CTAATTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
28 14 0.30
29 33 0.70
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (28 bp):
ATTTTTATAAATTTTACAATTTTTTAAG
Found at i:4568868 original size:29 final size:29
Alignment explanation
Indices: 4568773--4568878 Score: 87
Period size: 29 Copynumber: 3.7 Consensus size: 29
4568763 CTTTATAAAA
* *
4568773 TTTTATATTTCTAT-ATA-TTTTATAATTT
1 TTTTA-ATTTTTATAATATTTTTCTAATTT
* * *
4568801 TTTAAGATTTTTATAAAATTTTAC-AATTT
1 TTTTA-ATTTTTATAATATTTTTCTAATTT
*
4568830 TTTATGATTTTTAT-ATATTTTTCTAATTT
1 TTT-TAATTTTTATAATATTTTTCTAATTT
4568859 TTTCTAATTTTT-TAATATTT
1 TTT-TAATTTTTATAATATTT
4568879 GAATTTTTAA
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
28 19 0.31
29 39 0.64
30 3 0.05
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTTAATTTTTATAATATTTTTCTAATTT
Found at i:4568885 original size:16 final size:17
Alignment explanation
Indices: 4568864--4568896 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4568854 AATTTTTTCT
4568864 AATTTTT-TAATATTTG
1 AATTTTTATAATATTTG
4568880 AATTTTTAATAATATTT
1 AATTTTT-ATAATATTT
4568897 AATACTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTTTATAATATTTG
Found at i:4569059 original size:93 final size:87
Alignment explanation
Indices: 4568952--4569174 Score: 288
Period size: 93 Copynumber: 2.5 Consensus size: 87
4568942 TAATAAAAGC
*
4568952 AAGGGCATAATTGCTTCTTTTTTTTTAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAG
1 AAGGGCTTAATTGCTT-TTTTTTTTTAAGTTTGAGGG-CTTTTTGATGCATTTTGAAAGTTCAAG
*
4569017 TACCCAATTGAATGCAAAAAAAAAA
64 TACCCAAATGAATGC-AAAAAAAAA
* *** *
4569042 AGTAGGGGCTTAGTTGCTTTTTTTTGAAAAGGTTTGAGGGCCATTTTGATGCATTTTGAAAGTTC
1 A--A-GGGCTTAATTGCTTTTTTTTTTTAA-GTTTGAGGG-CTTTTTGATGCATTTTGAAAGTTC
*
4569107 AAGTACCCAAATGAGTGCAAAAAAAAA
61 AAGTACCCAAATGAATGCAAAAAAAAA
4569134 AAGGGCTTAATTG--TTTTTTTTTTAAGTTTGAGGGCTTTTTG
1 AAGGGCTTAATTGCTTTTTTTTTTTAAGTTTGAGGGCTTTTTG
4569175 CACCCTTAAG
Statistics
Matches: 115, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
85 6 0.05
86 9 0.08
87 9 0.08
89 10 0.09
90 2 0.02
92 19 0.17
93 60 0.52
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.39
Consensus pattern (87 bp):
AAGGGCTTAATTGCTTTTTTTTTTTAAGTTTGAGGGCTTTTTGATGCATTTTGAAAGTTCAAGTA
CCCAAATGAATGCAAAAAAAAA
Found at i:4574170 original size:28 final size:27
Alignment explanation
Indices: 4574115--4574180 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
4574105 AAAATTGAAA
4574115 TATTAAATAATTTTTAAAATAATAAAT
1 TATTAAATAATTTTTAAAATAATAAAT
*
4574142 TATTAATATAATTTATT-ATATGAAT-AAT
1 TATTAA-ATAATTT-TTAAAAT-AATAAAT
4574170 TA-TAAATAATT
1 TATTAAATAATT
4574181 AAATATGGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
26 6 0.17
27 9 0.26
28 15 0.43
29 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TATTAAATAATTTTTAAAATAATAAAT
Found at i:4588637 original size:14 final size:15
Alignment explanation
Indices: 4588611--4588640 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
4588601 ATTTAATTTT
4588611 AATAATAAATTTTAA
1 AATAATAAATTTTAA
4588626 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
4588640 A
1 A
4588641 TCTTAAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATAATAAATTTTAA
Found at i:4588641 original size:13 final size:13
Alignment explanation
Indices: 4588604--4588641 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
4588594 TCTTACAATT
4588604 TAATTTT-AATAA
1 TAATTTTAAATAA
4588616 TAAATTTTAAAATAA
1 T-AATTTT-AAATAA
4588631 TAATTTTAAAT
1 TAATTTTAAAT
4588642 CTTAAGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 6 0.26
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TAATTTTAAATAA
Found at i:4588761 original size:23 final size:23
Alignment explanation
Indices: 4588734--4588780 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
4588724 ATTAATAATA
4588734 AATATTTTATAGTATA-AAATATG
1 AATATTTTA-AGTATATAAATATG
*
4588757 AATATTTTAATTATATAAATATG
1 AATATTTTAAGTATATAAATATG
4588780 A
1 A
4588781 GTATCTGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (23 bp):
AATATTTTAAGTATATAAATATG
Found at i:4594834 original size:15 final size:13
Alignment explanation
Indices: 4594806--4594847 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
4594796 TATTATTAAC
4594806 AAATATTTTAATA
1 AAATATTTTAATA
4594819 AAATA-TTTAATA
1 AAATATTTTAATA
4594831 ATAATACTTTTCAATA
1 A-AATA-TTTT-AATA
4594847 A
1 A
4594848 TCTTTATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.32
13 9 0.36
15 3 0.12
16 5 0.20
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATATTTTAATA
Found at i:4609156 original size:138 final size:138
Alignment explanation
Indices: 4608908--4609184 Score: 554
Period size: 138 Copynumber: 2.0 Consensus size: 138
4608898 AATTGCAAAT
4608908 AACTTAACATTAATTGAACCATGTCTAACAAGGTTTCGTTCTTTCTCTCTGCCACACTATTCTGT
1 AACTTAACATTAATTGAACCATGTCTAACAAGGTTTCGTTCTTTCTCTCTGCCACACTATTCTGT
4608973 TGTGGAGTTTTCGATGCGGTTAATTAGGATAATATTCTTTTCTCTACGAGGTAACCTAAGAACTC
66 TGTGGAGTTTTCGATGCGGTTAATTAGGATAATATTCTTTTCTCTACGAGGTAACCTAAGAACTC
4609038 ATCTGGTA
131 ATCTGGTA
4609046 AACTTAACATTAATTGAACCATGTCTAACAAGGTTTCGTTCTTTCTCTCTGCCACACTATTCTGT
1 AACTTAACATTAATTGAACCATGTCTAACAAGGTTTCGTTCTTTCTCTCTGCCACACTATTCTGT
4609111 TGTGGAGTTTTCGATGCGGTTAATTAGGATAATATTCTTTTCTCTACGAGGTAACCTAAGAACTC
66 TGTGGAGTTTTCGATGCGGTTAATTAGGATAATATTCTTTTCTCTACGAGGTAACCTAAGAACTC
4609176 ATCTGGTA
131 ATCTGGTA
4609184 A
1 A
4609185 GTATTCTCCA
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
138 139 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (138 bp):
AACTTAACATTAATTGAACCATGTCTAACAAGGTTTCGTTCTTTCTCTCTGCCACACTATTCTGT
TGTGGAGTTTTCGATGCGGTTAATTAGGATAATATTCTTTTCTCTACGAGGTAACCTAAGAACTC
ATCTGGTA
Found at i:4610399 original size:17 final size:18
Alignment explanation
Indices: 4610365--4610400 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4610355 TCATTGAAGT
4610365 TAATTTTATAAGTTTTAA
1 TAATTTTATAAGTTTTAA
*
4610383 TAATTTT-TAATTTTTAA
1 TAATTTTATAAGTTTTAA
4610400 T
1 T
4610401 TTTTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TAATTTTATAAGTTTTAA
Found at i:4615998 original size:373 final size:377
Alignment explanation
Indices: 4615267--4616013 Score: 1018
Period size: 373 Copynumber: 2.0 Consensus size: 377
4615257 AATCTAGAGT
* * * *
4615267 CAAGGAAAGAACCTATTACAATGTTATCCAGGTATAATAACCCTAACACCTAACCTGAAATTAGG
1 CAAGGAAAGAACCTAATACAATGTGATCCAGGTATAATAACCCTAACACCAAACCTGAAATCAGG
* * * * * * *
4615332 TCCAAAATAATTTGATAAATTCCATATTATATAGCAACAAATTAAAAATTGAAGATAAAGATTTG
66 TCCAAAACAAATTGACAAATTCCATATTATATAGAAACAAATTAAAAATTAAAAATAAAGATTAG
*
4615397 AGATTTTACGCACAAAGTGAATATAAATACATTAAACACATACGCATTAGCAACACAATTATAAC
131 AGATTTTA-GCACAAAGTCAATATAAATA-ATTAAACACATA-GCATTAGCAACACAATTATAAC
* *
4615462 TTGATAACAACATTAGAAATTTTGATCACTTATGGAGAGTACAATACTATGTATATTAGCATGTA
193 TTGATAACAAAATTAGAAATTTTGATCACTTATGGAGAGTACAATACTATGTATATTAGCATGCA
*
4615527 TGACCACTTCCATCACGTACAGGATTATAATCTAGTTAGAATATTATTAAATTTTCATGCACAAG
258 TGACCACTTCCATCACG-ACAGGATTATAATCTAGTTAGAATATTATTAAATTTTCATGAACAAG
* *
4615592 TAGTAATTACAAACAAAAGCATGTGCTTAACACAAATAGTAAAAAGTTTCTACAGC
322 TAGTAATTACAAACAAAAGCATGTGCATAACACAAATACTAAAAAGTTTCTACAGC
* * *
4615648 CAAGGAAAGAACTTAATACAATGTGATCCTGGTATAAATAACCCTAATACCAAACCTGAAATCAG
1 CAAGGAAAGAACCTAATACAATGTGATCCAGGTAT-AATAACCCTAACACCAAACCTGAAATCAG
* *
4615713 GTCCAAAACAAATTGACAAATTCCATATTATATAGAAACAAATTATAAATTAAAAATAAAGCTTA
65 GTCCAAAACAAATTGACAAATTCCATATTATATAGAAACAAATTAAAAATTAAAAATAAAGATTA
* * * *
4615778 GATATTTT-G-ACCAATTCACA-A-GAAT-A-TAAACACAT-GCATTAGCAACACAATTATAACT
130 GAGATTTTAGCACAAAGTCA-ATATAAATAATTAAACACATAGCATTAGCAACACAATTATAACT
*
4615836 TGATAACAAAATTAGAGATTTTGATCACTTGA-GGAG-GATACAATACTACT-TATATTAGCATG
194 TGATAACAAAATTAGAAATTTTGATCACTT-ATGGAGAG-TACAATACTA-TGTATATTAGCATG
4615898 CATGACCACTTCCATCAC-ACA-GATTATAATCTAGTTAGAATATTATT-AATTTTCCATGAACA
256 CATGACCACTTCCATCACGACAGGATTATAATCTAGTTAGAATATTATTAAATTTT-CATGAACA
*
4615960 GAG-AGTAATTACAAACAACAAAAGCATGTGCATAACACAAATACTAAAACGTTT
320 -AGTAGTAATTAC--A-AACAAAAGCATGTGCATAACACAAATACTAAAAAGTTT
4616014 AAAACATTTA
Statistics
Matches: 328, Mismatches: 28, Indels: 28
0.85 0.07 0.07
Matches are distributed among these distances:
369 6 0.02
370 42 0.13
371 5 0.02
372 2 0.01
373 129 0.39
374 2 0.01
375 9 0.03
376 1 0.00
378 3 0.01
379 7 0.02
380 2 0.01
381 31 0.09
382 89 0.27
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (377 bp):
CAAGGAAAGAACCTAATACAATGTGATCCAGGTATAATAACCCTAACACCAAACCTGAAATCAGG
TCCAAAACAAATTGACAAATTCCATATTATATAGAAACAAATTAAAAATTAAAAATAAAGATTAG
AGATTTTAGCACAAAGTCAATATAAATAATTAAACACATAGCATTAGCAACACAATTATAACTTG
ATAACAAAATTAGAAATTTTGATCACTTATGGAGAGTACAATACTATGTATATTAGCATGCATGA
CCACTTCCATCACGACAGGATTATAATCTAGTTAGAATATTATTAAATTTTCATGAACAAGTAGT
AATTACAAACAAAAGCATGTGCATAACACAAATACTAAAAAGTTTCTACAGC
Found at i:4616134 original size:84 final size:84
Alignment explanation
Indices: 4615990--4616150 Score: 227
Period size: 84 Copynumber: 1.9 Consensus size: 84
4615980 AAAGCATGTG
* *
4615990 CATAACACAAATACTAAAACGTTTAAAACATTTACATGAAATGATTGAATTTTAATATATTAAAA
1 CATAACACAAATACTAAAACGTTTAAAACATTTACATGAAATAATTGAATTTTAAAATATTAAAA
4616055 GAAAGG-AGAATCCTGTACC
66 G-AAGGAAGAATCCTGTACC
* * * * *
4616074 CATAACACAAATAGT-ACACTGTTTAAATCATTTCCATGAAATAATTGGATTTTAAAATATTAAA
1 CATAACACAAATACTAAAAC-GTTTAAAACATTTACATGAAATAATTGAATTTTAAAATATTAAA
4616138 AGAAGGAAGAATC
65 AGAAGGAAGAATC
4616151 TTGCATCCAC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
83 7 0.10
84 61 0.90
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.29
Consensus pattern (84 bp):
CATAACACAAATACTAAAACGTTTAAAACATTTACATGAAATAATTGAATTTTAAAATATTAAAA
GAAGGAAGAATCCTGTACC
Found at i:4621722 original size:36 final size:36
Alignment explanation
Indices: 4621665--4621747 Score: 130
Period size: 36 Copynumber: 2.3 Consensus size: 36
4621655 ATCAACTGGA
* * *
4621665 CTACAGCTGCGAATAGGGGTTCGACTTCGACTTGGG
1 CTACGGCTGCGAATAGAGGTTCGACTACGACTTGGG
4621701 CTACGGCTGCGAATAGAGGTTCGACTACGACTTGGG
1 CTACGGCTGCGAATAGAGGTTCGACTACGACTTGGG
*
4621737 CTACGACTGCG
1 CTACGGCTGCG
4621748 GCTATGACCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (36 bp):
CTACGGCTGCGAATAGAGGTTCGACTACGACTTGGG
Found at i:4622472 original size:36 final size:36
Alignment explanation
Indices: 4622425--4622536 Score: 104
Period size: 36 Copynumber: 3.2 Consensus size: 36
4622415 CTCCTACTTA
4622425 TGCTTCTCCTAGAAGATCTTACAGGACTTCTGCTAG
1 TGCTTCTCCTAGAAGATCTTACAGGACTTCTGCTAG
* ** * *
4622461 TGCTTCTCCT---AGACCTTATGGGGCTTCTGCTAA
1 TGCTTCTCCTAGAAGATCTTACAGGACTTCTGCTAG
* * * * * *
4622494 TGCTTCTCCGAGAATATCTTGCAGGACTTTTACTTG
1 TGCTTCTCCTAGAAGATCTTACAGGACTTCTGCTAG
4622530 TGCTTCT
1 TGCTTCT
4622537 TTTTGAAAGT
Statistics
Matches: 57, Mismatches: 16, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
33 27 0.47
36 30 0.53
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.38
Consensus pattern (36 bp):
TGCTTCTCCTAGAAGATCTTACAGGACTTCTGCTAG
Found at i:4639839 original size:25 final size:24
Alignment explanation
Indices: 4639811--4639891 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
4639801 GTACACCGTA
*
4639811 GCTCTTGTGAGCGTCCCGTTATATG
1 GCTCTTGTGAGCTTCCCGTTA-ATG
* * *
4639836 GCTCTTCATGAGCTTCCCGATAAAG
1 GCTCTT-GTGAGCTTCCCGTTAATG
*
4639861 GCTCTTTGTGAGCTTCCTGATTAATG
1 GCTC-TTGTGAGCTTCCCG-TTAATG
4639887 GCTCT
1 GCTCT
4639892 CCGGATCTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
25 23 0.51
26 22 0.49
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (24 bp):
GCTCTTGTGAGCTTCCCGTTAATG
Found at i:4639853 original size:26 final size:25
Alignment explanation
Indices: 4639818--4639891 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 25
4639808 GTAGCTCTTG
*
4639818 TGAGCGTCCCGTTATATGGCTCTTCA
1 TGAGCTTCCCGTTA-ATGGCTCTTCA
* * **
4639844 TGAGCTTCCCGATAAAGGCTCTTTG
1 TGAGCTTCCCGTTAATGGCTCTTCA
*
4639869 TGAGCTTCCTGATTAATGGCTCT
1 TGAGCTTCCCG-TTAATGGCTCT
4639892 CCGGATCTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 18 0.46
26 21 0.54
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (25 bp):
TGAGCTTCCCGTTAATGGCTCTTCA
Found at i:4640911 original size:3 final size:3
Alignment explanation
Indices: 4640896--4640999 Score: 120
Period size: 3 Copynumber: 33.7 Consensus size: 3
4640886 GATTTAACTT
* *
4640896 TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * *
4640944 TTC TTT TTC TTC TTC TTC TTC TTC AGTTC TTC TT- TTT TTT TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC --TTC TTC TTC TTC TTC TTC TTC
4640990 AGTTC TTC TT
1 --TTC TTC TT
4641000 TTTTTTTTCT
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
2 2 0.02
3 81 0.91
5 6 0.07
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:4642134 original size:18 final size:18
Alignment explanation
Indices: 4642111--4642146 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4642101 TACATCGATT
4642111 TTTTAATATCTATTTAAA
1 TTTTAATATCTATTTAAA
4642129 TTTTAATATCTATTTAAA
1 TTTTAATATCTATTTAAA
4642147 ATTGGCGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATATCTATTTAAA
Found at i:4644991 original size:17 final size:17
Alignment explanation
Indices: 4644971--4645031 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
4644961 ATTTCAAGAC
4644971 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
4644988 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
4645007 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
4645025 TTATGTA
1 TTATGTA
4645032 GTGATTCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 16 0.48
18 4 0.12
19 4 0.12
20 9 0.27
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:4645007 original size:37 final size:37
Alignment explanation
Indices: 4644966--4645040 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
4644956 TGTTAATTTC
4644966 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
4645003 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
4645040 A
1 A
4645041 TTCGGGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.45
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:4645053 original size:9 final size:9
Alignment explanation
Indices: 4645039--4645069 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4645029 GTAGTGATTC
*
4645039 AATTCGGGT
1 AATTCGGTT
4645048 AATTCGGTT
1 AATTCGGTT
4645057 AATTCGGTT
1 AATTCGGTT
4645066 AATT
1 AATT
4645070 TTTAACTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:4646663 original size:18 final size:18
Alignment explanation
Indices: 4646640--4646675 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4646630 TAATTTAAAT
4646640 ATGAATTTATAGATTAAG
1 ATGAATTTATAGATTAAG
4646658 ATGAATTTATAGATTAAG
1 ATGAATTTATAGATTAAG
4646676 TTAGAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (18 bp):
ATGAATTTATAGATTAAG
Found at i:4655244 original size:23 final size:23
Alignment explanation
Indices: 4655179--4655245 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
4655169 TTTCACTATT
*
4655179 TAATTTCCTTTGTT-TTCATATTC
1 TAATTTTCTTTGTTGTTCAT-TTC
* *
4655202 -GA-TTTCTTTG-TGTTAGATTTC
1 TAATTTTCTTTGTTGTT-CATTTC
4655223 TAATTTTCTTTGTTGTTCATTTC
1 TAATTTTCTTTGTTGTTCATTTC
4655246 AAGTCCTAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
20 1 0.03
21 12 0.35
22 4 0.12
23 13 0.38
24 4 0.12
ACGTcount: A:0.15, C:0.13, G:0.10, T:0.61
Consensus pattern (23 bp):
TAATTTTCTTTGTTGTTCATTTC
Found at i:4655753 original size:19 final size:19
Alignment explanation
Indices: 4655711--4655753 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4655701 TCTATTTATT
*
4655711 TTTAATTCATTTTATTCTA
1 TTTAATTCATTTTATACTA
*
4655730 GTTAATT-ATTTTTATACTA
1 TTTAATTCA-TTTTATACTA
4655749 TTTAA
1 TTTAA
4655754 GATTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTAATTCATTTTATACTA
Found at i:4657464 original size:30 final size:30
Alignment explanation
Indices: 4657429--4657485 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4657419 AATTAGTAGT
* *
4657429 TCACATAAGAGTTTAAATCTTT-TAAAATAA
1 TCACATAAAAGTTAAAAT-TTTATAAAATAA
4657459 TCACATAAAAGTTAAAATTTTATAAAA
1 TCACATAAAAGTTAAAATTTTATAAAA
4657486 ATCTTTACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (30 bp):
TCACATAAAAGTTAAAATTTTATAAAATAA
Found at i:4661530 original size:43 final size:43
Alignment explanation
Indices: 4661477--4661661 Score: 185
Period size: 42 Copynumber: 4.3 Consensus size: 43
4661467 GCGCCGGAAA
* *
4661477 AAACGCCGCTAAAGACTATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
* * **
4661520 AAACACCGCT-AAGACCAAGATCTTTAGCGATGCTTTCCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
* * *
4661562 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
* * ** * * * ***
4661605 AAATG-CACTGTAGACCATGACCTTTAGTGACGCTTTTATCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
4661647 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
4661662 ACAAACGCCG
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
42 70 0.60
43 46 0.40
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAC
Found at i:4661620 original size:85 final size:85
Alignment explanation
Indices: 4661477--4661661 Score: 221
Period size: 85 Copynumber: 2.2 Consensus size: 85
4661467 GCGCCGGAAA
* * *
4661477 AAACGCCGCTAAAGACTATGACCTTTAGCGGCGCTTTCCCCACAAACACCGCTAAGACCAAGATC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCACAAACACCGCTAAGACCAAGACC
* *
4661542 TTTAGCGATGCTTTCCCCAC
66 TTTAGCGACGCTTTCACCAC
* * * * *
4661562 AAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCTCACAAATGCACTG-T-AGACCATGA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCACAAA--CACCGCTAAGACCAAGA
* * *
4661625 CCTTTAGTGACGCTTTTATCAC
64 CCTTTAGCGACGCTTTCACCAC
4661647 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
4661662 ACAAACGCCG
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
85 79 0.94
86 1 0.01
87 4 0.05
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (85 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCACAAACACCGCTAAGACCAAGACC
TTTAGCGACGCTTTCACCAC
Found at i:4664190 original size:30 final size:30
Alignment explanation
Indices: 4664155--4664214 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
4664145 AGAATGTTCA
4664155 TTTTGAACACTTCAATGCCATTTACTGCAT
1 TTTTGAACACTTCAATGCCATTTACTGCAT
4664185 TTTTGAACACTTCAATGCCATTTACTGCAT
1 TTTTGAACACTTCAATGCCATTTACTGCAT
4664215 CATAATAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (30 bp):
TTTTGAACACTTCAATGCCATTTACTGCAT
Found at i:4665983 original size:23 final size:22
Alignment explanation
Indices: 4665955--4666013 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4665945 GTATGTTTGT
* *
4665955 AAAATTGGGGGTTTCAAGGGGGG
1 AAAATTGGGGATTT-AAGGCGGG
* *
4665978 AAAATTAGGGATTTTAGGCGGG
1 AAAATTGGGGATTTAAGGCGGG
*
4666000 AAAGTTGGGGATTT
1 AAAATTGGGGATTT
4666014 TATAAAATGG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.29, C:0.03, G:0.41, T:0.27
Consensus pattern (22 bp):
AAAATTGGGGATTTAAGGCGGG
Found at i:4667014 original size:14 final size:15
Alignment explanation
Indices: 4666997--4667030 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4666987 CTTAAATCAG
4666997 AATCTCTAA-TCCAT
1 AATCTCTAATTCCAT
4667011 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
4667026 AATCT
1 AATCT
4667031 ATAAACCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:4667640 original size:12 final size:12
Alignment explanation
Indices: 4667623--4667648 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4667613 TTTTTTGTCC
4667623 AAACGCCGCTAA
1 AAACGCCGCTAA
4667635 AAACGCCGCTAA
1 AAACGCCGCTAA
4667647 AA
1 AA
4667649 GCCTGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:4676300 original size:9 final size:9
Alignment explanation
Indices: 4676285--4676335 Score: 84
Period size: 9 Copynumber: 5.7 Consensus size: 9
4676275 GTATTTTTCA
4676285 GTAATTCGG
1 GTAATTCGG
*
4676294 TTAATTCGG
1 GTAATTCGG
*
4676303 TTAATTCGG
1 GTAATTCGG
4676312 GTAATTCGG
1 GTAATTCGG
4676321 GTAATTCGG
1 GTAATTCGG
4676330 GTAATT
1 GTAATT
4676336 TTTAACCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (9 bp):
GTAATTCGG
Found at i:4676513 original size:12 final size:12
Alignment explanation
Indices: 4676496--4676520 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4676486 AATAATTTCG
4676496 GGTCGGTTAACC
1 GGTCGGTTAACC
4676508 GGTCGGTTAACC
1 GGTCGGTTAACC
4676520 G
1 G
4676521 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:4684939 original size:3 final size:3
Alignment explanation
Indices: 4684931--4684956 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4684921 GCTGTAAGTA
4684931 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
4684957 AAGAAGCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4685690 original size:31 final size:31
Alignment explanation
Indices: 4685651--4685720 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
4685641 TCGAAAAGTG
4685651 TACCCAATTGAGCCAATTGAATCATAATTTC
1 TACCCAATTGAGCCAATTGAATCATAATTTC
* * *
4685682 TACTCAATTGAGCCATTTGAATCATGATTTC
1 TACCCAATTGAGCCAATTGAATCATAATTTC
4685713 TACCCAAT
1 TACCCAAT
4685721 AAAGCCCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (31 bp):
TACCCAATTGAGCCAATTGAATCATAATTTC
Found at i:4685951 original size:29 final size:30
Alignment explanation
Indices: 4685919--4685983 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
4685909 TTAAAAATAT
* * *
4685919 AAATTAAAAAATCATTA-AAAAATTATTAG
1 AAATTAAAAAATAATTAGAAAAATTACTAA
* *
4685948 AAATTTATAAATAATTAGAAAAATTACTAA
1 AAATTAAAAAATAATTAGAAAAATTACTAA
4685978 AAATTA
1 AAATTA
4685984 TAGAAAGTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATTAAAAAATAATTAGAAAAATTACTAA
Found at i:4685964 original size:40 final size:40
Alignment explanation
Indices: 4685920--4685999 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
4685910 TAAAAATATA
*
4685920 AATTA-AAAAATCATTAAAAAATTATTAGAAA-TTTATAAAT
1 AATTAGAAAAATCACT-AAAAATTA-TAGAAAGTTTATAAAT
* *
4685960 AATTAGAAAAATTACTAAAAATTATAGAAAGTTTTTAAAT
1 AATTAGAAAAATCACTAAAAATTATAGAAAGTTTATAAAT
4686000 GTTTTAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 6 0.17
40 21 0.60
41 8 0.23
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (40 bp):
AATTAGAAAAATCACTAAAAATTATAGAAAGTTTATAAAT
Found at i:4685984 original size:29 final size:29
Alignment explanation
Indices: 4685927--4685985 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
4685917 ATAAATTAAA
* * *
4685927 AAATCATTAAAAAATTATTAGAAATTTAT
1 AAATAATTAAAAAATTACTAGAAAATTAT
4685956 AAATAATTAGAAAAATTACTA-AAAATTAT
1 AAATAATTA-AAAAATTACTAGAAAATTAT
4685985 A
1 A
4685986 GAAAGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (29 bp):
AAATAATTAAAAAATTACTAGAAAATTAT
Found at i:4686115 original size:28 final size:25
Alignment explanation
Indices: 4686084--4686140 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
4686074 ATTAATTTTT
4686084 TTAAAAACTACAAATAAGTTA-TAAAAAA
1 TTAAAAA-TACAAA-AAG-TACT-AAAAA
4686112 TTAAAAATACAAAAAGTACTAAAAA
1 TTAAAAATACAAAAAGTACTAAAAA
4686137 TTAA
1 TTAA
4686141 TAGAAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 11 0.39
26 4 0.14
27 6 0.21
28 7 0.25
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.25
Consensus pattern (25 bp):
TTAAAAATACAAAAAGTACTAAAAA
Found at i:4686763 original size:18 final size:19
Alignment explanation
Indices: 4686742--4686789 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
4686732 ATTTAATTTT
4686742 TTTATAATTTTTAAT-AAA
1 TTTATAATTTTTAATGAAA
* *
4686760 TTTATAATATTTTTATGAAT
1 TTTATAAT-TTTTAATGAAA
4686780 TTTATAATTT
1 TTTATAATTT
4686790 ATATTTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 8 0.31
19 8 0.31
20 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTATAATTTTTAATGAAA
Found at i:4686811 original size:41 final size:42
Alignment explanation
Indices: 4686742--4686846 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 42
4686732 ATTTAATTTT
* *
4686742 TTTATAATTTTTAATAAATTTATAATA-TTTTTATGAATTTTATAA
1 TTTAT-ATTTTTAA-AAA-TCATAATATTTTTTA-GAATTTAATAA
4686787 TTTATATTTTTAAAAATCAT-ATATTTTTTAGAATTTAATAA
1 TTTATATTTTTAAAAATCATAATATTTTTTAGAATTTAATAA
4686828 TTT-T-TTATTTAAAGAATCA
1 TTTATATT-TTTAAA-AATCA
4686847 ATTAAACCCC
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
39 2 0.04
40 7 0.13
41 21 0.38
42 9 0.16
43 3 0.05
44 8 0.15
45 5 0.09
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (42 bp):
TTTATATTTTTAAAAATCATAATATTTTTTAGAATTTAATAA
Found at i:4687930 original size:18 final size:16
Alignment explanation
Indices: 4687883--4687931 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 16
4687873 TATTATAGAT
*
4687883 TTATTTTAA-ATATAA
1 TTATTTTAATTTATAA
*
4687898 TTATTTTATTTTATAA
1 TTATTTTAATTTATAA
4687914 TTATTTATTAATTTATAA
1 TTA-TT-TTAATTTATAA
4687932 AATTCCAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.29
16 8 0.29
17 2 0.07
18 10 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTTTAATTTATAA
Found at i:4702395 original size:188 final size:188
Alignment explanation
Indices: 4702073--4702422 Score: 486
Period size: 188 Copynumber: 1.9 Consensus size: 188
4702063 AAATGAAGAA
* * * * *
4702073 GGTTTAAGGAACGCCCACAAACTACATTTAAGTTAGAAATTTAGTAACTCAGGCTTAAGTACCAA
1 GGTTCAAGGAACGCCCACAAACTACATTTAAGTTAGAAATTTAGCAACCCAAGCATAAGTACCAA
* * * * *
4702138 TGCATGCAGGAAGCATCTCAAAGTAAAGAAAAAAGCTAGAAGTCTGAACAGCATACAGAGGCAAT
66 TGCATACAAGAAGCACCTCAAAGTAAAGAAAAAAGCTAAAAGTCAGAACAGCATACAGAGGCAAT
* * *
4702203 TAACCTAATTTATGTATAAGTACCACATGAAGATAGAAATACCAGTGTTGCTATCTTG
131 TAACCTAATTTATGCAAAAATACCACATGAAGATAGAAATACCAGTGTTGCTATCTTG
* * * ***
4702261 GGTTCAAGGAACTCCCACAAACTACATTTCAGTTATAAATTTAGCAACCCAAGCATAAGTACTGG
1 GGTTCAAGGAACGCCCACAAACTACATTTAAGTTAGAAATTTAGCAACCCAAGCATAAGTACCAA
* *
4702326 TGCATACAAGAAGCACCTCAAAGTAAGGAAAAAAGCTAAAAGTCCAG-GCAGCATACAGAGGCAA
66 TGCATACAAGAAGCACCTCAAAGTAAAGAAAAAAGCTAAAAGT-CAGAACAGCATACAGAGGCAA
*
4702390 TTAACCTAATTTATGCAAAAATCCCACATGAAG
130 TTAACCTAATTTATGCAAAAATACCACATGAAG
4702423 GCAGGAGATG
Statistics
Matches: 139, Mismatches: 22, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
188 137 0.99
189 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (188 bp):
GGTTCAAGGAACGCCCACAAACTACATTTAAGTTAGAAATTTAGCAACCCAAGCATAAGTACCAA
TGCATACAAGAAGCACCTCAAAGTAAAGAAAAAAGCTAAAAGTCAGAACAGCATACAGAGGCAAT
TAACCTAATTTATGCAAAAATACCACATGAAGATAGAAATACCAGTGTTGCTATCTTG
Found at i:4703035 original size:16 final size:16
Alignment explanation
Indices: 4703014--4703046 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4703004 AATCTAACTG
4703014 CCCCATGCATATGGAT
1 CCCCATGCATATGGAT
4703030 CCCCATGCATATGGAT
1 CCCCATGCATATGGAT
4703046 C
1 C
4703047 ATTGCAGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (16 bp):
CCCCATGCATATGGAT
Found at i:4709310 original size:16 final size:16
Alignment explanation
Indices: 4709289--4709321 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4709279 AATCTAACTG
4709289 CCCCATGCATATGGAT
1 CCCCATGCATATGGAT
4709305 CCCCATGCATATGGAT
1 CCCCATGCATATGGAT
4709321 C
1 C
4709322 ATTGCAGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.24
Consensus pattern (16 bp):
CCCCATGCATATGGAT
Found at i:4723018 original size:26 final size:25
Alignment explanation
Indices: 4722968--4723018 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
4722958 TTAGTCTTTT
* *
4722968 CTATTAAAAATTCAATTTATTTGTA
1 CTATTAAAAATTCAATCTATATGTA
*
4722993 CTATTAAAAATTTAATCTATCATGTA
1 CTATTAAAAATTCAATCTAT-ATGTA
4723019 TACCTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (25 bp):
CTATTAAAAATTCAATCTATATGTA
Found at i:4731255 original size:4 final size:4
Alignment explanation
Indices: 4731246--4731305 Score: 120
Period size: 4 Copynumber: 15.0 Consensus size: 4
4731236 GGTCAGTTAA
4731246 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
4731294 TATG TATG TATG
1 TATG TATG TATG
4731306 CGTATTGTTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:4733410 original size:15 final size:15
Alignment explanation
Indices: 4733390--4733427 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
4733380 TGTACTTGTT
4733390 TTACTTCTATGCTTC
1 TTACTTCTATGCTTC
4733405 TTACTTCTATGCTTC
1 TTACTTCTATGCTTC
4733420 TTACTTCT
1 TTACTTCT
4733428 TTCTGCAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.13, C:0.26, G:0.05, T:0.55
Consensus pattern (15 bp):
TTACTTCTATGCTTC
Found at i:4734079 original size:11 final size:11
Alignment explanation
Indices: 4734059--4734100 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
4734049 GAATTAACAA
4734059 CAAAATAATAG
1 CAAAATAATAG
* *
4734070 CAATATAATAA
1 CAAAATAATAG
*
4734081 CAAAATGATAG
1 CAAAATAATAG
4734092 CAAAATAAT
1 CAAAATAAT
4734101 GAAAAAACAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:4734107 original size:22 final size:22
Alignment explanation
Indices: 4734057--4734100 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4734047 AAGAATTAAC
*
4734057 AACAAAATAATAGCAATATAAT
1 AACAAAATAATAGCAAAATAAT
*
4734079 AACAAAATGATAGCAAAATAAT
1 AACAAAATAATAGCAAAATAAT
4734101 GAAAAAACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.64, C:0.09, G:0.07, T:0.20
Consensus pattern (22 bp):
AACAAAATAATAGCAAAATAAT
Found at i:4743634 original size:18 final size:18
Alignment explanation
Indices: 4743611--4743649 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
4743601 TTAGCAAAGA
4743611 TAGCATCATGGTCCATTT
1 TAGCATCATGGTCCATTT
*
4743629 TAGCATCATGGTCCTTTT
1 TAGCATCATGGTCCATTT
4743647 TAG
1 TAG
4743650 GACCTCCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.41
Consensus pattern (18 bp):
TAGCATCATGGTCCATTT
Found at i:4744079 original size:13 final size:13
Alignment explanation
Indices: 4744061--4744086 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4744051 ATTCAACCAT
4744061 CAATCCGATTTTG
1 CAATCCGATTTTG
4744074 CAATCCGATTTTG
1 CAATCCGATTTTG
4744087 AAAACCTTAA
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:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
CAATCCGATTTTG
Found at i:4749965 original size:63 final size:63
Alignment explanation
Indices: 4749866--4750054 Score: 308
Period size: 63 Copynumber: 3.0 Consensus size: 63
4749856 GCAAACAGCA
* * * *
4749866 AATACAGAACCTTCTCGTTTATTTGATGAACTCTTACTGTGCAGATGGTTCCTTTCTCTCTTT
1 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCTTT
4749929 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCTTT
1 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCTTT
* *
4749992 AATACAGAACCTTCTGGTTCGTTTGATGACCTCTTACTGTGCATACT-GTTCCTTTGTCTCTTT
1 AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATA-TGGTTCCTTTCTCTCTTT
4750055 CTATTATTGC
Statistics
Matches: 119, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
63 118 0.99
64 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (63 bp):
AATACAGAACCTTCTGGTTTGTTTGATGACCTCTTACTGTGCATATGGTTCCTTTCTCTCTTT
Found at i:4766011 original size:21 final size:21
Alignment explanation
Indices: 4765985--4766026 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4765975 TTTCCTTAAC
4765985 CAAAATTCATACTCTAAATTT
1 CAAAATTCATACTCTAAATTT
4766006 CAAAATTCATACTCTAAATTT
1 CAAAATTCATACTCTAAATTT
4766027 TACAGATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (21 bp):
CAAAATTCATACTCTAAATTT
Found at i:4771843 original size:20 final size:20
Alignment explanation
Indices: 4771818--4771857 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4771808 CGTAAAATGA
*
4771818 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
4771838 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
4771858 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:4771847 original size:34 final size:34
Alignment explanation
Indices: 4771804--4771869 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
4771794 AGTAAAATAT
*
4771804 TTTTCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
4771837 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACTGGAAAATATTTT
4771870 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:4773138 original size:18 final size:19
Alignment explanation
Indices: 4773115--4773155 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
4773105 AATATAAAGA
*
4773115 ATAT-AAAAATATGTATAT
1 ATATAAAAAATATGTACAT
4773133 ATATAAAAAAATATGTACAT
1 ATAT-AAAAAATATGTACAT
4773153 ATA
1 ATA
4773156 CGTAGGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
20 16 0.80
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (19 bp):
ATATAAAAAATATGTACAT
Found at i:4773284 original size:24 final size:24
Alignment explanation
Indices: 4773257--4773303 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
4773247 GTATGAAAGC
*
4773257 ATATTTATATATGTAAGTATATAT
1 ATATTTATAGATGTAAGTATATAT
4773281 ATATTTATAGATGTAAGTATATA
1 ATATTTATAGATGTAAGTATATA
4773304 ATAAAGGCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.47
Consensus pattern (24 bp):
ATATTTATAGATGTAAGTATATAT
Found at i:4775175 original size:6 final size:7
Alignment explanation
Indices: 4775155--4775181 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
4775145 ATATATTATA
4775155 TTATTTT
1 TTATTTT
4775162 TTATTTT
1 TTATTTT
4775169 TTATTTT
1 TTATTTT
4775176 TTATTT
1 TTATTT
4775182 AAATTTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTATTTT
Found at i:4780397 original size:18 final size:18
Alignment explanation
Indices: 4780374--4780415 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
4780364 TATTTTGTTA
4780374 AAAATT-AAATATATAATT
1 AAAATTGAAATA-ATAATT
* *
4780392 AAAATTGCAATAATATTT
1 AAAATTGAAATAATAATT
4780410 AAAATT
1 AAAATT
4780416 TTAAAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
AAAATTGAAATAATAATT
Found at i:4781357 original size:126 final size:125
Alignment explanation
Indices: 4781107--4781364 Score: 363
Period size: 125 Copynumber: 2.1 Consensus size: 125
4781097 GATAAAATCA
* * * *
4781107 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTAAAGT
1 AAGCAGGATGATTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGT
*
4781172 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
** * * * *
4781232 AAGCAGGATTCTTTATGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGATTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGT
* * * * *
4781297 TGGTCTTAGAAGAAATAATTTCGAGTTGATGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTAGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
4781358 AAGCAGG
1 AAGCAGG
4781365 GGTGTGAGGT
Statistics
Matches: 116, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
125 63 0.54
126 53 0.46
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (125 bp):
AAGCAGGATGATTTATCAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGT
AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
Found at i:4782011 original size:14 final size:14
Alignment explanation
Indices: 4781992--4782090 Score: 69
Period size: 14 Copynumber: 6.9 Consensus size: 14
4781982 TTTGTGGCTA
4781992 AAATTAAAATGTTT
1 AAATTAAAATGTTT
*
4782006 AAATTATATAATTTTT
1 AAATTA-A-AATGTTT
** *
4782022 AAA-TAAAAAATTA
1 AAATTAAAATGTTT
4782035 AAATTAAAATGTTT
1 AAATTAAAATGTTT
4782049 AAATTATATAAAT-TTT
1 AAA-T-TA-AAATGTTT
**
4782065 AAA-TAAAAAATTT
1 AAATTAAAATGTTT
*
4782078 AAATTAATATGTT
1 AAATTAAAATGTT
4782091 AAGAGATTGA
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
12 3 0.05
13 15 0.23
14 23 0.35
15 4 0.06
16 17 0.26
17 4 0.06
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
AAATTAAAATGTTT
Found at i:4782024 original size:16 final size:14
Alignment explanation
Indices: 4781992--4782084 Score: 68
Period size: 13 Copynumber: 6.5 Consensus size: 14
4781982 TTTGTGGCTA
4781992 AAATT-AAAATGTTT
1 AAATTAAAAAT-TTT
*
4782006 AAATTATATAATTTTT
1 AAATTA-A-AAATTTT
* *
4782022 AAA-TAAAAAATTA
1 AAATTAAAAATTTT
4782035 AAATT-AAAATGTTT
1 AAATTAAAAAT-TTT
4782049 AAATTATATAAATTTT
1 AAATTA-A-AAATTTT
*
4782065 AAA-TAAAAAATTT
1 AAATTAAAAATTTT
4782078 AAATTAA
1 AAATTAA
4782085 TATGTTAAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
13 20 0.32
14 18 0.29
15 4 0.06
16 14 0.22
17 7 0.11
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
AAATTAAAAATTTT
Found at i:4782033 original size:23 final size:22
Alignment explanation
Indices: 4782006--4782076 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 22
4781996 TAAAATGTTT
4782006 AAATTATATAATTTTTAAATAAA
1 AAATTATATAA-TTTTAAATAAA
* ***
4782029 AAATTA-A-AA-TTAAAATGTTT
1 AAATTATATAATTTTAAAT-AAA
4782049 AAATTATATAAATTTTAAATAAA
1 AAATTATAT-AATTTTAAATAAA
4782072 AAATT
1 AAATT
4782077 TAAATTAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
19 6 0.17
20 6 0.17
21 3 0.09
22 1 0.03
23 13 0.37
24 6 0.17
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (22 bp):
AAATTATATAATTTTAAATAAA
Found at i:4782038 original size:43 final size:43
Alignment explanation
Indices: 4781990--4782090 Score: 175
Period size: 43 Copynumber: 2.3 Consensus size: 43
4781980 TTTTTGTGGC
*
4781990 TAAAATTAAAATGTTTAAATTATATAATTTTTAAATAAAAAAT
1 TAAAATTAAAATGTTTAAATTATATAAATTTTAAATAAAAAAT
4782033 TAAAATTAAAATGTTTAAATTATATAAATTTTAAATAAAAAAT
1 TAAAATTAAAATGTTTAAATTATATAAATTTTAAATAAAAAAT
* *
4782076 TTAAATTAATATGTT
1 TAAAATTAAAATGTT
4782091 AAGAGATTGA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (43 bp):
TAAAATTAAAATGTTTAAATTATATAAATTTTAAATAAAAAAT
Found at i:4782731 original size:25 final size:25
Alignment explanation
Indices: 4782689--4782738 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
4782679 ACTGAGCTTT
4782689 TTACAACTCAATGATGATTCAATAC
1 TTACAACTCAATGATGATTCAATAC
* * *
4782714 TTACAATTCAGTGGTGATTCAATAC
1 TTACAACTCAATGATGATTCAATAC
4782739 ATTTTAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (25 bp):
TTACAACTCAATGATGATTCAATAC
Found at i:4782817 original size:15 final size:16
Alignment explanation
Indices: 4782792--4782826 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4782782 ATCATATACA
4782792 AATATTATATTTATAT
1 AATATTATATTTATAT
*
4782808 AATA-TATATTTATGT
1 AATATTATATTTATAT
4782823 AATA
1 AATA
4782827 ATTCGAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
AATATTATATTTATAT
Found at i:4785772 original size:28 final size:29
Alignment explanation
Indices: 4785710--4785772 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 29
4785700 TTTAAATATG
*
4785710 AAAATTTATTTTATATCATAAAAATAAAT
1 AAAATTTATTATATATCATAAAAATAAAT
** *
4785739 TTAATTATATTATATATCA-AATAA-AAAT
1 AAAATT-TATTATATATCATAAAAATAAAT
4785767 AAAATT
1 AAAATT
4785773 CAATATAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
28 8 0.30
29 8 0.30
30 11 0.41
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAATTTATTATATATCATAAAAATAAAT
Found at i:4785831 original size:16 final size:16
Alignment explanation
Indices: 4785810--4785840 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4785800 TTAAACTTAC
*
4785810 ATTTCATAACTGTTCT
1 ATTTCATAACCGTTCT
4785826 ATTTCATAACCGTTC
1 ATTTCATAACCGTTC
4785841 AAATACCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTTCATAACCGTTCT
Found at i:4791653 original size:21 final size:21
Alignment explanation
Indices: 4791600--4791654 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
4791590 ACCATTGTTT
* * *
4791600 CTAATCTCACCACTACAGTAT
1 CTAATCTCACCGCTACAATAA
*
4791621 CCAATCTCACCGCTACAATAA
1 CTAATCTCACCGCTACAATAA
4791642 CTAATCTCACCGC
1 CTAATCTCACCGC
4791655 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.38, G:0.05, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAATAA
Found at i:4791970 original size:24 final size:24
Alignment explanation
Indices: 4791942--4791992 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4791932 TCATTATTGT
* * *
4791942 AAATATTCAAAATTTATAATTATA
1 AAATATTAAAAAATTAAAATTATA
4791966 AAATATTAAAAAATTAAAATTATA
1 AAATATTAAAAAATTAAAATTATA
4791990 AAA
1 AAA
4791993 ATAAAACAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATATTAAAAAATTAAAATTATA
Found at i:4797365 original size:14 final size:15
Alignment explanation
Indices: 4797335--4797367 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4797325 ATCACCCTTC
4797335 TAATTTAAATATTAT
1 TAATTTAAATATTAT
*
4797350 TAATTT-AATTTTAT
1 TAATTTAAATATTAT
4797364 TAAT
1 TAAT
4797368 ATATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TAATTTAAATATTAT
Found at i:4802324 original size:22 final size:22
Alignment explanation
Indices: 4802296--4802339 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
4802286 AAAAGTAAAG
4802296 AAAGACAACTTCTTTCTTGCAA
1 AAAGACAACTTCTTTCTTGCAA
4802318 AAAGACAACTTCTTTCTTGCAA
1 AAAGACAACTTCTTTCTTGCAA
4802340 CTTTCGTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (22 bp):
AAAGACAACTTCTTTCTTGCAA
Found at i:4808524 original size:103 final size:104
Alignment explanation
Indices: 4808280--4808545 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
4808270 GTTGTACATA
** *
4808280 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
4808345 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
4808384 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
4808448 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
4808487 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
4808546 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:4814648 original size:16 final size:16
Alignment explanation
Indices: 4814627--4814662 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
4814617 TTTGGTTCGC
*
4814627 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAAG
4814643 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAAG
4814659 TGTA
1 TGTA
4814663 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAAG
Found at i:4814919 original size:18 final size:17
Alignment explanation
Indices: 4814898--4814932 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4814888 TTATTATTAA
*
4814898 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4814916 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4814933 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:4814940 original size:79 final size:79
Alignment explanation
Indices: 4814857--4815103 Score: 229
Period size: 79 Copynumber: 3.1 Consensus size: 79
4814847 TTATTATCAA
4814857 TAATAAATAATTTAATCATGTTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
1 TAATAAATAATTTAATCATGTTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
4814922 TTTAATAAAATTCT
66 TTTAATAAAATTCT
* * * **** * * * *
4814936 TAATAATTAGCA-TAAAT-TTGTTTTGGTA-AATTATTATT--GT-TATTGTTATTTAAATTTTA
1 TAATAAATA--ATTTAATCATGTTTAAACATAATTATTATTAAATATATT-TTAATTAAAATAT-
* * * *
4814995 ATAAGATTATTAATA-TCAA
62 ATAA-TTTAATAAAATTC-T
* *
4815014 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
1 TAATAAATAATTTAATCATGTTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
4815079 TTTAATAAAATTCT
66 TTTAATAAAATTCT
*
4815093 TAATAATTAAT
1 TAATAAATAAT
4815104 ATTCTTATAT
Statistics
Matches: 122, Mismatches: 33, Indels: 26
0.67 0.18 0.14
Matches are distributed among these distances:
75 4 0.03
76 12 0.10
77 10 0.08
78 30 0.25
79 41 0.34
80 10 0.08
81 11 0.09
82 4 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (79 bp):
TAATAAATAATTTAATCATGTTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
TTTAATAAAATTCT
Found at i:4814986 original size:157 final size:157
Alignment explanation
Indices: 4814785--4815101 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
4814775 TAGAATACCT
*
4814785 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTGTTA
1 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
4814850 TTATCAATAATAAATAATTTAATCATGTTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4814915 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
4814942 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
4815007 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4815072 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
4815099 TTA
1 TTA
4815102 ATATTCTTAT
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:4815072 original size:16 final size:16
Alignment explanation
Indices: 4815035--4815076 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4815025 TTAATCATAT
*
4815035 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4815051 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4815066 TTAAAATATAT
1 TTAAAATATAT
4815077 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4815083 original size:14 final size:15
Alignment explanation
Indices: 4815044--4815085 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4815034 TTTAAACATA
*
4815044 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4815059 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4815073 A-TATAATTTAATA
1 ATTATAATTAAATA
4815086 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4815173 original size:120 final size:120
Alignment explanation
Indices: 4815038--4815569 Score: 1048
Period size: 120 Copynumber: 4.4 Consensus size: 120
4815028 ATCATATTTA
4815038 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4815103 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
4815158 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4815223 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
4815278 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4815343 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
4815398 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
4815463 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
4815518 AACATAATTATTATTAAATATATT-TAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
4815570 TAAAATAATT
Statistics
Matches: 411, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
119 27 0.07
120 384 0.93
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:4815203 original size:14 final size:15
Alignment explanation
Indices: 4815154--4815205 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4815144 GTAAAATATA
4815154 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4815169 TATTAAATATATTAT
1 AATTAAATATATTAT
4815184 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4815197 AATTTAATA
1 AATTAAATA
4815206 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4815323 original size:14 final size:15
Alignment explanation
Indices: 4815274--4815325 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4815264 GTAAAATATA
4815274 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4815289 TATTAAATATATTAT
1 AATTAAATATATTAT
4815304 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4815317 AATTTAATA
1 AATTAAATA
4815326 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4815443 original size:14 final size:15
Alignment explanation
Indices: 4815394--4815445 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4815384 GTAAAATATA
4815394 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
4815409 TATTAAATATATTAT
1 AATTAAATATATTAT
4815424 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4815437 AATTTAATA
1 AATTAAATA
4815446 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4815555 original size:17 final size:17
Alignment explanation
Indices: 4815535--4815568 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4815525 TTATTATTAA
4815535 ATAT-ATTTAATTAAAAT
1 ATATGATTTAA-TAAAAT
4815552 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
4815569 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:4815681 original size:91 final size:91
Alignment explanation
Indices: 4815585--4815792 Score: 285
Period size: 91 Copynumber: 2.3 Consensus size: 91
4815575 TAATTATAAC
* * * *
4815585 TAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAA
*
4815649 TAATATATAATTTCATAAAATTCTTGA
65 TAATATATAATTTCATAAAATTCTTAA
* * *
4815676 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
4815741 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
4815767 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
4815793 CTAAAATCAA
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
91 82 0.78
92 22 0.21
93 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:4821894 original size:11 final size:11
Alignment explanation
Indices: 4821878--4821905 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
4821868 AATCGGGAGG
4821878 CGAAGGTAGAA
1 CGAAGGTAGAA
4821889 CGAAGGTAGAA
1 CGAAGGTAGAA
4821900 CGAAGG
1 CGAAGG
4821906 AAGAGACGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.39, T:0.07
Consensus pattern (11 bp):
CGAAGGTAGAA
Found at i:4835201 original size:25 final size:24
Alignment explanation
Indices: 4835164--4835217 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
4835154 AAGAAAGGCG
**
4835164 AATTATCAAATTTAATGAATA-AA
1 AATTATCAAATTTAAAAAATAGAA
4835187 AATTATACAAAATTTAAAAAATAGAA
1 AATTAT-C-AAATTTAAAAAATAGAA
4835213 AATTA
1 AATTA
4835218 AATTAGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 6 0.23
24 1 0.04
25 12 0.46
26 7 0.27
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (24 bp):
AATTATCAAATTTAAAAAATAGAA
Found at i:4838562 original size:31 final size:31
Alignment explanation
Indices: 4838527--4838620 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
4838517 TGAATTTAAA
**
4838527 TGTATATGTTTTATACATTGCCGAATTGATT
1 TGTATATGTGATATACATTGCCGAATTGATT
4838558 TG--TATGTAGATATACATTGCCGAATTTGATT
1 TGTATATGT-GATATACATTGCCGAA-TTGATT
* *
4838589 CGTATATG-GATATATATTGCCGAATTGATT
1 TGTATATGTGATATACATTGCCGAATTGATT
4838619 TG
1 TG
4838621 AGCATTGGAT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
29 5 0.09
30 21 0.39
31 24 0.44
33 4 0.07
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.44
Consensus pattern (31 bp):
TGTATATGTGATATACATTGCCGAATTGATT
Found at i:4838630 original size:31 final size:30
Alignment explanation
Indices: 4838538--4838620 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 30
4838528 GTATATGTTT
* *
4838538 TATACATTGCCGAATTGATTTGTATGTAGA
1 TATACATTGCCGAATTGATTTGTATATGGA
*
4838568 TATACATTGCCGAATTTGATTCGTATATGGA
1 TATACATTGCCGAA-TTGATTTGTATATGGA
*
4838599 TATATATTGCCGAATTGATTTG
1 TATACATTGCCGAATTGATTTG
4838621 AGCATTGGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 21 0.45
31 26 0.55
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (30 bp):
TATACATTGCCGAATTGATTTGTATATGGA
Found at i:4838915 original size:43 final size:43
Alignment explanation
Indices: 4838735--4838905 Score: 279
Period size: 43 Copynumber: 4.0 Consensus size: 43
4838725 ACTTTCGAGG
4838735 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
* * *
4838778 TGAGATTTCGTATAAGACCATAGTTGGGCTATTGGCATCAATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
*
4838821 TGAGATTTCGTGTAAGACCATAGCTCGGCTATTGGCATCGATT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
* * *
4838864 TGAGATTTCGTGTAAGACCATAGTTGGGTTATTAGCATCGAT
1 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGAT
4838906 ACAAGATTTC
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 117 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATT
Found at i:4840966 original size:50 final size:50
Alignment explanation
Indices: 4840842--4841090 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
4840832 GATAATAACA
* * * ** * *
4840842 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCGTGGT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
4840893 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
4840943 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
4840993 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
4841048 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
4841091 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 32 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:4841017 original size:100 final size:104
Alignment explanation
Indices: 4840841--4841090 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
4840831 TGATAATAAC
* ** *
4840841 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCGTGGTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGCTGGTGCCCATGCCATG
* *
4840906 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
*
4840943 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGCT-GGTGCCCATGCCATG
4841006 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
4841048 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4841091 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 35 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):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGCTGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:4841206 original size:13 final size:13
Alignment explanation
Indices: 4841185--4841216 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4841175 GCTTGGATCA
*
4841185 TCATCAAATAAAT
1 TCATAAAATAAAT
4841198 TCATAAAATAAAT
1 TCATAAAATAAAT
4841211 TCATAA
1 TCATAA
4841217 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:4841463 original size:30 final size:30
Alignment explanation
Indices: 4841428--4841485 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4841418 CCTCGACTCT
*
4841428 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
4841458 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
4841486 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:4856490 original size:4 final size:4
Alignment explanation
Indices: 4856483--4856550 Score: 52
Period size: 4 Copynumber: 16.8 Consensus size: 4
4856473 TTATAAATAA
* *
4856483 AAAG AAAG CAAG ATAG AAACG AAACGG AAAG -AA- AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAA-G AAA--G AAAG AAAG AAAG AAAG AAAG AAAG
*
4856532 AAAAG AAA- AAGG AAAG AAA
1 -AAAG AAAG AAAG AAAG AAA
4856551 TGAAGGAGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
3 6 0.12
4 33 0.65
5 8 0.16
6 4 0.08
ACGTcount: A:0.71, C:0.04, G:0.24, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:4856523 original size:33 final size:34
Alignment explanation
Indices: 4856481--4856550 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
4856471 TATTATAAAT
* * * *
4856481 AAAAAGAAAGCAAGATAGAAACG-AAACGGAAAG
1 AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
4856514 AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
1 AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
4856548 AAA
1 AAA
4856551 TGAAGGAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 20 0.62
34 12 0.38
ACGTcount: A:0.71, C:0.04, G:0.23, T:0.01
Consensus pattern (34 bp):
AAAAAGAAAGAAAGAAAGAAAAGAAAAAGGAAAG
Found at i:4858735 original size:15 final size:15
Alignment explanation
Indices: 4858715--4858764 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
4858705 TGATAAATTT
4858715 ATTGAATTTATATTG
1 ATTGAATTTATATTG
4858730 ATTGAATTGGTATATAT-
1 ATTGAATT--TATAT-TG
*
4858747 ATTGAATATATATTG
1 ATTGAATTTATATTG
4858762 ATT
1 ATT
4858765 ATTTGAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:4858997 original size:37 final size:38
Alignment explanation
Indices: 4858922--4858998 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 38
4858912 GTCAATTTAC
* *
4858922 TACTTCGGTTTAATTCGAGGAGGCACTGAGTGCTAATT
1 TACTTCGGTTTAAGTCGAGGAGACACTGAGTGCTAATT
* *
4858960 TACTTCGGTTT-AGTCGATGAGATACTGAGTG-TCAATT
1 TACTTCGGTTTAAGTCGAGGAGACACTGAGTGCT-AATT
4858997 TA
1 TA
4858999 TTACTTCGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 1 0.03
37 22 0.65
38 11 0.32
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (38 bp):
TACTTCGGTTTAAGTCGAGGAGACACTGAGTGCTAATT
Found at i:4868784 original size:85 final size:85
Alignment explanation
Indices: 4868632--4868836 Score: 231
Period size: 85 Copynumber: 2.4 Consensus size: 85
4868622 TTTTTATCTA
* *
4868632 AAACGCCGCAATAGACTCTGATCTATAGCGGC-ATTTATACCACAAACGCCATAGAAGACCTATT
1 AAACGCCGCAATAGACTCTGATCTATAGCGGCGCTGTATA-CACAAACGCCATAGAAGACCTATT
*
4868696 CTTTAGCGGCGCTTTCTCCTC
65 CTTTAGCGGCGCTTTCTCCAC
* *
4868717 AAACGCCGCAATAGACTCTGATCTATAGCGGCGCTGTCT-CACAAACGCCGCTA-AAGACC-ATG
1 AAACGCCGCAATAGACTCTGATCTATAGCGGCGCTGTATACACAAACGCC-ATAGAAGACCTAT-
* * *
4868779 ATCTTTAGTGGTGCTTTTTCCAC
64 -TCTTTAGCGGCGCTTTCTCCAC
* * *
4868802 AAACGCCGCTAA-AGACCCTTATCTTTAGCGGCGCT
1 AAACGCCGC-AATAGACTCTGATCTATAGCGGCGCT
4868837 TTGAACAAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
83 2 0.02
84 16 0.15
85 81 0.78
86 5 0.05
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (85 bp):
AAACGCCGCAATAGACTCTGATCTATAGCGGCGCTGTATACACAAACGCCATAGAAGACCTATTC
TTTAGCGGCGCTTTCTCCAC
Found at i:4868838 original size:43 final size:43
Alignment explanation
Indices: 4868632--4868838 Score: 194
Period size: 43 Copynumber: 4.9 Consensus size: 43
4868622 TTTTTATCTA
* * * *
4868632 AAACGCCGC-AATAGACTCTGATCTATAGCGGC-ATTTATACCAC
1 AAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTCT-CCAC
* *
4868675 AAACGCC-ATAGAAGA-CCT-ATTCTTTAGCGGCGCTTTCTCCTC
1 AAACGCCGCTA-AAGACCCTGA-TCTTTAGCGGCGCTTTCTCCAC
* * *
4868717 AAACGCCGC-AATAGACTCTGATCTATAGCGGCGCTGTCT-CAC
1 AAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTCTCCAC
* * * *
4868759 AAACGCCGCTAAAGACCATGATCTTTAGTGGTGCTTTTTCCAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCTCCAC
*
4868802 AAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTT
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTT
4868839 GAACAAAAAC
Statistics
Matches: 132, Mismatches: 22, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
41 2 0.02
42 57 0.43
43 71 0.54
44 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTCTCCAC
Found at i:4868849 original size:43 final size:43
Alignment explanation
Indices: 4868717--4868857 Score: 117
Period size: 43 Copynumber: 3.3 Consensus size: 43
4868707 CTTTCTCCTC
* * ** *
4868717 AAACGCCGC-AATAGACTC-TGATCTATAGCGGCGCTGT-CTCAC
1 AAACGCCGCTAA-AGAC-CATGATCTTTAGCGGCGCTTTGAACAA
* * *** *
4868759 AAACGCCGCTAAAGACCATGATCTTTAGTGGTGCTTTTTCCAC
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTGAACAA
* *
4868802 AAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGAACAA
1 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTGAACAA
*
4868845 AAACGCCACTAAA
1 AAACGCCGCTAAA
4868858 AAGGCCAACA
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 28 0.35
43 52 0.64
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTGAACAA
Found at i:4876192 original size:92 final size:92
Alignment explanation
Indices: 4876035--4876221 Score: 320
Period size: 92 Copynumber: 2.0 Consensus size: 92
4876025 AATATTAACT
* *
4876035 AAAGATGTCATTTTGTACATTGAAATAGCTACAAAGTAATCATTAACCATACAATGATTAACCCA
1 AAAGATGTCATTTTGTACATTGAAATAACCACAAAGTAATCATTAACCATACAATGATTAACCCA
* **
4876100 AACAACAAAGACTTCACCTTTGCCTAA
66 AACAAAAAAGACTTCACCTTCACCTAA
*
4876127 AAAGATGTCATTTTGTACATTGAAATAACCACAAAGTAATCATTAACCATACTATGATTAACCCA
1 AAAGATGTCATTTTGTACATTGAAATAACCACAAAGTAATCATTAACCATACAATGATTAACCCA
4876192 AACAAAAAAGACTTCACCTTCACCTAA
66 AACAAAAAAGACTTCACCTTCACCTAA
4876219 AAA
1 AAA
4876222 TGACAAATTG
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (92 bp):
AAAGATGTCATTTTGTACATTGAAATAACCACAAAGTAATCATTAACCATACAATGATTAACCCA
AACAAAAAAGACTTCACCTTCACCTAA
Found at i:4876833 original size:14 final size:14
Alignment explanation
Indices: 4876814--4876844 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4876804 AGAATTATTT
*
4876814 TAATCTAAATTTAC
1 TAATCTAAATTAAC
4876828 TAATCTAAATTAAC
1 TAATCTAAATTAAC
4876842 TAA
1 TAA
4876845 GAACGAGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:4879522 original size:6 final size:6
Alignment explanation
Indices: 4879506--4879577 Score: 65
Period size: 6 Copynumber: 11.7 Consensus size: 6
4879496 AATTTAGTTC
* * ** *
4879506 AAAAGAT AAAAAT -AAAAT AAGACT AAGAAAAT AACCAT AAACAT AAAAAT
1 AAAA-AT AAAAAT AAAAAT AAAAAT -A-AAAAT AAAAAT AAAAAT AAAAAT
4879556 AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAA
4879578 CAAATGGAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
5 5 0.09
6 40 0.74
7 6 0.11
8 3 0.06
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:4880196 original size:15 final size:16
Alignment explanation
Indices: 4880168--4880198 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4880158 GGGTGGTTCA
4880168 AATAGGGAGGAAAGGG
1 AATAGGGAGGAAAGGG
4880184 AATAGGG-GGAAAGGG
1 AATAGGGAGGAAAGGG
4880199 TGGGTATGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.52, T:0.06
Consensus pattern (16 bp):
AATAGGGAGGAAAGGG
Found at i:4883973 original size:14 final size:14
Alignment explanation
Indices: 4883954--4883984 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4883944 GGAATTGTTT
*
4883954 TAATCTAAATTTAC
1 TAATCTAAATTAAC
4883968 TAATCTAAATTAAC
1 TAATCTAAATTAAC
4883982 TAA
1 TAA
4883985 GAATGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:4891351 original size:16 final size:16
Alignment explanation
Indices: 4891327--4891357 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4891317 TCCTCCCCCT
*
4891327 CTCTCTCTCTATCTCG
1 CTCTATCTCTATCTCG
4891343 CTCTATCTCTATCTC
1 CTCTATCTCTATCTC
4891358 TGTTGAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.42, G:0.03, T:0.45
Consensus pattern (16 bp):
CTCTATCTCTATCTCG
Found at i:4899009 original size:25 final size:26
Alignment explanation
Indices: 4898977--4899031 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
4898967 TTATTAAATT
*
4898977 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
4899002 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
4899027 A-ATAT
1 ATATAT
4899032 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:4899218 original size:44 final size:45
Alignment explanation
Indices: 4899169--4899263 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
4899159 TTACACCTCT
* *
4899169 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
4899213 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
4899258 ATTACA
1 ATTACA
4899264 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Done.