Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 27 of 91
Found at i:4706790 original size:21 final size:21
Alignment explanation
Indices: 4706766--4706815 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
4706756 CAGAATCTAG
4706766 AAATTTTTCAAAAAATTTTCA
1 AAATTTTTCAAAAAATTTTCA
4706787 AAATTTTTCAAAAAATTTTCA
1 AAATTTTTCAAAAAATTTTCA
*
4706808 AATTTTTT
1 AAATTTTT
4706816 TTTTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (21 bp):
AAATTTTTCAAAAAATTTTCA
Found at i:4706815 original size:10 final size:10
Alignment explanation
Indices: 4706766--4706814 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 10
4706756 CAGAATCTAG
4706766 AAATTTTTCAA
1 AAATTTTTC-A
*
4706777 AAAATTTTCA
1 AAATTTTTCA
4706787 AAATTTTTCAA
1 AAATTTTTC-A
*
4706798 AAAATTTTC-
1 AAATTTTTCA
4706807 AAATTTTT
1 AAATTTTT
4706815 TTTTTTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 7 0.21
10 9 0.27
11 17 0.52
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (10 bp):
AAATTTTTCA
Found at i:4711053 original size:32 final size:31
Alignment explanation
Indices: 4710993--4711103 Score: 99
Period size: 32 Copynumber: 3.7 Consensus size: 31
4710983 ATTATGAATT
* *
4710993 TATT-ATTATTTATTTAT-ATATCACATATTA
1 TATTAATTAATTATTTATAAT-TCAAATATTA
4711023 TATTAATTAATTAATTTATAATTCAAATATTA
1 TATTAATTAATT-ATTTATAATTCAAATATTA
* * *
4711055 TATTAA-AAATT-TTTAAAATTCAACTA-TA
1 TATTAATTAATTATTTATAATTCAAATATTA
*
4711083 TATTATATTAAATATTT-TAAT
1 TATTA-ATTAATTATTTATAAT
4711104 ATACTTCAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
28 7 0.10
29 14 0.21
30 10 0.15
31 13 0.19
32 21 0.31
33 2 0.03
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (31 bp):
TATTAATTAATTATTTATAATTCAAATATTA
Found at i:4711982 original size:15 final size:15
Alignment explanation
Indices: 4711962--4711991 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4711952 CCCATATTCC
4711962 ATTTGAGGACTTTAA
1 ATTTGAGGACTTTAA
*
4711977 ATTTGAGGTCTTTAA
1 ATTTGAGGACTTTAA
4711992 TAAAACCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (15 bp):
ATTTGAGGACTTTAA
Found at i:4713851 original size:64 final size:63
Alignment explanation
Indices: 4713783--4714040 Score: 243
Period size: 64 Copynumber: 4.1 Consensus size: 63
4713773 TTTTTGGCTG
* ** * *
4713783 AAAACGCCTTTAATAATTTATTCAAAAAATTTTGGAGAGGGATTATTGAATGCATTTTTGACCA
1 AAAACGCCTTCAATAATCCATACAAAAAATTTTGGA-AGGGATTATTGAAGGCATTTTTGACCA
* * * * * *
4713847 AAAAC-ACTTACAATAATCCATAAAAAAAATTTTTGAAGGGATTATTAAAGGCGTTTTTGACAA
1 AAAACGCCTT-CAATAATCCATACAAAAAATTTTGGAAGGGATTATTGAAGGCATTTTTGACCA
* * * * * * * * **
4713910 AAAATGCATTCAATAATCCTTTA-TAAAATTTTATTGAGGGGATTATTGAAGGCATTTTCGGTCA
1 AAAACGCCTTCAATAATCC-ATACAAAAAATTT-TGGAAGGGATTATTGAAGGCATTTTTGACCA
* *
4713974 AAAATGTCTTCAATAATCCATACAAAAAATTTTGGAAGGGATTATTGAAGGCATTTTTTG-CCA
1 AAAACGCCTTCAATAATCCATACAAAAAATTTTGGAAGGGATTATTGAAGGCA-TTTTTGACCA
4714037 AAAA
1 AAAA
4714041 TACCTTAATC
Statistics
Matches: 155, Mismatches: 33, Indels: 13
0.77 0.16 0.06
Matches are distributed among these distances:
63 73 0.47
64 82 0.53
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (63 bp):
AAAACGCCTTCAATAATCCATACAAAAAATTTTGGAAGGGATTATTGAAGGCATTTTTGACCA
Found at i:4713905 original size:63 final size:63
Alignment explanation
Indices: 4713806--4714041 Score: 253
Period size: 63 Copynumber: 3.7 Consensus size: 63
4713796 TAATTTATTC
*
4713806 AAAAAATTTTGGAGAGGGATTATTGAATGCATTTTTGACCAAAAA-CACTTACAATAATCCATAA
1 AAAAAATTTTGGA-AGGGATTATTGAAGGCATTTTTGACCAAAAATCACTT-CAATAATCCATAA
* * * * * *
4713870 AAAAAATTTTTGAAGGGATTATTAAAGGCGTTTTTGACAAAAAATGCA-TTCAATAATCCTTTA
1 AAAAAATTTTGGAAGGGATTATTGAAGGCATTTTTGACCAAAAAT-CACTTCAATAATCCATAA
* * * * * ** ** *
4713933 TAAAATTTTATTGAGGGGATTATTGAAGGCATTTTCGGTCAAAAATGTCTTCAATAATCCATAC
1 AAAAAATTT-TGGAAGGGATTATTGAAGGCATTTTTGACCAAAAATCACTTCAATAATCCATAA
4713997 AAAAAATTTTGGAAGGGATTATTGAAGGCATTTTTTG-CCAAAAAT
1 AAAAAATTTTGGAAGGGATTATTGAAGGCA-TTTTTGACCAAAAAT
4714042 ACCTTAATCC
Statistics
Matches: 140, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
63 71 0.51
64 67 0.48
65 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (63 bp):
AAAAAATTTTGGAAGGGATTATTGAAGGCATTTTTGACCAAAAATCACTTCAATAATCCATAA
Found at i:4716776 original size:42 final size:42
Alignment explanation
Indices: 4716724--4716803 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
4716714 AATTCATAGG
*
4716724 TTATTGAAGGCATTTTT-GACAATAAACACCTTCAATAATCAC
1 TTATTCAAGGCATTTTTGGACAA-AAACACCTTCAATAATCAC
* * *
4716766 TTATTCAAGGCTTTTTTGGTCAAAAACGCCTTCAATAA
1 TTATTCAAGGCATTTTTGGACAAAAACACCTTCAATAA
4716804 CGCATTCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 29 0.88
43 4 0.12
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (42 bp):
TTATTCAAGGCATTTTTGGACAAAAACACCTTCAATAATCAC
Found at i:4716805 original size:12 final size:12
Alignment explanation
Indices: 4716785--4716827 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
4716775 GCTTTTTTGG
*
4716785 TCAAAAACGCCT
1 TCAATAACGCCT
*
4716797 TCAATAACGCAT
1 TCAATAACGCCT
*
4716809 TCAATAACCCCAT
1 TCAATAACGCC-T
4716822 TCAATA
1 TCAATA
4716828 TTTTGTAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
12 19 0.73
13 7 0.27
ACGTcount: A:0.42, C:0.30, G:0.05, T:0.23
Consensus pattern (12 bp):
TCAATAACGCCT
Found at i:4718509 original size:15 final size:15
Alignment explanation
Indices: 4718489--4718522 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4718479 TTATTTTGTT
4718489 AATAAAAAAATAAAA
1 AATAAAAAAATAAAA
*
4718504 AATAAAAAAATGAAA
1 AATAAAAAAATAAAA
4718519 AATA
1 AATA
4718523 GATAGTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (15 bp):
AATAAAAAAATAAAA
Found at i:4719195 original size:13 final size:13
Alignment explanation
Indices: 4719177--4719201 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4719167 TCAAAACAAA
4719177 AAAAAATAAAAAT
1 AAAAAATAAAAAT
4719190 AAAAAATAAAAA
1 AAAAAATAAAAA
4719202 GTATTGATAA
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:4719696 original size:53 final size:52
Alignment explanation
Indices: 4719568--4719812 Score: 224
Period size: 57 Copynumber: 4.6 Consensus size: 52
4719558 AAATAAAGAG
*
4719568 AAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAAGAAAAA
1 AAAATATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAAAT-CAAGAAAAA
* * * **
4719621 AAAGAGAATTTCTAAATAGACCTAAATGGTGAAAAAATCTAGAAAT-TTGAAAAA
1 AAA-A-TATTTCTAAATTGACCTAAATGGTG-AAAAATTTAGAAATCAAGAAAAA
*
4719675 CAAAATATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAAATCCAACAAAAA
1 -AAAATATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAAAT-CAAGAAAAA
* * * * * *
4719729 AAAGAGGGAATTTCTAAATAGGCCCAAATGGTGAAAAATTCAGAAATTAA-AAAAA
1 AAA-A---TATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAAATCAAGAAAAA
* * * * *
4719784 TATATATTTCTAATTTGGCCCAAATGGTG
1 AAAATATTTCTAAATTGACCTAAATGGTG
4719813 GAATAATTAG
Statistics
Matches: 159, Mismatches: 23, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
51 22 0.14
52 13 0.08
53 29 0.18
54 15 0.09
55 31 0.19
56 15 0.09
57 34 0.21
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.26
Consensus pattern (52 bp):
AAAATATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAAATCAAGAAAAA
Found at i:4719823 original size:108 final size:108
Alignment explanation
Indices: 4719568--4719812 Score: 363
Period size: 108 Copynumber: 2.3 Consensus size: 108
4719558 AAATAAAGAG
*
4719568 AAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAAGAAAAAAAAGAGAATTTC
1 AAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAAGAGAATTTC
*
4719633 TAAATAGACCTAAATGGTGAAAAAATCTAGAAATTTGAAAAAC
66 TAAATAGACCCAAATGGTGAAAAAATCTAGAAATTTGAAAAAC
*
4719676 AAAATATTTCTAAATTGACCTAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAAGAGGGAATT
1 AAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAAGA--GAATT
* *
4719741 TCTAAATAGGCCCAAATGGTGAAAAATTC-AGAAA-TT-AAAAA-
64 TCTAAATAGACCCAAATGGTGAAAAAATCTAGAAATTTGAAAAAC
* *
4719782 AATATATATTTCTAATTTGGCCCAAATGGTG
1 AA-A-ATATTTCTAAATTGACCCAAATGGTG
4719813 GAATAATTAG
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
106 2 0.02
107 6 0.05
108 81 0.65
109 5 0.04
110 31 0.25
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.26
Consensus pattern (108 bp):
AAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAATCCAACAAAAAAAAGAGAATTTC
TAAATAGACCCAAATGGTGAAAAAATCTAGAAATTTGAAAAAC
Found at i:4720398 original size:16 final size:15
Alignment explanation
Indices: 4720381--4720410 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4720371 TTACTAACAT
4720381 TTTCATTTTTTTTTA
1 TTTCATTTTTTTTTA
*
4720396 TTTGATTTTTTTTTA
1 TTTCATTTTTTTTTA
4720411 GCATGATAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTCATTTTTTTTTA
Found at i:4722802 original size:14 final size:16
Alignment explanation
Indices: 4722783--4722818 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
4722773 CCAATTACTA
4722783 TTCCATGT-TTTTT-T
1 TTCCATGTCTTTTTGT
4722797 TTCCATGTCTTTTTGT
1 TTCCATGTCTTTTTGT
4722813 TTCCAT
1 TTCCAT
4722819 TCTCAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
15 5 0.25
16 7 0.35
ACGTcount: A:0.08, C:0.19, G:0.08, T:0.64
Consensus pattern (16 bp):
TTCCATGTCTTTTTGT
Found at i:4723257 original size:13 final size:13
Alignment explanation
Indices: 4723209--4723262 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
4723199 GGTCTCAAAT
4723209 AGAAAGAAAAAAA
1 AGAAAGAAAAAAA
* *
4723222 ATAAACAAAAGTAAA
1 AGAAAGAAAA--AAA
* *
4723237 ACAAAGAAAAAAT
1 AGAAAGAAAAAAA
4723250 AGAAAGAAAAAAA
1 AGAAAGAAAAAAA
4723263 TAAATGCTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
13 21 0.66
15 11 0.34
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.06
Consensus pattern (13 bp):
AGAAAGAAAAAAA
Found at i:4723629 original size:18 final size:17
Alignment explanation
Indices: 4723606--4723656 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
4723596 GTGGATGAAG
*
4723606 GAAAAAATAGAAAAAGAT
1 GAAAAAA-AGAAAAAAAT
4723624 GAAAAAAATGAAAAAAAT
1 GAAAAAAA-GAAAAAAAT
4723642 -AAAAAAGAGAAAAAA
1 GAAAAAA-AGAAAAAA
4723657 GAAAGACTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (17 bp):
GAAAAAAAGAAAAAAAT
Found at i:4724973 original size:21 final size:22
Alignment explanation
Indices: 4724944--4725269 Score: 238
Period size: 21 Copynumber: 14.8 Consensus size: 22
4724934 TGAAGTTTTA
4724944 AGTCTT-AAATGAGAATCTTTG
1 AGTCTTCAAATGAGAATCTTTG
**
4724965 AGTAGT-AAATGAGAATCTTTAAG
1 AGTCTTCAAATGAGAATCTTT--G
* * *
4724988 AAATCCTCAAATGAAAATCTTTG
1 -AGTCTTCAAATGAGAATCTTTG
4725011 AGTCTT-AAATGAGAATCTTTAAG
1 AGTCTTCAAATGAGAATCTTT--G
*
4725034 AAATCTTCAAATGAGAATCTTTG
1 -AGTCTTCAAATGAGAATCTTTG
*
4725057 AGT-TTCAAATGAGAATCTTTA
1 AGTCTTCAAATGAGAATCTTTG
* *
4725078 AGTTTTCAAATGATAATCTTTG
1 AGTCTTCAAATGAGAATCTTTG
* * *
4725100 ATTCTT-AAATAAGAATATTTAAG
1 AGTCTTCAAATGAGAATCTTT--G
* * *
4725123 AAATCCTCAAATGTGAATCTTTG
1 -AGTCTTCAAATGAGAATCTTTG
*
4725146 AGT-TTCAAACGAGAATCTTTG
1 AGTCTTCAAATGAGAATCTTTG
* * * *
4725167 AGTTTTCAAATCAGAATTTTTT
1 AGTCTTCAAATGAGAATCTTTG
* * * * * *
4725189 A-TTTTTAAATAAAAATTTTTT
1 AGTCTTCAAATGAGAATCTTTG
* * *
4725210 AGTTTTTAAATAAGAATCTTTG
1 AGTCTTCAAATGAGAATCTTTG
4725232 AGTCTTCAAATGAGAA-CATTTG
1 AGTCTTCAAATGAGAATC-TTTG
4725254 AGT-TTCAAATGAGAAT
1 AGTCTTCAAATGAGAAT
4725270 TTTTTAGATG
Statistics
Matches: 247, Mismatches: 41, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
21 111 0.45
22 80 0.32
23 6 0.02
24 12 0.05
25 38 0.15
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (22 bp):
AGTCTTCAAATGAGAATCTTTG
Found at i:4725007 original size:46 final size:45
Alignment explanation
Indices: 4724950--4725165 Score: 267
Period size: 46 Copynumber: 4.8 Consensus size: 45
4724940 TTTAAGTCTT
*
4724950 AAATGAGAATCTTTGAGTAGTAAATGAGAATCTTTAAGAAATCCTC
1 AAATGAGAATCTTTGAGT-TTAAATGAGAATCTTTAAGAAATCCTC
* *
4724996 AAATGAAAATCTTTGAGTCTTAAATGAGAATCTTTAAGAAATCTTC
1 AAATGAGAATCTTTGAGT-TTAAATGAGAATCTTTAAGAAATCCTC
**
4725042 AAATGAGAATCTTTGAGTTTCAAATGAGAATCTTTAAG---TTTTC
1 AAATGAGAATCTTTGAGTTT-AAATGAGAATCTTTAAGAAATCCTC
* * * *
4725085 AAATGATAATCTTTGATTCTTAAATAAGAATATTTAAGAAATCCTC
1 AAATGAGAATCTTTGAGT-TTAAATGAGAATCTTTAAGAAATCCTC
* *
4725131 AAATGTGAATCTTTGAGTTTCAAACGAGAATCTTT
1 AAATGAGAATCTTTGAGTTT-AAATGAGAATCTTT
4725166 GAGTTTTCAA
Statistics
Matches: 146, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
43 35 0.24
44 2 0.01
45 4 0.03
46 105 0.72
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (45 bp):
AAATGAGAATCTTTGAGTTTAAATGAGAATCTTTAAGAAATCCTC
Found at i:4725054 original size:14 final size:13
Alignment explanation
Indices: 4724970--4725054 Score: 53
Period size: 13 Copynumber: 7.1 Consensus size: 13
4724960 CTTTGAGTAG
4724970 TAAATGAGAATCT
1 TAAATGAGAATCT
*
4724983 TTAA-GA-AATCCT
1 TAAATGAGAAT-CT
* *
4724995 CAAATGAAAATCT
1 TAAATGAGAATCT
4725008 T---TGAG--TCT
1 TAAATGAGAATCT
4725016 TAAATGAGAATCT
1 TAAATGAGAATCT
*
4725029 TTAA-GA-AATCT
1 TAAATGAGAATCT
4725040 TCAAATGAGAATCT
1 T-AAATGAGAATCT
4725054 T
1 T
4725055 TGAGTTTCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 21
0.66 0.09 0.26
Matches are distributed among these distances:
8 4 0.07
10 3 0.06
11 13 0.24
12 10 0.19
13 15 0.28
14 9 0.17
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (13 bp):
TAAATGAGAATCT
Found at i:4725121 original size:89 final size:90
Alignment explanation
Indices: 4724946--4725265 Score: 325
Period size: 89 Copynumber: 3.6 Consensus size: 90
4724936 AAGTTTTAAG
* **
4724946 TCTT-AAATGAGAATCTTTGAGTAGT-AAATGAGAATCTTTAAGAAATCCTCAAATGAAAATCTT
1 TCTTCAAATGAGAATCTTTGAGTATTCAAATGAGAATCTTTAAG---TTTTCAAATGAAAATCTT
* * *
4725009 TGAGTCTTAAATGAGAATCTTTAAGAAA
63 TGATTCTTAAATAAGAATATTTAAGAAA
*
4725037 TCTTCAAATGAGAATCTTTGAGT-TTCAAATGAGAATCTTTAAGTTTTCAAATGATAATCTTTGA
1 TCTTCAAATGAGAATCTTTGAGTATTCAAATGAGAATCTTTAAGTTTTCAAATGAAAATCTTTGA
4725101 TTCTTAAATAAGAATATTTAAGAAA
66 TTCTTAAATAAGAATATTTAAGAAA
* * * * * * * *
4725126 TCCTCAAATGTGAATCTTTGAGT-TTCAAACGAGAATCTTTGAGTTTTCAAATCAGAATTTTTTA
1 TCTTCAAATGAGAATCTTTGAGTATTCAAATGAGAATCTTTAAGTTTTCAAATGAAAATCTTTGA
* * * *
4725190 TTTTTAAATAAAAATTTTTTAG---
66 TTCTTAAATAAGAATATTTAAGAAA
* * * * *
4725212 TTTTTAAATAAGAATCTTTGAGTCTTCAAATGAGAA-CATTTGAG-TTTCAAATGA
1 TCTTCAAATGAGAATCTTTGAGTATTCAAATGAGAATC-TTTAAGTTTTCAAATGA
4725266 GAATTTTTTA
Statistics
Matches: 199, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
86 28 0.14
87 17 0.09
89 114 0.57
91 5 0.03
92 35 0.18
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (90 bp):
TCTTCAAATGAGAATCTTTGAGTATTCAAATGAGAATCTTTAAGTTTTCAAATGAAAATCTTTGA
TTCTTAAATAAGAATATTTAAGAAA
Found at i:4725787 original size:43 final size:42
Alignment explanation
Indices: 4725727--4725935 Score: 192
Period size: 41 Copynumber: 5.0 Consensus size: 42
4725717 GATTGTCAAA
* *
4725727 GAGCCTTTTATTTTTCAAAAGTTGTTTTGTCTCTATTTCGAG
1 GAGCCTTTTATTTTTCAAAAGTTGTTGTGCCTCTATTTCGAG
* *
4725769 GAGCCTTTTCATTTTTCAAAAGTTGTTGTGCCTCTATTTAGAT
1 GAGCCTTTT-ATTTTTCAAAAGTTGTTGTGCCTCTATTTCGAG
*** * * * *
4725812 GATTTTTTTA-TTTTCAAAAATTGTTGTGCCTCTGTTTAGAA
1 GAGCCTTTTATTTTTCAAAAGTTGTTGTGCCTCTATTTCGAG
* * * * * *
4725853 GAGCTTTTTATTTTT-TAAAGTTGTTGAGCCACTGTTTAGAG
1 GAGCCTTTTATTTTTCAAAAGTTGTTGTGCCTCTATTTCGAG
* ** *
4725894 GAG-CTTTTATTTTTC-AAAGTTATTAAGCCTCTATTTAGAG
1 GAGCCTTTTATTTTTCAAAAGTTGTTGTGCCTCTATTTCGAG
4725934 GA
1 GA
4725936 ACATTATTTA
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
40 33 0.23
41 60 0.42
42 14 0.10
43 35 0.25
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.47
Consensus pattern (42 bp):
GAGCCTTTTATTTTTCAAAAGTTGTTGTGCCTCTATTTCGAG
Found at i:4725943 original size:39 final size:40
Alignment explanation
Indices: 4725860--4725944 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
4725850 GAAGAGCTTT
* * * * * *
4725860 TTATTTTTTAAAGTTGTTGAGCCACTGTTTAGAGGAGCTT
1 TTATTTTTCAAAGTTATTAAGCCACTATTTAGAGGAACTA
*
4725900 TTATTTTTCAAAGTTATTAAGCCTCTATTTAGAGGAAC-A
1 TTATTTTTCAAAGTTATTAAGCCACTATTTAGAGGAACTA
4725939 TTATTT
1 TTATTT
4725945 ATTTTCCAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 6 0.16
40 32 0.84
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (40 bp):
TTATTTTTCAAAGTTATTAAGCCACTATTTAGAGGAACTA
Found at i:4725955 original size:43 final size:43
Alignment explanation
Indices: 4725859--4726037 Score: 161
Period size: 43 Copynumber: 4.2 Consensus size: 43
4725849 AGAAGAGCTT
* ** * * *
4725859 TTTATTTTTTAAAGTTGTTGAGCCACTGTTTAGAGGAGC--T-
1 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAACATTA
* *
4725899 TTTATTTTTCAAAGTTATTAAGCCTCTATTTAGAGGAACATTA
1 TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAACATTA
* *
4725942 TTTATTTTCCAAAGTCATTGAGCCTCTGTTTCA-A-GAAGCATTA
1 TTTATTTTTCAAAGTCATTGAGCCTCTATTT-AGAGGAA-CATTA
* * * * *
4725985 TTTATTTTTTCAAAGTCGTTGAGCCCCTACTTAGAGGAGCCTTA
1 TTTA-TTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAACATTA
4726029 TTTATTTTT
1 TTTATTTTT
4726038 TTTCAAAATG
Statistics
Matches: 114, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
40 33 0.29
42 4 0.04
43 43 0.38
44 32 0.28
45 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.44
Consensus pattern (43 bp):
TTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAACATTA
Found at i:4726030 original size:44 final size:44
Alignment explanation
Indices: 4725839--4726038 Score: 175
Period size: 44 Copynumber: 4.7 Consensus size: 44
4725829 AAATTGTTGT
* * **
4725839 GCCTCTGTTTAGAAGAG-CTT-TTTATTTTTT-AAAGTTGTTGA
1 GCCTCTATTTAGAGGAGCCTTATTTATTTTTTCAAAGTCATTGA
* * * *
4725880 GCCACTGTTTAGAGGAG-C-T-TTTA-TTTTTCAAAGTTATTAA
1 GCCTCTATTTAGAGGAGCCTTATTTATTTTTTCAAAGTCATTGA
* * *
4725920 GCCTCTATTTAGAGGAACATTATTTA-TTTTCCAAAGTCATTGA
1 GCCTCTATTTAGAGGAGCCTTATTTATTTTTTCAAAGTCATTGA
* * * *
4725963 GCCTCTGTTTCA-AGAAGCATTATTTATTTTTTCAAAGTCGTTGA
1 GCCTCTATTT-AGAGGAGCCTTATTTATTTTTTCAAAGTCATTGA
* *
4726007 GCCCCTACTTAGAGGAGCCTTATTTATTTTTT
1 GCCTCTATTTAGAGGAGCCTTATTTATTTTTT
4726039 TTCAAAATGA
Statistics
Matches: 131, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
39 5 0.04
40 28 0.21
41 16 0.12
42 1 0.01
43 40 0.31
44 41 0.31
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (44 bp):
GCCTCTATTTAGAGGAGCCTTATTTATTTTTTCAAAGTCATTGA
Found at i:4726662 original size:21 final size:22
Alignment explanation
Indices: 4726611--4726660 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
4726601 GTTTTGAGTT
*
4726611 TTTTTTTCACTTTATTTATTTA
1 TTTTTTTGACTTTATTTATTTA
4726633 TTTTTTTGACTTTATTTATTTA
1 TTTTTTTGACTTTATTTATTTA
4726655 TTTTTT
1 TTTTTT
4726661 GAGTATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTTTTGACTTTATTTATTTA
Found at i:4727366 original size:56 final size:54
Alignment explanation
Indices: 4727293--4727506 Score: 195
Period size: 56 Copynumber: 3.9 Consensus size: 54
4727283 AAGAGAAAAT
* *
4727293 ATTTCTAAATTA-ACCCAAATGGTGGAAAACTTAGAAATCCAACAAAAAAATAGAGA
1 ATTTCTAAA-TAGGCCCAAATGGTGGAAAATTTAGAAATCCAA-AAAAAAA-AGAGA
* * * *
4727349 ATTTCTTAATAGGCCCAAATGGTGGAAATTTTA-AAATTTTCAAAAAAAAAA-A-T
1 ATTTCTAAATAGGCCCAAATGGTGGAAAATTTAGAAA--TCCAAAAAAAAAAGAGA
* * * * *
4727402 ATTTCTAAATTGACCCAAGTGGTGAAAAAATTTAGAAATCTAATAAAAAAAAGAGAGA
1 ATTTCTAAATAGGCCCAAATGGTG-GAAAATTTAGAAATC-CA-AAAAAAAA-AGAGA
* *
4727460 ATTTCTAAATAGGCCCAAATGGTGGAAAATTTACAAAT-TAAAAAAAA
1 ATTTCTAAATAGGCCCAAATGGTGGAAAATTTAGAAATCCAAAAAAAA
4727507 TAAAATATTT
Statistics
Matches: 127, Mismatches: 21, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
53 21 0.17
54 16 0.13
55 18 0.14
56 34 0.27
57 17 0.13
58 21 0.17
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (54 bp):
ATTTCTAAATAGGCCCAAATGGTGGAAAATTTAGAAATCCAAAAAAAAAAGAGA
Found at i:4727486 original size:111 final size:109
Alignment explanation
Indices: 4727288--4727532 Score: 323
Period size: 111 Copynumber: 2.2 Consensus size: 109
4727278 AAATAAAGAG
* * * *
4727288 AAAATATTTCTAAATTAACCCAAATGGTGGAAAACTTAGAAATCCAACAAAAAAATAGAGAATTT
1 AAAATATTTCTAAATTGACCCAAATGGTGAAAAACTTAGAAATCCAAAAAAAAAAGAGAGAATTT
* * *
4727353 CTTAATAGGCCCAAATGGTGGAAATTTTA-AAATTTTCAAAAAAA-
66 CTAAATAGGCCCAAATGGTGGAAAATTTACAAA--TTAAAAAAAAT
* * *
4727397 AAAATATTTCTAAATTGACCCAAGTGGTGAAAAAATTTAGAAATCTAATAAAAAAAAGAGAGAAT
1 AAAATATTTCTAAATTGACCCAAATGGTG-AAAAACTTAGAAATCCAA-AAAAAAAAGAGAGAAT
4727462 TTCTAAATAGGCCCAAATGGTGGAAAATTTACAAATTAAAAAAAAT
64 TTCTAAATAGGCCCAAATGGTGGAAAATTTACAAATTAAAAAAAAT
* * *
4727508 AAAATATTTTTAATTTGACCTAAAT
1 AAAATATTTCTAAATTGACCCAAAT
4727533 AGTAGAATAA
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
109 27 0.23
110 24 0.20
111 64 0.54
112 3 0.03
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (109 bp):
AAAATATTTCTAAATTGACCCAAATGGTGAAAAACTTAGAAATCCAAAAAAAAAAGAGAGAATTT
CTAAATAGGCCCAAATGGTGGAAAATTTACAAATTAAAAAAAAT
Found at i:4728692 original size:24 final size:24
Alignment explanation
Indices: 4728665--4728714 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
4728655 GATTTTGTGT
4728665 TAGTTTCCTTTAATTTCAAGACTA
1 TAGTTTCCTTTAATTTCAAGACTA
4728689 TAGTTTCCTTTAATTTCAAGACTA
1 TAGTTTCCTTTAATTTCAAGACTA
4728713 TA
1 TA
4728715 AAGGTTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (24 bp):
TAGTTTCCTTTAATTTCAAGACTA
Found at i:4733494 original size:14 final size:14
Alignment explanation
Indices: 4733475--4733501 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4733465 CATCTATTTT
4733475 AGTTTATATATATG
1 AGTTTATATATATG
4733489 AGTTTATATATAT
1 AGTTTATATATAT
4733502 ATATATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (14 bp):
AGTTTATATATATG
Found at i:4735101 original size:55 final size:53
Alignment explanation
Indices: 4735015--4735156 Score: 158
Period size: 55 Copynumber: 2.6 Consensus size: 53
4735005 CAAAATATAA
* * *
4735015 TAAAAAAATTAATACATATAATCTACACTGACAATCTCAAACCATCGATAAAGG
1 TAAAAAAATTAA-ACATACAATCTATACTGACAATCTCAAACAATCGATAAAGG
* *
4735069 TAAAAAAATTAAAGCATACAATTCTATACTGACAATCTCTAACAATCGGTAAAGG
1 TAAAAAAATTAAA-CATACAA-TCTATACTGACAATCTCAAACAATCGATAAAGG
* * * *
4735124 TAAGAAAATAAAAAAATACAAACCTATACTGAC
1 TAAAAAAAT-TAAACATAC-AATCTATACTGAC
4735157 GAATGCTAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
53 1 0.01
54 18 0.24
55 51 0.68
56 5 0.07
ACGTcount: A:0.51, C:0.17, G:0.08, T:0.23
Consensus pattern (53 bp):
TAAAAAAATTAAACATACAATCTATACTGACAATCTCAAACAATCGATAAAGG
Found at i:4736274 original size:37 final size:35
Alignment explanation
Indices: 4736213--4736283 Score: 83
Period size: 37 Copynumber: 2.0 Consensus size: 35
4736203 ATAATATCAT
4736213 TTTTATTTTTCTTTTATTAATTTTA-ATAGATTTAG
1 TTTTATTTTTCTTTTATTAATTTTACATA-ATTTAG
*
4736248 TTTTATTTTCTACTTTTGATT-TTTTTACATAATTTA
1 TTTTATTTT-T-CTTTT-ATTAATTTTACATAATTTA
4736284 TATTATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
35 9 0.29
36 1 0.03
37 15 0.48
38 6 0.19
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.66
Consensus pattern (35 bp):
TTTTATTTTTCTTTTATTAATTTTACATAATTTAG
Found at i:4736418 original size:20 final size:20
Alignment explanation
Indices: 4736379--4736418 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4736369 TTATTAATAT
* *
4736379 TTTACAAATTGTTTTTTTAA
1 TTTACAAATTGTTATATTAA
4736399 TTTACAAATTGTTATATTAA
1 TTTACAAATTGTTATATTAA
4736419 ACAACGTTTA
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:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTACAAATTGTTATATTAA
Found at i:4738297 original size:12 final size:12
Alignment explanation
Indices: 4738280--4738312 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4738270 TTGAAATGTT
4738280 AAAATAAGAAAA
1 AAAATAAGAAAA
*
4738292 AAAATATGAAAA
1 AAAATAAGAAAA
4738304 AAAATAAGA
1 AAAATAAGA
4738313 TACAAGTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (12 bp):
AAAATAAGAAAA
Found at i:4739264 original size:2 final size:2
Alignment explanation
Indices: 4739257--4739284 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4739247 ACTGCGCATG
4739257 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4739285 AATATTCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4739612 original size:23 final size:23
Alignment explanation
Indices: 4739582--4739629 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
4739572 TTTTGAAACT
4739582 TTGTATTCGAATTCACA-AGTCTC
1 TTGTATTCGAATTCA-AGAGTCTC
4739605 TTGTATTCGAATTCAAGAGTCTC
1 TTGTATTCGAATTCAAGAGTCTC
4739628 TT
1 TT
4739630 TGTCTATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.42
Consensus pattern (23 bp):
TTGTATTCGAATTCAAGAGTCTC
Found at i:4743249 original size:127 final size:128
Alignment explanation
Indices: 4743060--4743309 Score: 348
Period size: 129 Copynumber: 2.0 Consensus size: 128
4743050 AATACGATAT
* *
4743060 AAATAAAAAATTAATAATTTAAAATTTTAATAAAATTTTATAACTTTGATGAAAAT-AAAAA-AT
1 AAATAAAAAATTAATAATTTAAAATTTTAATAAAATTTTATAAATTTGATAAAAATAAAAAATAT
* * *
4743123 ATATTTTATATTTGATGTGTCATATAAATTATAATAT-ATAATTTTTATATTTTATATTAAAG
66 ATATTTTATATTTGATATGTCATACAAATTATAATATAATAAATTTTATATTTTATATTAAAG
* *
4743185 AAATATAAAAGTTAGATAATTTAAAATTTTAATAAAAATTATT-TAAATTTGATAAAAAT-TAAA
1 AAATA-AAAAATTA-ATAATTTAAAATTTTAAT-AAAATT-TTATAAATTTGATAAAAATAAAAA
* *
4743248 ATATATATTTTATATTTGATATGTTATACAAATTATGATATAATAAATTTTATATTTTATAT
62 ATATATATTTTATATTTGATATGTCATACAAATTATAATATAATAAATTTTATATTTTATAT
4743310 GTATTAATCA
Statistics
Matches: 110, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
125 5 0.05
126 7 0.06
127 18 0.16
128 24 0.22
129 37 0.34
130 19 0.17
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (128 bp):
AAATAAAAAATTAATAATTTAAAATTTTAATAAAATTTTATAAATTTGATAAAAATAAAAAATAT
ATATTTTATATTTGATATGTCATACAAATTATAATATAATAAATTTTATATTTTATATTAAAG
Found at i:4753485 original size:2 final size:2
Alignment explanation
Indices: 4753472--4753511 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
4753462 TTAGATTCTT
*
4753472 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4753512 AAACATCTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4754167 original size:14 final size:15
Alignment explanation
Indices: 4754148--4754178 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4754138 CAATCCTTTA
4754148 ATATATATTAT-ATT
1 ATATATATTATAATT
4754162 ATATATATTATAATT
1 ATATATATTATAATT
4754177 AT
1 AT
4754179 TTTATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATATATTATAATT
Found at i:4754183 original size:20 final size:21
Alignment explanation
Indices: 4754149--4754187 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4754139 AATCCTTTAA
4754149 TATATATTATATTATATATAT
1 TATATATTATATTATATATAT
*
4754170 TATA-ATTATTTTATATAT
1 TATATATTATATTATATAT
4754188 TTAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATATTATATTATATATAT
Found at i:4754254 original size:18 final size:19
Alignment explanation
Indices: 4754224--4754261 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
4754214 ATTACAATTG
*
4754224 TTATTTGTTAATTTATGTT
1 TTATTTGTTAATTTAAGTT
4754243 TTATTT-TTAATTTAAGTT
1 TTATTTGTTAATTTAAGTT
4754261 T
1 T
4754262 AACAATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (19 bp):
TTATTTGTTAATTTAAGTT
Found at i:4755157 original size:230 final size:238
Alignment explanation
Indices: 4754721--4755409 Score: 834
Period size: 251 Copynumber: 2.9 Consensus size: 238
4754711 AAATTTCTTC
*
4754721 CTCCTATACATCACCTCATCTTAATTCAATTTAAAACTAATTTTAAAGTAATTTA-ATTTTTCAA
1 CTCCTATACATCACCTCATC----TT-AATTTAAAACTAATTTTAAAGTAATTTATCTTTTTCAA
*
4754785 TTTATCTGGAGTTAACA-AGAATATTTAAATTTATCACAACTTTT-AAAATATTATTTAATATCT
61 TTTATCTGCAGTTAACATA-AATATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCT
*
4754848 TTAATATTTTTTATAAATAATCTTTGCATTATCTTTAGCTTTTAAATATATTTCAC-AA-AAAAT
125 TTAATATTTTTTATAAATAATCTTTGCATTATCTTCAGCTTTTAAATATATTTCACAAAGAAAAT
4754911 GTGAAAAAAAATATATAAATAC-C-AAAACAA-T-G-TC-A-AGAAAGTTT
190 GTG--AAAAAATATATAAATACACTAAAACAACTAGATCTACAGAAAGTTT
* *
4754955 CT-TTATACATCACCTCATCTTAATTTAAAACTAATTTTAAAGTAATTTATCTTTTTCAATATAT
1 CTCCTATACATCACCTCATCTTAATTTAAAACTAATTTTAAAGTAATTTATCTTTTTCAATTTAT
* *
4755019 CTGCAGTTAACATAAATATTTAAATTTATCATAACTTTTAAAAATATTATTTAATGTCTTTAATA
66 CTGCAGTTAACATAAATATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATA
* ** *
4755084 TTTTTTGTAAATAATCTTTATATTATCTTCAGCTTTTAAATATATTTCACAAAGAAAATATGAAA
131 TTTTTTATAAATAATCTTTGCATTATCTTCAGCTTTTAAATATATTTCACAAAGAAAATGTGAAA
* * *
4755149 ATATATATATATACACTAAAACAACTTCAGGAAAATTTTTCGTATACATAAAGTTT
196 AAATATATAAATACACTAAAACAAC-T-A-G---A----TC---TACAGAAAGTTT
* * *
4755205 CTCCTATATATTACTTCATCTTAATTTAAAA-TCAATTTTAAAGTAATTTATC-TTTTCTAATTT
1 CTCCTATACATCACCTCATCTTAATTTAAAACT-AATTTTAAAGTAATTTATCTTTTTC-AATTT
* * * *
4755268 ATTTACAGTTAACATGAGTATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAA
64 ATCTGCAGTTAACATAAATATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAA
* *
4755333 TATTTTTTATAAATAAT-TCTTGCATTATCTTCAGCTTTTTACATATATTTCACAAAGGAAATGT
129 TATTTTTTATAAATAATCT-TTGCATTATCTTCAGC-TTTTAAATATATTTCACAAAGAAAATGT
4755397 GAAAAAATATATA
192 GAAAAAATATATA
4755410 TATATAAATA
Statistics
Matches: 393, Mismatches: 32, Indels: 42
0.84 0.07 0.09
Matches are distributed among these distances:
228 28 0.07
229 49 0.12
230 86 0.22
231 3 0.01
232 14 0.04
233 16 0.04
234 3 0.01
237 1 0.00
245 2 0.01
249 1 0.00
250 17 0.04
251 136 0.35
252 37 0.09
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (238 bp):
CTCCTATACATCACCTCATCTTAATTTAAAACTAATTTTAAAGTAATTTATCTTTTTCAATTTAT
CTGCAGTTAACATAAATATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTTAATA
TTTTTTATAAATAATCTTTGCATTATCTTCAGCTTTTAAATATATTTCACAAAGAAAATGTGAAA
AAATATATAAATACACTAAAACAACTAGATCTACAGAAAGTTT
Found at i:4755702 original size:43 final size:43
Alignment explanation
Indices: 4755582--4755690 Score: 209
Period size: 43 Copynumber: 2.5 Consensus size: 43
4755572 TGATATGTAT
4755582 TATTTCATTAAACATACTATTCACTCGATCAGGTATGAAGTAC
1 TATTTCATTAAACATACTATTCACTCGATCAGGTATGAAGTAC
4755625 TATTTCATTAAACATACTATTCACTCGATCAGGTATGAAGTAC
1 TATTTCATTAAACATACTATTCACTCGATCAGGTATGAAGTAC
*
4755668 TATTTCACTAAACATACTATTCA
1 TATTTCATTAAACATACTATTCA
4755691 TTCTAACAGG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (43 bp):
TATTTCATTAAACATACTATTCACTCGATCAGGTATGAAGTAC
Found at i:4757183 original size:19 final size:19
Alignment explanation
Indices: 4757159--4757196 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
4757149 CAATTTTCAT
4757159 AGTTCA-AAGTATAGAACAC
1 AGTTCATAA-TATAGAACAC
4757178 AGTTCATAATATAGAACAC
1 AGTTCATAATATAGAACAC
4757197 TGAATCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (19 bp):
AGTTCATAATATAGAACAC
Found at i:4757662 original size:346 final size:346
Alignment explanation
Indices: 4757029--4758066 Score: 1898
Period size: 346 Copynumber: 3.0 Consensus size: 346
4757019 ATGGATATAC
4757029 AAAGTTCTCATCTAGCTAAAACTAGAACTGATCAATAACTAGAGAGACAATTGAAAAAATCTCAC
1 AAAGTTCTCATCTAGCTAAAACTAGAACTGATCAATAACTAGAGAGACAATTGAAAAAATCTCAC
4757094 CAAATAGGTGACTCAATAAATACACATTGAATTTGTTCCTAGAGAGCTTCAAACTCAATTTTCAT
66 CAAATAGGTGACTCAATAAATACACATTGAATTTGTTCCTAGAGAGCTTCAAACTCAATTTTCAT
*
4757159 AGTTCAAAGTATAGAACACAGTTCATAATATAGAACACTGAATCATGAACCTGTAGAAAAAATTT
131 AGTTCAGAGTATAGAACACAGTTCATAATATAGAACACTGAATCATGAACCTGTAGAAAAAATTT
*
4757224 TAGCTTAATCTAACCATGGATCGACTTTCATTCAACCAACTCTCCATTTTTCCTTTTTTTCTTTA
196 TAGCTTAATCTAACCATGGATCGACTTTCATTCAACCAACTCTCTATTTTTCCTTTTTTTCTTTA
*
4757289 TCATTTTTGGTTTTTTTTCCTTTTCGATGTCACACTCTAATCGCAAAAATAGAATGCAGCCTCCA
261 TCATTTTTGGTTTTTTTTCCTTTTCGATGCCACACTCTAATCGCAAAAATAGAATGCAGCCTCCA
4757354 CTTTTATTTGTAGGGCTTTAT
326 CTTTTATTTGTAGGGCTTTAT
* *
4757375 AAAGTTCTCATCTAGCTAAAACTATAACTGATCAATAACTAGAGAGATAATTGAAAAAATCTCAC
1 AAAGTTCTCATCTAGCTAAAACTAGAACTGATCAATAACTAGAGAGACAATTGAAAAAATCTCAC
* * *
4757440 CAAATAGGTGACTCAATAAATACACATTGAATTTGTTCTTAGAAAGCTTCAAACTCAATTTTCGT
66 CAAATAGGTGACTCAATAAATACACATTGAATTTGTTCCTAGAGAGCTTCAAACTCAATTTTCAT
* *
4757505 AGTTTAGAGTATAGAACACAGTTCATAATATAGAACACTGAATCATGAACCTGTAGACAAAATTT
131 AGTTCAGAGTATAGAACACAGTTCATAATATAGAACACTGAATCATGAACCTGTAGAAAAAATTT
*
4757570 TAGCTTAATCTAACCATGGATCAACTTTCATTCAACCAACTCTCTATTTTTCCTTTTTTTCTTTA
196 TAGCTTAATCTAACCATGGATCGACTTTCATTCAACCAACTCTCTATTTTTCCTTTTTTTCTTTA
* *
4757635 TCATTTTTTGTTTTTTTTCCTTTTCGATGCCACACTCTAATCACAAAAATAGAATGCAGCCTCCA
261 TCATTTTTGGTTTTTTTTCCTTTTCGATGCCACACTCTAATCGCAAAAATAGAATGCAGCCTCCA
4757700 CTTTTATTTGT-GAGGCTTTAT
326 CTTTTATTTGTAG-GGCTTTAT
4757721 AAAGTTCTCATCTAGCTAAAACTAGAACTGATCAATAACTAGAGAGACAATTGAAAAAATCTCAC
1 AAAGTTCTCATCTAGCTAAAACTAGAACTGATCAATAACTAGAGAGACAATTGAAAAAATCTCAC
*
4757786 CAAATAGGTGACTCAATAAATACACGTTGAATTTGTTCCTAGAGAGCTTCAAACTCAATTTTCAT
66 CAAATAGGTGACTCAATAAATACACATTGAATTTGTTCCTAGAGAGCTTCAAACTCAATTTTCAT
* *
4757851 AGTTCAGAGTATAGAACACAGTTCATAATATAGAACATTGAATCATGAACCTGTAGAGAAAATTT
131 AGTTCAGAGTATAGAACACAGTTCATAATATAGAACACTGAATCATGAACCTGTAGAAAAAATTT
*
4757916 TAGCTTAATCTAACCATGGATCGACTTTCATTCAACCAACTCTCTATTTTTCTTTTTTTTCTTTA
196 TAGCTTAATCTAACCATGGATCGACTTTCATTCAACCAACTCTCTATTTTTCCTTTTTTTCTTTA
*
4757981 TCATTTTTGGTTTTTTTTCCTTTTCGATGCCACACTCTAATCGCAAAAATAAAATGCAGCCTCCA
261 TCATTTTTGGTTTTTTTTCCTTTTCGATGCCACACTCTAATCGCAAAAATAGAATGCAGCCTCCA
4758046 CTTTTATTTGTAGGGCTTTAT
326 CTTTTATTTGTAGGGCTTTAT
4758067 TTCACATTAG
Statistics
Matches: 663, Mismatches: 27, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
345 1 0.00
346 661 1.00
347 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (346 bp):
AAAGTTCTCATCTAGCTAAAACTAGAACTGATCAATAACTAGAGAGACAATTGAAAAAATCTCAC
CAAATAGGTGACTCAATAAATACACATTGAATTTGTTCCTAGAGAGCTTCAAACTCAATTTTCAT
AGTTCAGAGTATAGAACACAGTTCATAATATAGAACACTGAATCATGAACCTGTAGAAAAAATTT
TAGCTTAATCTAACCATGGATCGACTTTCATTCAACCAACTCTCTATTTTTCCTTTTTTTCTTTA
TCATTTTTGGTTTTTTTTCCTTTTCGATGCCACACTCTAATCGCAAAAATAGAATGCAGCCTCCA
CTTTTATTTGTAGGGCTTTAT
Found at i:4757875 original size:19 final size:19
Alignment explanation
Indices: 4757851--4757887 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4757841 CAATTTTCAT
*
4757851 AGTTCAGAGTATAGAACAC
1 AGTTCAGAATATAGAACAC
*
4757870 AGTTCATAATATAGAACA
1 AGTTCAGAATATAGAACA
4757888 TTGAATCATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (19 bp):
AGTTCAGAATATAGAACAC
Found at i:4765727 original size:24 final size:24
Alignment explanation
Indices: 4765696--4765743 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
4765686 AGAATTTTCT
4765696 TTTGTTTGGAA-ATCACATAAATTA
1 TTTGTTT-GAATATCACATAAATTA
4765720 TTTGTTTGAATATCACATAAATTA
1 TTTGTTTGAATATCACATAAATTA
4765744 AAATAAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (24 bp):
TTTGTTTGAATATCACATAAATTA
Found at i:4768102 original size:17 final size:18
Alignment explanation
Indices: 4768069--4768104 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4768059 AGAAAATAAG
4768069 TTCAAAATAAAATAACTA
1 TTCAAAATAAAATAACTA
*
4768087 TTCAAAA-AATATAACTA
1 TTCAAAATAAAATAACTA
4768104 T
1 T
4768105 AACACTCCAT
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:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
TTCAAAATAAAATAACTA
Found at i:4784748 original size:10 final size:10
Alignment explanation
Indices: 4784733--4784762 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
4784723 CTTAGATTTG
4784733 GCACACACAC
1 GCACACACAC
4784743 GCACACACAC
1 GCACACACAC
4784753 GCACACACAC
1 GCACACACAC
4784763 ACAGAGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.50, G:0.10, T:0.00
Consensus pattern (10 bp):
GCACACACAC
Found at i:4790410 original size:22 final size:23
Alignment explanation
Indices: 4790365--4790412 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
4790355 ACTCAAGATC
4790365 AATCAAATATAAAACCCGTAAAA
1 AATCAAATATAAAACCCGTAAAA
* *
4790388 AATCAAAT-TATAACCCG-AGAA
1 AATCAAATATAAAACCCGTAAAA
4790409 AATC
1 AATC
4790413 GGTATTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 8 0.35
23 8 0.35
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (23 bp):
AATCAAATATAAAACCCGTAAAA
Found at i:4790958 original size:22 final size:21
Alignment explanation
Indices: 4790933--4790976 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4790923 AATAAAAAAA
4790933 ATTATCTTATAAATTAAAATAT
1 ATTATCTTA-AAATTAAAATAT
* * *
4790955 ATTATGTTACAATTGAAATAT
1 ATTATCTTAAAATTAAAATAT
4790976 A
1 A
4790977 AAGACGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (21 bp):
ATTATCTTAAAATTAAAATAT
Found at i:4792558 original size:16 final size:16
Alignment explanation
Indices: 4792539--4792572 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4792529 TCAAAATAGC
4792539 CTAAACTCAAAATTAT
1 CTAAACTCAAAATTAT
* *
4792555 CTAAATTCGAAATTAT
1 CTAAACTCAAAATTAT
4792571 CT
1 CT
4792573 GAATTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (16 bp):
CTAAACTCAAAATTAT
Found at i:4792820 original size:11 final size:11
Alignment explanation
Indices: 4792804--4792853 Score: 66
Period size: 11 Copynumber: 4.6 Consensus size: 11
4792794 AGTATTTTTA
4792804 TTTATTTTATT
1 TTTATTTTATT
*
4792815 TTTATTTCATT
1 TTTATTTTATT
*
4792826 CTTATTTTATT
1 TTTATTTTATT
*
4792837 TTTCTTTT-TT
1 TTTATTTTATT
4792847 TTTATTT
1 TTTATTT
4792854 GATCAAAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 8 0.24
11 25 0.76
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:4792833 original size:16 final size:15
Alignment explanation
Indices: 4792796--4792853 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
4792786 AGCCTAAAAG
4792796 TATTTTTATTTATTT
1 TATTTTTATTTATTT
4792811 TATTTTTATTTCATTCT
1 TATTTTTATTT-ATT-T
*
4792828 TA-TTTTATTTTTCTT
1 TATTTTTATTTAT-TT
*
4792843 TTTTTTTATTT
1 TATTTTTATTT
4792854 GATCAAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
15 14 0.38
16 20 0.54
17 3 0.08
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (15 bp):
TATTTTTATTTATTT
Found at i:4795860 original size:30 final size:30
Alignment explanation
Indices: 4795780--4795861 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
4795770 TAAACAAGAG
4795780 TTTAATTTAATTAAAAT-AAATATTTAAAAA
1 TTTAA-TTAATTAAAATAAAATATTTAAAAA
* * *
4795810 TTCAATTGAATTAAAATAAAATATTTGAATA
1 TTTAATT-AATTAAAATAAAATATTTAAAAA
*
4795841 TTTAATTAATTACAATAAAAT
1 TTTAATTAATTAAAATAAAAT
4795862 TAAATTCAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 2 0.04
30 26 0.58
31 17 0.38
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (30 bp):
TTTAATTAATTAAAATAAAATATTTAAAAA
Found at i:4797915 original size:16 final size:16
Alignment explanation
Indices: 4797896--4797930 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4797886 TATGTATTTC
* *
4797896 TTATTTTATATTTGGA
1 TTATGTTATATTTCGA
4797912 TTATGTTATATTTCGA
1 TTATGTTATATTTCGA
4797928 TTA
1 TTA
4797931 AAATTTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (16 bp):
TTATGTTATATTTCGA
Found at i:4800416 original size:22 final size:21
Alignment explanation
Indices: 4800391--4800435 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4800381 AAATAAATAT
*
4800391 AAGAGTGAGGAGTTTTAAAAAA
1 AAGAGTGA-GAATTTTAAAAAA
*
4800413 AAGATTGAGAATTTTAAAAAA
1 AAGAGTGAGAATTTTAAAAAA
4800434 AA
1 AA
4800436 ATAATAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.20, T:0.24
Consensus pattern (21 bp):
AAGAGTGAGAATTTTAAAAAA
Found at i:4803653 original size:5 final size:5
Alignment explanation
Indices: 4803643--4803667 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4803633 AGAAATTGGG
4803643 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
4803668 GGTTTTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:4804228 original size:27 final size:27
Alignment explanation
Indices: 4804198--4804254 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
4804188 TCTGGTTTGA
* *
4804198 TTTTT-TAT-TTAATTTTCTATTTTAGT
1 TTTTTATATATTAATTTTATATGTTA-T
*
4804224 TTTTTATATATTATTTTTATATGTTAT
1 TTTTTATATATTAATTTTATATGTTAT
4804251 TTTT
1 TTTT
4804255 ATGCTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.19
27 8 0.31
28 13 0.50
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (27 bp):
TTTTTATATATTAATTTTATATGTTAT
Found at i:4804240 original size:13 final size:13
Alignment explanation
Indices: 4804224--4804256 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4804214 CTATTTTAGT
4804224 TTTTTATATATTA
1 TTTTTATATATTA
*
4804237 TTTTTATATGTTA
1 TTTTTATATATTA
4804250 TTTTTAT
1 TTTTTAT
4804257 GCTTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTTTATATATTA
Found at i:4804641 original size:39 final size:36
Alignment explanation
Indices: 4804551--4804628 Score: 84
Period size: 39 Copynumber: 2.1 Consensus size: 36
4804541 GTTTTAAAAA
* * *
4804551 AAATGTTTTTCAATCTTACCAAACTGTTGGATGATTT
1 AAAT-TTTTTAAATCTTACCAAACTATTGGAGGATTT
*
4804588 AAATTTTAAATTAAATCTTACTAAACTATTGGAGGATTT
1 AAATTTT---TTAAATCTTACCAAACTATTGGAGGATTT
4804627 AA
1 AA
4804629 TGAATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
36 3 0.09
37 4 0.12
39 27 0.79
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (36 bp):
AAATTTTTTAAATCTTACCAAACTATTGGAGGATTT
Found at i:4805772 original size:1 final size:1
Alignment explanation
Indices: 4805768--4805792 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
4805758 TGCTTTTGTA
4805768 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
4805793 GCAACTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4805862 original size:13 final size:13
Alignment explanation
Indices: 4805841--4805870 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4805831 TATTTTGACC
4805841 AATTGCATAAAAA
1 AATTGCATAAAAA
*
4805854 AATTTCATAAAAA
1 AATTGCATAAAAA
4805867 AATT
1 AATT
4805871 CTAAAGCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (13 bp):
AATTGCATAAAAA
Found at i:4810527 original size:3 final size:3
Alignment explanation
Indices: 4810519--4810565 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
4810509 ATTTATTTAT
*
4810519 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4810566 CTTTTTGCGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4812430 original size:32 final size:34
Alignment explanation
Indices: 4812394--4812464 Score: 110
Period size: 32 Copynumber: 2.1 Consensus size: 34
4812384 GTTCAACTTT
4812394 TTGTTAATTTTTGTT-AGTTTTTTTAT-TGAGTA
1 TTGTTAATTTTTGTTGAGTTTTTTTATCTGAGTA
* *
4812426 TTGTTAATTTTTGTTGAGTTTTTTTTTCTTAGTA
1 TTGTTAATTTTTGTTGAGTTTTTTTATCTGAGTA
4812460 TTGTT
1 TTGTT
4812465 GAGTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 15 0.43
33 10 0.29
34 10 0.29
ACGTcount: A:0.15, C:0.01, G:0.15, T:0.68
Consensus pattern (34 bp):
TTGTTAATTTTTGTTGAGTTTTTTTATCTGAGTA
Found at i:4812773 original size:126 final size:128
Alignment explanation
Indices: 4812548--4812778 Score: 312
Period size: 126 Copynumber: 1.8 Consensus size: 128
4812538 ATGTGTAAGA
* *
4812548 TTTATGTTGATTTTATGGTAAATTTAGGTTTAATATGTATTAAATTTTATATTTGTTTAGAAAAT
1 TTTATGTTGATTTTATGGTAAATTTAGGTTTAATATGTATTAAATTATATATTTGTTTAGAAAAA
* *
4812613 TTTTTATATTTAATATTCTTTAAAATCTAATAATAATTATACAAAATTAAAAAAATTAAAAAT
66 CTTTTATATTTAATATTCTTTAAAATATAATAATAATTATACAAAATTAAAAAAATTAAAAAT
* *
4812676 TTTATGTT-ATTTTATGTTAAATTT-GGTTTAATGTGTATTAAGA-TATATATTTGTTTTA-AAA
1 TTTATGTTGATTTTATGGTAAATTTAGGTTTAATATGTATTAA-ATTATATATTTG-TTTAGAAA
* *
4812737 AACTTTTATATTTGAT-TT-TTTAAATTTAATAATAATAATTAT
64 AACTTTTATATTTAATATTCTTTAAA-AT-ATAATAATAATTAT
4812779 TGAAATATTG
Statistics
Matches: 91, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
124 6 0.07
125 3 0.03
126 54 0.59
127 20 0.22
128 8 0.09
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (128 bp):
TTTATGTTGATTTTATGGTAAATTTAGGTTTAATATGTATTAAATTATATATTTGTTTAGAAAAA
CTTTTATATTTAATATTCTTTAAAATATAATAATAATTATACAAAATTAAAAAAATTAAAAAT
Found at i:4819545 original size:36 final size:36
Alignment explanation
Indices: 4819498--4819573 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
4819488 TAAATTCGAT
*
4819498 TCATTTAAATTAAAAATTCAA-AGTTTTACTAATAGA
1 TCATTTAAATTAAAAATTCAACA-TTTTACTAAAAGA
4819534 TCATTTAAATTAAAAATTCAACATTTTACTAAAAGA
1 TCATTTAAATTAAAAATTCAACATTTTACTAAAAGA
4819570 TCAT
1 TCAT
4819574 ATGATCGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
36 37 0.97
37 1 0.03
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (36 bp):
TCATTTAAATTAAAAATTCAACATTTTACTAAAAGA
Found at i:4825219 original size:16 final size:16
Alignment explanation
Indices: 4825189--4825218 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4825179 TTCCTATTAA
4825189 TCTTTCTTCTCTTTTC
1 TCTTTCTTCTCTTTTC
4825205 TCTTTCTT-TCTTTT
1 TCTTTCTTCTCTTTT
4825219 TTTTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
TCTTTCTTCTCTTTTC
Found at i:4825564 original size:20 final size:22
Alignment explanation
Indices: 4825529--4825568 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
4825519 ATGATATTAT
4825529 TAATAATCTATAAAAAAATAGG
1 TAATAATCTATAAAAAAATAGG
4825551 TAAT-ATCT-TAAAAAAATA
1 TAATAATCTATAAAAAAATA
4825569 AAACAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (22 bp):
TAATAATCTATAAAAAAATAGG
Found at i:4826862 original size:22 final size:20
Alignment explanation
Indices: 4826836--4826877 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
4826826 ATAACTAAAC
4826836 AAATCCAACATAAAATTGAAAT
1 AAATCC-ACATAAAA-TGAAAT
*
4826858 AAATCCACATACAATGAAAT
1 AAATCCACATAAAATGAAAT
4826878 TTGAACCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 7 0.37
22 6 0.32
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.21
Consensus pattern (20 bp):
AAATCCACATAAAATGAAAT
Found at i:4828398 original size:22 final size:22
Alignment explanation
Indices: 4828349--4828398 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
4828339 GTAGTTCAAA
* *
4828349 ATTTTAATAAAAATTATATATT
1 ATTTTAATAAAAATAAAATATT
*
4828371 AATTTAATAAAAATAAAA-ATAT
1 ATTTTAATAAAAATAAAATAT-T
4828393 ATTTTA
1 ATTTTA
4828399 TATTCTTCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTTAATAAAAATAAAATATT
Found at i:4829132 original size:13 final size:13
Alignment explanation
Indices: 4829116--4829140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4829106 AAATTTATCA
4829116 TATGAATTAATTG
1 TATGAATTAATTG
4829129 TATGAATTAATT
1 TATGAATTAATT
4829141 AAGTTATATA
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:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TATGAATTAATTG
Found at i:4831750 original size:21 final size:22
Alignment explanation
Indices: 4831707--4831751 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
4831697 ATGTCAACTT
*
4831707 ATAATATTTATAAAAGTTCTCG
1 ATAATATTTATAAAAGTTATCG
**
4831729 ATAA-ATTTATAAATTTTATCG
1 ATAATATTTATAAAAGTTATCG
4831750 AT
1 AT
4831752 CAAAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (22 bp):
ATAATATTTATAAAAGTTATCG
Found at i:4838428 original size:13 final size:14
Alignment explanation
Indices: 4838404--4838439 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
4838394 GTTCTTTAAG
4838404 ATTTTTGT--TTTT
1 ATTTTTGTAGTTTT
4838416 ATTTTT-TAGTTTT
1 ATTTTTGTAGTTTT
4838429 ATTTTTGTAGT
1 ATTTTTGTAGT
4838440 CATTTTTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.05
12 6 0.29
13 10 0.48
14 4 0.19
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (14 bp):
ATTTTTGTAGTTTT
Found at i:4844674 original size:18 final size:18
Alignment explanation
Indices: 4844651--4844686 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4844641 CAGTGACTCA
4844651 ATTATAGATTTCTTTAAG
1 ATTATAGATTTCTTTAAG
4844669 ATTATAGATTTCTTTAAG
1 ATTATAGATTTCTTTAAG
4844687 GAGTTTAAGG
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:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (18 bp):
ATTATAGATTTCTTTAAG
Found at i:4847940 original size:22 final size:21
Alignment explanation
Indices: 4847906--4847993 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 21
4847896 ATTAAATATG
4847906 ATAATATAAAATATAATAAAA
1 ATAATATAAAATATAATAAAA
4847927 ATAATATTAAAATATTAA-AATAA
1 ATAATA-TAAAATA-TAATAA-AA
* *
4847950 TATAATTTAAAATTTTAATAAAA
1 -ATAATATAAAA-TATAATAAAA
* *
4847973 ATTATATATAAATTTAATAAA
1 ATAATATA-AAATATAATAAA
4847994 TTATAACATG
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
21 6 0.11
22 24 0.43
23 18 0.32
24 8 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATATAAAATATAATAAAA
Found at i:4847948 original size:19 final size:21
Alignment explanation
Indices: 4847906--4847952 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
4847896 ATTAAATATG
4847906 ATAATA-TAAAATATAATAAAA
1 ATAATATTAAAATAT-ATAAAA
4847927 ATAATATTAAAATAT-T-AAA
1 ATAATATTAAAATATATAAAA
4847946 ATAATAT
1 ATAATAT
4847953 AATTTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.40
20 1 0.04
21 6 0.24
22 8 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAATATTAAAATATATAAAA
Found at i:4853484 original size:18 final size:19
Alignment explanation
Indices: 4853461--4853585 Score: 78
Period size: 18 Copynumber: 6.9 Consensus size: 19
4853451 AGCATAATTT
4853461 TACTTAA-AAATAATATTA
1 TACTTAATAAATAATATTA
4853479 TACTTATAAATAAATAATATTA
1 TAC-T-T-AATAAATAATATTA
4853501 TA-TTAATAAATAATA-TA
1 TACTTAATAAATAATATTA
4853518 CTA-TTAAT--AT-A-A-TA
1 -TACTTAATAAATAATATTA
*
4853532 TA-TTAATAAAGAATATTA
1 TACTTAATAAATAATATTA
*
4853550 TA--TAATATAATACTATAATA
1 TACTTAATA-AATA--ATATTA
4853570 TA-TTAATAAATAATAT
1 TACTTAATAAATAATAT
4853586 AAAGAATATT
Statistics
Matches: 89, Mismatches: 4, Indels: 28
0.74 0.03 0.23
Matches are distributed among these distances:
13 7 0.08
14 3 0.03
15 2 0.02
16 3 0.03
17 8 0.09
18 31 0.35
19 2 0.02
20 13 0.15
21 7 0.08
22 13 0.15
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (19 bp):
TACTTAATAAATAATATTA
Found at i:4853493 original size:22 final size:22
Alignment explanation
Indices: 4853468--4853587 Score: 95
Period size: 22 Copynumber: 5.3 Consensus size: 22
4853458 TTTTACTTAA
4853468 AAATAATATTATACTT-ATAAAT
1 AAATAATATTATA-TTAATAAAT
4853490 AAATAATATTATATTAATAAAT
1 AAATAATATTATATTAATAAAT
* *
4853512 AATATACTATTAATATAATATATTAAT
1 AA-ATAATATT-ATAT--TA-ATAAAT
*
4853539 AAAGAATATTATA-TAATATAAT
1 AAATAATATTATATTAATA-AAT
* *
4853561 -ACT-ATAATATATTAATAAAT
1 AAATAATATTATATTAATAAAT
4853581 AATATAA
1 AA-ATAA
4853588 AGAATATTAC
Statistics
Matches: 78, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
20 10 0.13
21 11 0.14
22 27 0.35
23 8 0.10
24 4 0.05
25 3 0.04
26 8 0.10
27 7 0.09
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.40
Consensus pattern (22 bp):
AAATAATATTATATTAATAAAT
Found at i:4853535 original size:13 final size:13
Alignment explanation
Indices: 4853519--4853581 Score: 69
Period size: 13 Copynumber: 5.0 Consensus size: 13
4853509 AATAATATAC
4853519 TATTAATATAATA
1 TATTAATATAATA
*
4853532 TATTAATA-AAGAA
1 TATTAATATAA-TA
4853545 TATT-ATATAATA
1 TATTAATATAATA
* *
4853557 TAATACTATAATA
1 TATTAATATAATA
4853570 TATTAATA-AATA
1 TATTAATATAATA
4853582 ATATAAAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
12 13 0.32
13 28 0.68
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (13 bp):
TATTAATATAATA
Found at i:4853546 original size:20 final size:20
Alignment explanation
Indices: 4853522--4853587 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
4853512 AATATACTAT
4853522 TAATATAATATATTAATAAA
1 TAATATAATATATTAATAAA
*
4853542 GAATAT--TATA-TAATATAA
1 TAATATAATATATTAATA-AA
*
4853560 TACTATAATATATTAATAAA
1 TAATATAATATATTAATAAA
4853580 TAATATAA
1 TAATATAA
4853588 AGAATATTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 5 0.13
18 10 0.26
20 18 0.47
21 5 0.13
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TAATATAATATATTAATAAA
Found at i:4853547 original size:49 final size:47
Alignment explanation
Indices: 4853487--4853596 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 47
4853477 TATACTTATA
*
4853487 AATAAATAATATTATATTAATA-AATA-AT-ATACTATTAATATAATATATT
1 AATAAAGAATATTATA-TAATATAATACATAATA-TATTAATA-AATA-A-T
4853536 AATAAAGAATATTATATAATATAATACTATAATATATTAATAAATAAT
1 AATAAAGAATATTATATAATATAATAC-ATAATATATTAATAAATAAT
4853584 -ATAAAGAATATTA
1 AATAAAGAATATTA
4853597 CATAGTTTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 10
0.84 0.01 0.15
Matches are distributed among these distances:
47 13 0.23
48 6 0.11
49 20 0.36
50 4 0.07
51 10 0.18
52 3 0.05
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (47 bp):
AATAAAGAATATTATATAATATAATACATAATATATTAATAAATAAT
Found at i:4853635 original size:19 final size:18
Alignment explanation
Indices: 4853605--4853693 Score: 71
Period size: 18 Copynumber: 5.1 Consensus size: 18
4853595 TACATAGTTT
4853605 TATTTT-ATATTAACATAA
1 TATTTTAATATTAA-ATAA
*
4853623 TATTTTAATATTAAATAT
1 TATTTTAATATTAAATAA
* *
4853641 TATTATTAA-AATATAATTA
1 TATT-TTAATATTA-AATAA
*
4853660 TTTTTTAATATT-AAT-A
1 TATTTTAATATTAAATAA
*
4853676 -ATTTTAATAATAAATAA
1 TATTTTAATATTAAATAA
4853693 T
1 T
4853694 TTCAATATAC
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
15 9 0.16
16 4 0.07
17 4 0.07
18 20 0.36
19 19 0.34
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTTTAATATTAAATAA
Found at i:4853682 original size:15 final size:15
Alignment explanation
Indices: 4853662--4853702 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
4853652 TATAATTATT
*
4853662 TTTTAATATTAATAA
1 TTTTAATATAAATAA
4853677 TTTTAATAATAAATAA
1 TTTTAAT-ATAAATAA
*
4853693 TTTCAATATA
1 TTTTAATATA
4853703 CTTTAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTAATATAAATAA
Found at i:4855701 original size:31 final size:31
Alignment explanation
Indices: 4855663--4855723 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
4855653 CAAATTACCC
* *
4855663 TACACATTAACCCCTTTTTGGTATGCAATTG
1 TACACATTAACCCCTTTTGGGTAGGCAATTG
*
4855694 TACACATTAGCCCCTTTTGGGTAGGCAATT
1 TACACATTAACCCCTTTTGGGTAGGCAATT
4855724 TTATAAGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TACACATTAACCCCTTTTGGGTAGGCAATTG
Found at i:4856005 original size:19 final size:21
Alignment explanation
Indices: 4855962--4855999 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4855952 TTTAAACTCG
4855962 AATTTTGAACTTGATTAAAAT
1 AATTTTGAACTTGATTAAAAT
4855983 AATTTTGAA-TTG-TTAAA
1 AATTTTGAACTTGATTAAA
4856000 TCAATTATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (21 bp):
AATTTTGAACTTGATTAAAAT
Found at i:4858103 original size:43 final size:43
Alignment explanation
Indices: 4858037--4858205 Score: 190
Period size: 43 Copynumber: 4.0 Consensus size: 43
4858027 TGACATGGAT
*
4858037 AACAACTTCAGACTTGATTTTGGTTAAGTTCCATTACTTTGCA
1 AACAACTTCAGACTTGATATTGGTTAAGTTCCATTACTTTGCA
** *
4858080 AACAACTTCATTCTTGATATTGGTTGAGTTCCATTACTTTG--
1 AACAACTTCAGACTTGATATTGGTTAAGTTCCATTACTTTGCA
* *
4858121 --CAACTTCAGACATT-ATTTTGGTTGAGTTCCATTACTTTGCA
1 AACAACTTCAGAC-TTGATATTGGTTAAGTTCCATTACTTTGCA
* *
4858162 AACAATTTCAGACTTGATTTATT--TTAGGTTCCATTACTTTGCA
1 AACAACTTCAGACTTGA--TATTGGTTAAGTTCCATTACTTTGCA
4858205 A
1 A
4858206 TTGTCTGTTT
Statistics
Matches: 107, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 33 0.31
40 2 0.02
42 2 0.02
43 67 0.63
45 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.42
Consensus pattern (43 bp):
AACAACTTCAGACTTGATATTGGTTAAGTTCCATTACTTTGCA
Found at i:4858141 original size:82 final size:82
Alignment explanation
Indices: 4858039--4858205 Score: 239
Period size: 82 Copynumber: 2.0 Consensus size: 82
4858029 ACATGGATAA
** *
4858039 CAACTTCAGACTTGATTTTGGTTAAGTTCCATTACTTTGCAAACAACTTCATTCTTGATATTGGT
1 CAACTTCAGACTTGATTTTGGTTAAGTTCCATTACTTTGCAAACAACTTCAGACTTGAT-TTAGT
4858104 TGA-GTTCCATTACTTTG
65 TGAGGTTCCATTACTTTG
* * *
4858121 CAACTTCAGACATT-ATTTTGGTTGAGTTCCATTACTTTGCAAACAATTTCAGACTTGATTTATT
1 CAACTTCAGAC-TTGATTTTGGTTAAGTTCCATTACTTTGCAAACAACTTCAGACTTGATTTAGT
*
4858185 TTAGGTTCCATTACTTTG
65 TGAGGTTCCATTACTTTG
4858203 CAA
1 CAA
4858206 TTGTCTGTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
81 5 0.07
82 69 0.91
83 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.43
Consensus pattern (82 bp):
CAACTTCAGACTTGATTTTGGTTAAGTTCCATTACTTTGCAAACAACTTCAGACTTGATTTAGTT
GAGGTTCCATTACTTTG
Found at i:4864511 original size:3 final size:3
Alignment explanation
Indices: 4864503--4864548 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
4864493 TATATATTAC
4864503 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4864549 TTATTATTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4864553 original size:3 final size:3
Alignment explanation
Indices: 4864547--4864589 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
4864537 ATAATAATAA
4864547 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4864590 TGAGGATGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4872266 original size:19 final size:20
Alignment explanation
Indices: 4872224--4872272 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
4872214 AAACGGATCG
4872224 CTGGTCGGGTGAACTGACCC
1 CTGGTCGGGTGAACTGACCC
4872244 CTGGTCGGGTGAA-TCGA-CC
1 CTGGTCGGGTGAACT-GACCC
4872263 CTGGTCGGGT
1 CTGGTCGGGT
4872273 CGTAGGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.12, C:0.27, G:0.39, T:0.22
Consensus pattern (20 bp):
CTGGTCGGGTGAACTGACCC
Found at i:4873114 original size:16 final size:16
Alignment explanation
Indices: 4873095--4873131 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4873085 TCTGGTCTCT
*
4873095 TTTTTTGTATTTTGTA
1 TTTTTTGTATTATGTA
*
4873111 TTTTTTGTATTATGTG
1 TTTTTTGTATTATGTA
4873127 TTTTT
1 TTTTT
4873132 ATTTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.14, T:0.76
Consensus pattern (16 bp):
TTTTTTGTATTATGTA
Found at i:4873662 original size:47 final size:47
Alignment explanation
Indices: 4873386--4873700 Score: 290
Period size: 47 Copynumber: 6.5 Consensus size: 47
4873376 TCTCTCACTT
** * *
4873386 GAGGCTCAACAACTTTTAAAAATTTAAAATATGAAAGAGACTCATCTCAGCA
1 GAGGCTCAACAAC-TTTAAAAA-TT-ATCT-TGAAAAAG-CTCCTCTCAGCA
* *
4873438 GAGGCTCAATAACTTTAAAAATTTTATCTTGAAAAAAGCTCTTCTCAGCA
1 GAGGCTCAACAACTTTAAAAA--TTATCTTG-AAAAAGCTCCTCTCAGCA
* * *
4873488 GAGGCTCAACAACTTTAAAAATCATCTTGAAAAAGGCTCCTTTTAGCA
1 GAGGCTCAACAACTTTAAAAATTATCTTGAAAAA-GCTCCTCTCAGCA
* * * *
4873536 GAGGCTTAACAACTTTAAAATATCATTTTGAAAAAGGTTCCTCTCAGCA
1 GAGGCTCAACAACTTTAAAA-ATTATCTTGAAAAA-GCTCCTCTCAGCA
* ** * * **
4873585 AAGGCTCAACAACTTTAAATTTTCA-CTTGAAAAAACACCTCTCAATA
1 GAGGCTCAACAACTTTAAAAATT-ATCTTGAAAAAGCTCCTCTCAGCA
* * *
4873632 GAGGCTCAACAACTTTAAAAATTATTTTGAAAAAGCTCATCTCAGTA
1 GAGGCTCAACAACTTTAAAAATTATCTTGAAAAAGCTCCTCTCAGCA
* *
4873679 AAGGCTCAACAATTTTAAAAAT
1 GAGGCTCAACAACTTTAAAAAT
4873701 CTCATATGTT
Statistics
Matches: 221, Mismatches: 36, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
46 1 0.00
47 70 0.32
48 45 0.20
49 42 0.19
50 33 0.15
51 15 0.07
52 15 0.07
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (47 bp):
GAGGCTCAACAACTTTAAAAATTATCTTGAAAAAGCTCCTCTCAGCA
Found at i:4873700 original size:144 final size:146
Alignment explanation
Indices: 4873430--4873698 Score: 357
Period size: 144 Copynumber: 1.9 Consensus size: 146
4873420 AAGAGACTCA
* * * * *
4873430 TCTCAGCAGAGGCTCAATAACTTTAAAAATTTTATCTTGAAAAAAGCTCTTCTCAGCAGAGGCTC
1 TCTCAGCAAAGGCTCAACAACTTT-AAAATTTTATCTTGAAAAAAGCACCTCTCAACAGAGGCTC
* * * * *
4873495 AACAACTTTAAAAATCATCTTGAAAAAGGCTCCTTTTAGCAGAGGCTTAACAACTTTAAAATATC
65 AACAACTTTAAAAATCATCTTGAAAAAGGCTCATCTCAGCAAAGGCTCAACAACTTTAAAATATC
4873560 ATTTTGAAAAAGGTTCC
130 ATTTTGAAAAAGGTTCC
*
4873577 TCTCAGCAAAGGCTCAACAACTTT-AAATTTTCA-CTTGAAAAAA-CACCTCTCAATAGAGGCTC
1 TCTCAGCAAAGGCTCAACAACTTTAAAATTTT-ATCTTGAAAAAAGCACCTCTCAACAGAGGCTC
* * * *
4873639 AACAACTTTAAAAATTATTTTGAAAAA-GCTCATCTCAGTAAAGGCTCAACAATTTTAAAA
65 AACAACTTTAAAAATCATCTTGAAAAAGGCTCATCTCAGCAAAGGCTCAACAACTTTAAAA
4873699 ATCTCATATG
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
143 26 0.25
144 40 0.38
145 17 0.16
146 1 0.01
147 22 0.21
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (146 bp):
TCTCAGCAAAGGCTCAACAACTTTAAAATTTTATCTTGAAAAAAGCACCTCTCAACAGAGGCTCA
ACAACTTTAAAAATCATCTTGAAAAAGGCTCATCTCAGCAAAGGCTCAACAACTTTAAAATATCA
TTTTGAAAAAGGTTCC
Found at i:4874451 original size:21 final size:22
Alignment explanation
Indices: 4874424--4874465 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4874414 TCATTATTTT
4874424 TCATTTTT-TACTTTTTTCTTTT
1 TCATTTTTCT-CTTTTTTCTTTT
4874446 TC-TTTTTCTCTTTTTTCTTT
1 TCATTTTTCTCTTTTTTCTTT
4874466 CAAGCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (22 bp):
TCATTTTTCTCTTTTTTCTTTT
Found at i:4874464 original size:7 final size:7
Alignment explanation
Indices: 4874420--4874465 Score: 58
Period size: 8 Copynumber: 6.3 Consensus size: 7
4874410 TGAGTCATTA
4874420 TTTTTCAT
1 TTTTTC-T
4874428 TTTTTACT
1 TTTTT-CT
4874436 TTTTTC-
1 TTTTTCT
4874442 TTTTTCT
1 TTTTTCT
4874449 TTTTCTCT
1 TTTT-TCT
4874457 TTTTTCT
1 TTTTTCT
4874464 TT
1 TT
4874466 CAAGCAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
6 6 0.17
7 10 0.29
8 18 0.51
9 1 0.03
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTCT
Found at i:4880724 original size:252 final size:252
Alignment explanation
Indices: 4880279--4880788 Score: 993
Period size: 252 Copynumber: 2.0 Consensus size: 252
4880269 CTCGTAAGGT
4880279 TATCTTAAAATATGTGCATCAATAACTTCTCATCATAAGTATGTGCTGCCATTTCACAATAATAC
1 TATCTTAAAATATGTGCATCAATAACTTCTCATCATAAGTATGTGCTGCCATTTCACAATAATAC
4880344 ATGATAATATGAGTCATTGGATATTTTGTGCCATCGTATTTTTCAAATTCAGGGACCTTAAATTT
66 ATGATAATATGAGTCATTGGATATTTTGTGCCATCGTATTTTTCAAATTCAGGGACCTTAAATTT
4880409 TGGTAAAATGACCACATTTAAAACTAAATAAAGGTCAGCCGCATCTGTGGAGCCATAAAAATTTA
131 TGGTAAAATGACCACATTTAAAACTAAATAAAGGTCAGCCGCATCTGTGGAGCCATAAAAATTTA
4880474 TTTCCTCTACAGCCTTAAGCCTTTCTTCTAATAATTTCATATTCTCTCAGGCACTGG
196 TTTCCTCTACAGCCTTAAGCCTTTCTTCTAATAATTTCATATTCTCTCAGGCACTGG
**
4880531 TATCTTAAAATATGTGCATCAATAACTTCTCATCATAAGTATGTGCTGCCATTTCATGATAATAC
1 TATCTTAAAATATGTGCATCAATAACTTCTCATCATAAGTATGTGCTGCCATTTCACAATAATAC
4880596 ATGATAATATGAGTCATTGGATATTTTGTGCCATCGTATTTTTCAAATTCAGGGACCTTAAATTT
66 ATGATAATATGAGTCATTGGATATTTTGTGCCATCGTATTTTTCAAATTCAGGGACCTTAAATTT
*
4880661 TGGTAAAATGACCACATTTAAAACTAAATAAAGGTCAGTCGCATCTGTGGAGCCATAAAAATTTA
131 TGGTAAAATGACCACATTTAAAACTAAATAAAGGTCAGCCGCATCTGTGGAGCCATAAAAATTTA
4880726 TTTCCTCTACAGCCTTAAGCCTTTCTTCTAATAATTTCATATTCTCTCAGGCACTGG
196 TTTCCTCTACAGCCTTAAGCCTTTCTTCTAATAATTTCATATTCTCTCAGGCACTGG
4880783 TATCTT
1 TATCTT
4880789 TCACTTTCTT
Statistics
Matches: 255, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
252 255 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (252 bp):
TATCTTAAAATATGTGCATCAATAACTTCTCATCATAAGTATGTGCTGCCATTTCACAATAATAC
ATGATAATATGAGTCATTGGATATTTTGTGCCATCGTATTTTTCAAATTCAGGGACCTTAAATTT
TGGTAAAATGACCACATTTAAAACTAAATAAAGGTCAGCCGCATCTGTGGAGCCATAAAAATTTA
TTTCCTCTACAGCCTTAAGCCTTTCTTCTAATAATTTCATATTCTCTCAGGCACTGG
Found at i:4885524 original size:12 final size:13
Alignment explanation
Indices: 4885506--4885542 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
4885496 ATTATCAAAA
4885506 AATTTTATTATAT
1 AATTTTATTATAT
4885519 -ATTTTATTAT-T
1 AATTTTATTATAT
4885530 AATTATTATTATA
1 AATT-TTATTATA
4885543 AAATAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.05
12 13 0.62
13 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATTTTATTATAT
Found at i:4886655 original size:16 final size:16
Alignment explanation
Indices: 4886636--4886672 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4886626 TTTGTTCTTT
*
4886636 TTTTTTATATTTTATA
1 TTTTTTATATTCTATA
*
4886652 TTTTTTGTATTCTATA
1 TTTTTTATATTCTATA
4886668 TTTTT
1 TTTTT
4886673 ATTTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTTTATATTCTATA
Found at i:4887311 original size:14 final size:13
Alignment explanation
Indices: 4887295--4887320 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4887285 TCTGGGGTAT
4887295 TTTTTTTATTTTG
1 TTTTTTTATTTTG
4887308 TTTTTTTATTTTG
1 TTTTTTTATTTTG
4887321 CATACTCTAC
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:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (13 bp):
TTTTTTTATTTTG
Found at i:4891264 original size:26 final size:25
Alignment explanation
Indices: 4891235--4891295 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
4891225 TCTTACTTGA
*
4891235 TTTAATATGAT-TAGTTGAAGTTTTTG
1 TTTAATAT-ATGTA-TTGAACTTTTTG
* *
4891261 TTTAATATTTGTATTGAACTTTTTT
1 TTTAATATATGTATTGAACTTTTTG
4891286 TTTAATATAT
1 TTTAATATAT
4891296 ATAAATTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 20 0.67
26 10 0.33
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (25 bp):
TTTAATATATGTATTGAACTTTTTG
Found at i:4892173 original size:25 final size:26
Alignment explanation
Indices: 4892136--4892188 Score: 99
Period size: 25 Copynumber: 2.1 Consensus size: 26
4892126 GATTTAATGT
4892136 ATTTTTAATTTTTTTATTTATAATAA
1 ATTTTTAATTTTTTTATTTATAATAA
4892162 ATTTTTAA-TTTTTTATTTATAATAA
1 ATTTTTAATTTTTTTATTTATAATAA
4892187 AT
1 AT
4892189 AATATTTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
ATTTTTAATTTTTTTATTTATAATAA
Found at i:4894340 original size:2 final size:2
Alignment explanation
Indices: 4894333--4894362 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4894323 GGACAAGGAT
*
4894333 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4894363 ACAGGTTGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4904469 original size:16 final size:17
Alignment explanation
Indices: 4904443--4904474 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4904433 ATTTCTAAAT
4904443 AATTATAATTAATTTTC
1 AATTATAATTAATTTTC
4904460 AATT-TAATTAATTTT
1 AATTATAATTAATTTT
4904475 TTTATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATAATTAATTTTC
Found at i:4904992 original size:16 final size:16
Alignment explanation
Indices: 4904973--4905004 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4904963 TTTATATTTC
4904973 TTATTAGTCTTATTCA
1 TTATTAGTCTTATTCA
4904989 TTATTAGTCTTATTCA
1 TTATTAGTCTTATTCA
4905005 AGAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATTAGTCTTATTCA
Found at i:4905226 original size:17 final size:17
Alignment explanation
Indices: 4905186--4905228 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4905176 TTTTTTGGCT
4905186 ATAAAAATTATAATTAA
1 ATAAAAATTATAATTAA
* *
4905203 ATGAAAATTGTAATTGAA
1 ATAAAAATTATAATT-AA
*
4905221 AAAAAAAT
1 ATAAAAAT
4905229 CAATAAAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (17 bp):
ATAAAAATTATAATTAA
Found at i:4905379 original size:3 final size:3
Alignment explanation
Indices: 4905373--4905411 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
4905363 TGTTTAAAAT
*
4905373 TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4905412 AAAGCCCTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4912330 original size:22 final size:22
Alignment explanation
Indices: 4912305--4912347 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4912295 GTATTAACTT
4912305 AATAGTAAATCATCAATAATTA
1 AATAGTAAATCATCAATAATTA
*
4912327 AATAGTAAATTATCAATAATT
1 AATAGTAAATCATCAATAATT
4912348 TAGTAATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (22 bp):
AATAGTAAATCATCAATAATTA
Found at i:4912353 original size:19 final size:20
Alignment explanation
Indices: 4912306--4912353 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
4912296 TATTAACTTA
4912306 ATAGTAAATCATCAATAATT
1 ATAGTAAATCATCAATAATT
*
4912326 AAATAGTAAATTATCAATAATT
1 --ATAGTAAATCATCAATAATT
4912348 -TAGTAA
1 ATAGTAA
4912354 TAACTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 6 0.24
22 19 0.76
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (20 bp):
ATAGTAAATCATCAATAATT
Found at i:4912407 original size:18 final size:19
Alignment explanation
Indices: 4912384--4912421 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
4912374 GACAAGTTAG
4912384 TAGT-AAATCATTGATAAA
1 TAGTAAAATCATTGATAAA
4912402 TAGTAACAAATCATTGATAA
1 TAGT-A-AAATCATTGATAA
4912422 TTTAATAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
21 13 0.76
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.32
Consensus pattern (19 bp):
TAGTAAAATCATTGATAAA
Found at i:4912437 original size:22 final size:21
Alignment explanation
Indices: 4912384--4912483 Score: 87
Period size: 22 Copynumber: 4.7 Consensus size: 21
4912374 GACAAGTTAG
* *
4912384 TAGTAAATCATTGATAAATAG
1 TAGTAAATCATTGATAATTAA
**
4912405 TAACAAATCATTGATAATTTAA
1 TAGTAAATCATTGATAA-TTAA
*
4912427 TAGTAAATCATTAATAACTTAA
1 TAGTAAATCATTGATAA-TTAA
*
4912449 TAGTAAATCAATT-AT-ATAACA
1 TAGTAAATC-ATTGATAATTA-A
*
4912470 TAGTAAATTATTGA
1 TAGTAAATCATTGA
4912484 CAACATATTG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
20 5 0.08
21 26 0.40
22 31 0.48
23 3 0.05
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (21 bp):
TAGTAAATCATTGATAATTAA
Found at i:4913553 original size:2 final size:2
Alignment explanation
Indices: 4913546--4913573 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4913536 AATTAAATTC
4913546 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4913574 GAGGAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4915846 original size:21 final size:21
Alignment explanation
Indices: 4915804--4915846 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4915794 TGAAACCTCC
** *
4915804 TTTAATATGTATATATATATT
1 TTTAATAAATATATATAAATT
*
4915825 TTTAATAAATATATTTAAATT
1 TTTAATAAATATATATAAATT
4915846 T
1 T
4915847 CCCTTTTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTAATAAATATATATAAATT
Found at i:4916971 original size:59 final size:58
Alignment explanation
Indices: 4916716--4917047 Score: 361
Period size: 58 Copynumber: 5.7 Consensus size: 58
4916706 TGCTTTTGTA
* * * * *
4916716 CAAGAAAAATTAATAGTTTTAACTTTTT-TTCAAAATATTTTTTAG-AAACTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAGAAAAC-TTATTTT
*** * **
4916773 CGAAG-AAAATTGATACTTTCAACTTTTTAAAAAAAAGACATTTTATG-AAACTTATTTT
1 C-AAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTA-GAAAACTTATTTT
* * * **
4916831 TAAGGAAAATTGATATTTTCAACTTTTTCTCGAAAATATTTTTTAGAAAAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAG---AAAACTTATTTT
*
4916892 CAAGAAAATTTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAGAAAAACTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAG-AAAACTTATTTT
* * *
4916951 CAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAGTATTTTTTAGAAAGCTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAGAAAACTTATTTT
4917009 CAA-AGAAAATTGATACTTTCAAC-TTTTCTTTAAAAATAT
1 CAAGA-AAAATTGATACTTTCAACTTTTTC-TTAAAAATAT
4917048 ATATATTTTG
Statistics
Matches: 234, Mismatches: 31, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
57 31 0.13
58 91 0.39
59 61 0.26
61 51 0.22
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAGAAAACTTATTTT
Found at i:4916972 original size:178 final size:176
Alignment explanation
Indices: 4916716--4917035 Score: 432
Period size: 178 Copynumber: 1.8 Consensus size: 176
4916706 TGCTTTTGTA
* * *
4916716 CAAGAAAAATTAATAGTTTTAACTTTTTTTCAAAATATTTTTTAGAAACTTTAATTTCGAAGAAA
1 CAAGAAAAATTAATACTTTCAACTTTTTTTAAAAATATTTTTTAGAAACTTTAATTTCGAAGAAA
* *
4916781 ATTGATACTTTCAACTTTTTAAAAAAAAGACATTTTAT-GAAA-CTTATTTTTAAGGAAAATTGA
66 ATTGATACTTTCAACTTTTT-AAAAAAAG-CATTTTATAGAAAGCTTATTTTCAAAGAAAATTGA
*
4916844 TATTTTCAACTTTTTCTCGAAAATATTTTTTAGAAAAAAACTTATTTT
129 TACTTTCAACTTTTTCTCGAAAATATTTTTTAGAAAAAAACTTATTTT
* * *
4916892 CAAGAAAATTTGATACTTTCAACTTTTTCTTAAAAATATTTTTTAGAAAAAC-TTATTTTC-AAG
1 CAAGAAAAATTAATACTTTCAACTTTTT-TTAAAAATATTTTTTAG--AAACTTTAATTTCGAAG
*** * *
4916955 AAAAATTGATACTTTCAACTTTTTCTCAAAAGTATTTTTTAGAAAGCTTATTTTCAAAGAAAATT
63 -AAAATTGATACTTTCAACTTTTTAAAAAAAGCATTTTATAGAAAGCTTATTTTCAAAGAAAATT
4917020 GATACTTTCAACTTTT
127 GATACTTTCAACTTTT
4917036 CTTTAAAAAT
Statistics
Matches: 124, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
176 30 0.24
177 28 0.23
178 62 0.50
179 4 0.03
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (176 bp):
CAAGAAAAATTAATACTTTCAACTTTTTTTAAAAATATTTTTTAGAAACTTTAATTTCGAAGAAA
ATTGATACTTTCAACTTTTTAAAAAAAGCATTTTATAGAAAGCTTATTTTCAAAGAAAATTGATA
CTTTCAACTTTTTCTCGAAAATATTTTTTAGAAAAAAACTTATTTT
Found at i:4917657 original size:31 final size:31
Alignment explanation
Indices: 4917602--4917660 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
4917592 TAACTGGCCA
*
4917602 AAAAATTCAAACTTGGTCGAAAAATTCACTG
1 AAAAATTCAAACTTGGTCAAAAAATTCACTG
4917633 AAAAATTCAAACTTGG-CAAGAAAATTCA
1 AAAAATTCAAACTTGGTCAA-AAAATTCA
4917661 ATCGGAATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (31 bp):
AAAAATTCAAACTTGGTCAAAAAATTCACTG
Found at i:4917989 original size:6 final size:6
Alignment explanation
Indices: 4917969--4918001 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
4917959 GAATAAGAAG
4917969 AAAAAT -AAAAT -AAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
4918002 AAATATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:4917990 original size:16 final size:16
Alignment explanation
Indices: 4917969--4918004 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
4917959 GAATAAGAAG
4917969 AAAAAT-AAAATAAAA
1 AAAAATAAAAATAAAA
4917984 TAAAAATAAAAATAAAA
1 -AAAAATAAAAATAAAA
4918001 AAAA
1 AAAA
4918005 TATATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAATAAAAATAAAA
Found at i:4917994 original size:22 final size:21
Alignment explanation
Indices: 4917960--4918006 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
4917950 ATCCCAGCCG
*
4917960 AATAAGAAGAAAAATAAAATAA
1 AATAAAAAGAAAAATAAAA-AA
*
4917982 AATAAAAATAAAAATAAAAAA
1 AATAAAAAGAAAAATAAAAAA
4918003 AATA
1 AATA
4918007 TATTAATAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (21 bp):
AATAAAAAGAAAAATAAAAAA
Found at i:4918019 original size:21 final size:20
Alignment explanation
Indices: 4917995--4918080 Score: 77
Period size: 20 Copynumber: 4.2 Consensus size: 20
4917985 AAAAATAAAA
*
4917995 ATAAAAAAAATATATTAATAG
1 ATAAATAAAA-ATATTAATAG
* *
4918016 ATAATTGAAAGAA-AATAATTAG
1 ATAAAT-AAA-AATATTAA-TAG
4918038 ATAAATAAAAATATTAATAG
1 ATAAATAAAAATATTAATAG
* *
4918058 ATAAATAATAATAATAATA-
1 ATAAATAAAAATATTAATAG
4918077 ATAA
1 ATAA
4918081 TAATAATAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
19 4 0.07
20 22 0.41
21 15 0.28
22 12 0.22
23 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (20 bp):
ATAAATAAAAATATTAATAG
Found at i:4918053 original size:17 final size:16
Alignment explanation
Indices: 4918027--4918193 Score: 60
Period size: 17 Copynumber: 10.2 Consensus size: 16
4918017 TAATTGAAAG
4918027 AAAATAATTAGATAAATA
1 AAAAT-ATTA-ATAAATA
*
4918045 AAAATATTAATAGATA
1 AAAATATTAATAAATA
*
4918061 AATAATAATAAT-AATA
1 AA-AATATTAATAAATA
* * *
4918077 ATAATAATAATAGATA
1 AAAATATTAATAAATA
* *
4918093 TATAATAATAAT-AATA
1 -AAAATATTAATAAATA
*
4918109 ATAGATATATAA-ACAGATA
1 A-AAATAT-TAATA-A-ATA
* *
4918128 AGTAATAATAATAAAT-
1 A-AAATATTAATAAATA
*
4918144 -ATATATTAATAAATA
1 AAAATATTAATAAATA
** *
4918159 GTAATAATAAATAAAT-
1 AAAAT-ATTAATAAATA
*
4918175 AAAATA-TAAAAAATA
1 AAAATATTAATAAATA
4918190 AAAA
1 AAAA
4918194 ATACAAAGTA
Statistics
Matches: 113, Mismatches: 23, Indels: 29
0.68 0.14 0.18
Matches are distributed among these distances:
14 17 0.15
15 15 0.13
16 26 0.23
17 37 0.33
18 10 0.09
19 8 0.07
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (16 bp):
AAAATATTAATAAATA
Done.