Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 64
Found at i:5578935 original size:24 final size:25
Alignment explanation
Indices: 5578833--5578935 Score: 90
Period size: 24 Copynumber: 4.3 Consensus size: 25
5578823 GGAGATATCG
*
5578833 GAAATCAAAACAGAATTC-AGAACA
1 GAAATCAAAACAGAATTCAAGATCA
* *
5578857 GATATCAAAACAGAA-TCCAGATCA
1 GAAATCAAAACAGAATTCAAGATCA
* *
5578881 GAAATCAGAACAGAATTC-AGGTCA
1 GAAATCAAAACAGAATTCAAGATCA
* * *
5578905 TG-TATCATAACAGAATTCAAG-TCG
1 -GAAATCAAAACAGAATTCAAGATCA
5578929 GAAATCA
1 GAAATCA
5578936 GATAAAATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
23 3 0.05
24 57 0.88
25 5 0.08
ACGTcount: A:0.49, C:0.17, G:0.16, T:0.18
Consensus pattern (25 bp):
GAAATCAAAACAGAATTCAAGATCA
Found at i:5582220 original size:22 final size:22
Alignment explanation
Indices: 5582186--5582249 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
5582176 ATCAGATTGT
*
5582186 CCAGGGGGTACAGATTCCCCCC
1 CCAGGGGGTACAGATTCCCCCA
* * *
5582208 CCATGGGGAACAGGTT-CCCCA
1 CCAGGGGGTACAGATTCCCCCA
*
5582229 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
5582250 TGTCTAACGG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.19, C:0.39, G:0.28, T:0.14
Consensus pattern (22 bp):
CCAGGGGGTACAGATTCCCCCA
Found at i:5582637 original size:34 final size:32
Alignment explanation
Indices: 5582598--5582667 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
5582588 TTTTGTAAAG
* *
5582598 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
5582632 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
5582664 GGGA
1 GGGA
5582668 GTTGAAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:5583972 original size:42 final size:42
Alignment explanation
Indices: 5583926--5584043 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
5583916 TTAGGGGAAG
*
5583926 GGATCAATCTTTTTCATCGAGGGATCGACCTTTTTGGTTAAT
1 GGATCAATCTTTTTCATCGAGGGATCGACCTTTTTGGTAAAT
* * *
5583968 GGATCAATCTATTTCATC-ATGGGATCCACCCTTTTGGTAAAT
1 GGATCAATCTTTTTCATCGA-GGGATCGACCTTTTTGGTAAAT
* *
5584010 GGATCAGTCTTTTTCCTCGAGGGATCGATCCTTT
1 GGATCAATCTTTTTCATCGAGGGATCGA-CCTTT
5584044 AGGGAAGGGA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.02
42 58 0.91
43 5 0.08
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (42 bp):
GGATCAATCTTTTTCATCGAGGGATCGACCTTTTTGGTAAAT
Found at i:5585401 original size:30 final size:30
Alignment explanation
Indices: 5585352--5585622 Score: 241
Period size: 30 Copynumber: 9.1 Consensus size: 30
5585342 TTAAGTTCAC
* *
5585352 ATCTTAACATTAAAAAATATATTTTATTTTT
1 ATCTTAAC-TTATAAAATATATTTTATTCTT
* *
5585383 ATATTAACTTATTAAATATATTTTATTCTT
1 ATCTTAACTTATAAAATATATTTTATTCTT
* *
5585413 ATCTTAAC-TAAAAATATATATTTTAATCTT
1 ATCTTAACTTATAAA-ATATATTTTATTCTT
* * *
5585443 ATTTTAACTTACAAAGTATATTTTATTCTT
1 ATCTTAACTTATAAAATATATTTTATTCTT
* *
5585473 ACCTTAAC-T-TAAAA-ATATTTT-TTATT
1 ATCTTAACTTATAAAATATATTTTATTCTT
* *
5585499 ATTTTAACATT-TAGAAATATATTTTATTTTT
1 ATCTTAAC-TTATA-AAATATATTTTATTCTT
* * *
5585530 ATCTTAACTTATTACATATATTATATTCTT
1 ATCTTAACTTATAAAATATATTTTATTCTT
* * * *
5585560 ACCTTAAATTATCAAATAT-TATTTATTTTT
1 ATCTTAACTTATAAAATATAT-TTTATTCTT
* *
5585590 ATCTTAACTTAAAAATATATATTTTATTTTT
1 ATCTTAACTTATAAA-ATATATTTTATTCTT
5585621 AT
1 AT
5585623 TTTTATTTTA
Statistics
Matches: 194, Mismatches: 35, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
26 10 0.05
27 7 0.04
28 6 0.03
29 9 0.05
30 122 0.63
31 39 0.20
32 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (30 bp):
ATCTTAACTTATAAAATATATTTTATTCTT
Found at i:5585621 original size:117 final size:120
Alignment explanation
Indices: 5585352--5585622 Score: 306
Period size: 117 Copynumber: 2.3 Consensus size: 120
5585342 TTAAGTTCAC
*
5585352 ATCTTAACATTAAAAA-ATATATTTTATTTTTATATTAACTTATTAAATATATTTTATTCTTATC
1 ATCTTAAC-TTAAAAATATATATTTTATTTTTATA-TAACTTATGAAATATATTTTATTCTTATC
* * ** *
5585416 TTAACTAAAAATATATATTTTAATCTTATTTTAACTTACAAAGTATATTTTATTCTT
64 TTAACTAAAAACATATATTATAATCTTACCTTAAATTACAAAGTATATTTTATTCTT
* * *
5585473 ACCTTAACTTAAAAATAT-T-TTTTATTATT-T-TAACATT-TAGAAATATATTTTATTTTTATC
1 ATCTTAACTTAAAAATATATATTTTATTTTTATATAAC-TTAT-GAAATATATTTTATTCTTATC
* ** * *
5585533 TTAACTTATTACATATATTATATTCTTACCTTAAATTATCAAA-TAT-TATTTATTTTT
64 TTAACTAAAAACATATATTATAATCTTACCTTAAATTA-CAAAGTATAT-TTTATTCTT
5585590 ATCTTAACTTAAAAATATATATTTTATTTTTAT
1 ATCTTAACTTAAAAATATATATTTTATTTTTAT
5585623 TTTTATTTTA
Statistics
Matches: 126, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
116 6 0.05
117 78 0.62
118 6 0.05
119 18 0.14
120 9 0.07
121 9 0.07
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (120 bp):
ATCTTAACTTAAAAATATATATTTTATTTTTATATAACTTATGAAATATATTTTATTCTTATCTT
AACTAAAAACATATATTATAATCTTACCTTAAATTACAAAGTATATTTTATTCTT
Found at i:5585652 original size:147 final size:145
Alignment explanation
Indices: 5585355--5585692 Score: 336
Period size: 147 Copynumber: 2.4 Consensus size: 145
5585345 AGTTCACATC
* * * *
5585355 TTAACATTAAAAAATATATTTTATTTTTATATTAACTTATTAAATATATTTTATTCTTATCTTAA
1 TTAACATT-AGAAATATATTTTATTTTTATCTTAACTTATT-AATATATTATATTCTTACCTTAA
* * *
5585420 CTAAAAATATATATTTTAATCTTATTTTAACTTACAAAGTATATTTTATTCTTACCTTAACTTAA
64 CTAAAAATATATATTTTAATCTTATCTTAACTTAAAAAATATATTTTATTCTTACCTTAACTTAA
* * *
5585485 AAATATTTTTTATTATT
129 AAATATATATTATTAAT
5585502 TTAACATTTAGAAATATATTTTATTTTTATCTTAACTTATTACATATATTATATTCTTACCTTAA
1 TTAACA-TTAGAAATATATTTTATTTTTATCTTAACTTATTA-ATATATTATATTCTTACCTT-A
* * * * * ** * *
5585567 ATTATCAAATAT-TA-TTTATTTTTATCTTAACTTAAAAATATATATTTTATTTTTATTTTTATT
63 ACTA-AAAATATATATTTTAATCTTATCTTAACTTAAAAA-ATATATTTTATTCTTACCTTAACT
* * *
5585630 TTAAACTGTATATT-TTAAT
126 TAAAAATATATATTATTAAT
*
5585649 TT---A--AGAAATATATTTTATTTTTATCTTAA-TT-TTAAAATATTATA
1 TTAACATTAGAAATATATTTTATTTTTATCTTAACTTATTAATATATTATA
5585693 AGAATTAAAT
Statistics
Matches: 163, Mismatches: 23, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
138 9 0.06
139 3 0.02
140 2 0.01
141 26 0.16
144 1 0.01
146 1 0.01
147 80 0.49
148 35 0.21
149 6 0.04
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.54
Consensus pattern (145 bp):
TTAACATTAGAAATATATTTTATTTTTATCTTAACTTATTAATATATTATATTCTTACCTTAACT
AAAAATATATATTTTAATCTTATCTTAACTTAAAAAATATATTTTATTCTTACCTTAACTTAAAA
ATATATATTATTAAT
Found at i:5585708 original size:22 final size:22
Alignment explanation
Indices: 5585674--5585715 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5585664 TATTTTTATC
*
5585674 TTAATTTTAAAATATTATAAGAA
1 TTAAATTTAAAATATT-TAAGAA
5585697 TTAAATTT-AAATATTTAAG
1 TTAAATTTAAAATATTTAAG
5585716 TTAAGATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 7 0.39
23 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (22 bp):
TTAAATTTAAAATATTTAAGAA
Found at i:5587168 original size:17 final size:17
Alignment explanation
Indices: 5587146--5587178 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5587136 AAATTACAAA
5587146 AAAATCCCAAATCCCTG
1 AAAATCCCAAATCCCTG
*
5587163 AAAATCTCAAATCCCT
1 AAAATCCCAAATCCCT
5587179 AATCCTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.33, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAATCCCAAATCCCTG
Found at i:5594410 original size:21 final size:21
Alignment explanation
Indices: 5594386--5594443 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
5594376 TATGATTAAC
*
5594386 AGTATTGATACTGATGCAATT
1 AGTATCGATACTGATGCAATT
5594407 AGTATCGATACTGATGCAATT
1 AGTATCGATACTGATGCAATT
* *
5594428 AATATCAATACTGATG
1 AGTATCGATACTGATG
5594444 TGGGTATCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (21 bp):
AGTATCGATACTGATGCAATT
Found at i:5595110 original size:81 final size:82
Alignment explanation
Indices: 5594969--5595138 Score: 254
Period size: 81 Copynumber: 2.1 Consensus size: 82
5594959 CTGTTCTAAA
*
5594969 ATGAAAGATTAAATGTCTAACTGTGCATTTGGCAGAAAGGTACCAATAATGCAAGATAGATGAAA
1 ATGAAAGATTAAATGTCTAACTATGCATTTGGCAGAAAGGTACCAATAATGCAAGATAGATGAAA
*
5595034 GGTTTAATGCCTTTGG-
66 GGTTAAATGCCTTTGGC
** * * *
5595050 ATGAAAGATTAAATGTCTAACTATGCATTCT-GCAGAAAGGTGTCAATAATGTAAGTTAGATGAC
1 ATGAAAGATTAAATGTCTAACTATGCATT-TGGCAGAAAGGTACCAATAATGCAAGATAGATGAA
5595114 AGGTTAAATGCCTTTGGC
65 AGGTTAAATGCCTTTGGC
5595132 ATGAAAG
1 ATGAAAG
5595139 GATGCCATAA
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
81 72 0.90
82 8 0.10
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (82 bp):
ATGAAAGATTAAATGTCTAACTATGCATTTGGCAGAAAGGTACCAATAATGCAAGATAGATGAAA
GGTTAAATGCCTTTGGC
Found at i:5595181 original size:46 final size:46
Alignment explanation
Indices: 5595129--5595327 Score: 344
Period size: 46 Copynumber: 4.3 Consensus size: 46
5595119 AAATGCCTTT
*
5595129 GGCATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATA
1 GGCATGAAAGGATGTCATAAATGAAAATGCATAACGGTGCATTATA
* * * *
5595175 GGCATGAAATGATGTAATAAATGAAAATGCGTAACGGTGCATTATC
1 GGCATGAAAGGATGTCATAAATGAAAATGCATAACGGTGCATTATA
5595221 GGCATGAAAGGATGTCATAAATGAAAATGCATAACGGTGCATTATA
1 GGCATGAAAGGATGTCATAAATGAAAATGCATAACGGTGCATTATA
*
5595267 GGCATGAAAGGATGGCATAAATGAAAATGCATAACGGTGCATTATA
1 GGCATGAAAGGATGTCATAAATGAAAATGCATAACGGTGCATTATA
5595313 GGCATGAAAGGATGT
1 GGCATGAAAGGATGT
5595328 TTTTTTTATA
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 142 1.00
ACGTcount: A:0.40, C:0.11, G:0.26, T:0.23
Consensus pattern (46 bp):
GGCATGAAAGGATGTCATAAATGAAAATGCATAACGGTGCATTATA
Found at i:5606087 original size:29 final size:29
Alignment explanation
Indices: 5606045--5606105 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
5606035 CACTACCTGG
5606045 AGGGGGAATGGGAGGAAGGAAACATAGGA
1 AGGGGGAATGGGAGGAAGGAAACATAGGA
5606074 AGGGGGAATGGGAGGAAGGAAACATAGGA
1 AGGGGGAATGGGAGGAAGGAAACATAGGA
5606103 AGG
1 AGG
5606106 AAGAAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.49, T:0.07
Consensus pattern (29 bp):
AGGGGGAATGGGAGGAAGGAAACATAGGA
Found at i:5606234 original size:29 final size:30
Alignment explanation
Indices: 5606186--5606242 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
5606176 GAGACAAGGT
5606186 TTTTTATTTAAATTTTTTTTAAA-AAAATA
1 TTTTTATTTAAATTTTTTTTAAATAAAATA
*
5606215 TTTTT-TTTAATTTTTATTTTAAATAAAA
1 TTTTTATTTAAATTTT-TTTTAAATAAAA
5606243 AAATTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 12 0.48
30 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTTATTTAAATTTTTTTTAAATAAAATA
Found at i:5610231 original size:17 final size:16
Alignment explanation
Indices: 5610209--5610242 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
5610199 TAAAGACAGT
5610209 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
5610226 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
5610242 A
1 A
5610243 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:5610754 original size:24 final size:24
Alignment explanation
Indices: 5610710--5610759 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
5610700 ATAAAGAACC
*
5610710 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
5610734 AAAATAAAGTTTAAACA-ACCATTA
1 AAAATAAA-CTTAAACATACCATTA
5610758 AA
1 AA
5610760 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:5617135 original size:24 final size:24
Alignment explanation
Indices: 5617097--5617161 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
5617087 GTTCGCTAAT
* * *
5617097 ATGTTCGTTTGTGTTTGTTCATTT
1 ATGTTCGTTTATGTTCGTTCATTA
*
5617121 ATGTTC-TCTTATGTTCGTTCGTTA
1 ATGTTCGT-TTATGTTCGTTCATTA
5617145 ATGTTCGTTTATGTTCG
1 ATGTTCGTTTATGTTCG
5617162 CTTATATGCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 1 0.03
24 33 0.94
25 1 0.03
ACGTcount: A:0.11, C:0.12, G:0.20, T:0.57
Consensus pattern (24 bp):
ATGTTCGTTTATGTTCGTTCATTA
Found at i:5617174 original size:34 final size:34
Alignment explanation
Indices: 5617112--5617183 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
5617102 CGTTTGTGTT
* * * *
5617112 TGTTCATTTATGTTCTCTTATGTTCGTTCGTTAA
1 TGTTCATTTATGTTCGCTTATATGCGTTCATTAA
* *
5617146 TGTTCGTTTATGTTCGCTTATATGCGTTCATTTA
1 TGTTCATTTATGTTCGCTTATATGCGTTCATTAA
5617180 TGTT
1 TGTT
5617184 TAGCCCAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.14, C:0.14, G:0.17, T:0.56
Consensus pattern (34 bp):
TGTTCATTTATGTTCGCTTATATGCGTTCATTAA
Found at i:5617390 original size:23 final size:23
Alignment explanation
Indices: 5617360--5617462 Score: 109
Period size: 23 Copynumber: 4.4 Consensus size: 23
5617350 TTCATTTATA
*
5617360 TTCGTTTATGTTCATTTATTGTG
1 TTCGTTTATGTTCGTTTATTGTG
*
5617383 TTCGTTTACGTTCGTTTATTGTG
1 TTCGTTTATGTTCGTTTATTGTG
* **
5617406 TTCATTTATGTTCGTTTACATT-CA
1 TTCGTTTATGTTCGTTT--ATTGTG
* *
5617430 TTCGTTTATGTTTGTTCATTTGTG
1 TTCGTTTATGTTCGTTTA-TTGTG
5617454 TTCGTTTAT
1 TTCGTTTAT
5617463 CATTTAAATG
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
22 1 0.02
23 38 0.58
24 23 0.35
25 3 0.05
ACGTcount: A:0.13, C:0.12, G:0.17, T:0.59
Consensus pattern (23 bp):
TTCGTTTATGTTCGTTTATTGTG
Found at i:5617450 original size:38 final size:38
Alignment explanation
Indices: 5617393--5617466 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 38
5617383 TTCGTTTACG
5617393 TTCGTTTATTGTGTTCATTTATGTTCGTTTA-CATTCA
1 TTCGTTTATTGTGTTCATTTATGTTCGTTTATCATTCA
* *
5617430 TTCGTTTATGTTTGTTCATTTGTGTTCGTTTATCATT
1 TTCGTTTAT-TGTGTTCATTTATGTTCGTTTATCATT
5617467 TAAATGAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 9 0.27
38 20 0.61
39 4 0.12
ACGTcount: A:0.14, C:0.12, G:0.15, T:0.59
Consensus pattern (38 bp):
TTCGTTTATTGTGTTCATTTATGTTCGTTTATCATTCA
Found at i:5618820 original size:74 final size:74
Alignment explanation
Indices: 5618706--5618850 Score: 236
Period size: 74 Copynumber: 2.0 Consensus size: 74
5618696 GCAATAATAC
* *
5618706 TAAAGTTTTCATGCATCTAAAATGTATGTTATTAAAAACCATATAATTCACATACATACAAATAT
1 TAAAGTTTTCATGCACCTAAAATGTATGTTATTAAAAACCATATAAGTCACATACATACAAATAT
5618771 AATTTATAA
66 AATTTATAA
* * *
5618780 TAAAGTTTTCATGCACCTAAAATGTTTGTTATTAATAACCATATAAGTCACGTACATACAAATAT
1 TAAAGTTTTCATGCACCTAAAATGTATGTTATTAAAAACCATATAAGTCACATACATACAAATAT
*
5618845 GATTTA
66 AATTTA
5618851 GGCACATAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.37
Consensus pattern (74 bp):
TAAAGTTTTCATGCACCTAAAATGTATGTTATTAAAAACCATATAAGTCACATACATACAAATAT
AATTTATAA
Found at i:5620789 original size:30 final size:30
Alignment explanation
Indices: 5620753--5620816 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
5620743 TAATATGGTC
5620753 CAAATTTGATCAATTTA-ATCATCACATTTA
1 CAAATTTGATCAATTTAGATC-TCACATTTA
* *
5620783 CAAATTTGATCAATTTAGTTCTCATATTTA
1 CAAATTTGATCAATTTAGATCTCACATTTA
5620813 CAAA
1 CAAA
5620817 ATTTTCTTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.41
Consensus pattern (30 bp):
CAAATTTGATCAATTTAGATCTCACATTTA
Found at i:5623230 original size:17 final size:18
Alignment explanation
Indices: 5623208--5623250 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
5623198 TTGCCCATTT
5623208 TTTATTATTTTATT-TTA
1 TTTATTATTTTATTATTA
*
5623225 TTTATTATATTATTATTA
1 TTTATTATTTTATTATTA
5623243 -TTATTATT
1 TTTATTATT
5623251 AATTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTATTTTATTATTA
Found at i:5623232 original size:3 final size:3
Alignment explanation
Indices: 5623209--5623272 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
5623199 TGCCCATTTT
5623209 TTA TTA TT- TTA TT- TTA TTTA TTA -TA TTA TTA TTA TTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT-A
* *
5623253 TTA -AA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
5623273 CAGGCCCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 7 0.14
3 38 0.75
4 6 0.12
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:5623255 original size:24 final size:24
Alignment explanation
Indices: 5623210--5623272 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
5623200 GCCCATTTTT
*
5623210 TATTATT-TTATT-TTATTTATTA
1 TATTATTATTATTATTATTAATTA
5623232 TATTATTATTATTATTATTAATTA
1 TATTATTATTATTATTATTAATTA
* *
5623256 AATTATTATTACTATTA
1 TATTATTATTATTATTA
5623273 CAGGCCCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 7 0.19
23 5 0.14
24 24 0.67
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTATTATTATTATTATTAATTA
Found at i:5635940 original size:158 final size:158
Alignment explanation
Indices: 5635652--5635943 Score: 548
Period size: 158 Copynumber: 1.8 Consensus size: 158
5635642 ATTAAACAAT
* * *
5635652 GGATCAAAATGAAAGTTTCTCAAATTACACATCCAATGTAAAAATAACACGAAAATAGCCCTTGC
1 GGATCAAAATGAAAGTTTCTCAAATTACACATCCAATGTAAAAACAACACGAAAATAACCCTAGC
*
5635717 ATGATTCTGGACTAAAATGAAACACGCTTAAAATTAAAAGAAAAAATTAATATTCTAACAAGCAT
66 ATAATTCTGGACTAAAATGAAACACGCTTAAAATTAAAAGAAAAAATTAATATTCTAACAAGCAT
5635782 CGATAACATGATACAACCGTACTACATA
131 CGATAACATGATACAACCGTACTACATA
5635810 GGATCAAAATGAAAGTTTCTCAAATTACACATCCAATGTAAAAACAACACGAAAATAACCCTAGC
1 GGATCAAAATGAAAGTTTCTCAAATTACACATCCAATGTAAAAACAACACGAAAATAACCCTAGC
5635875 ATAATTCTGGACTAAAATGAAACACGCTTAAAATTAAAAGAAAAAATTAATATTCTAACAAGCAT
66 ATAATTCTGGACTAAAATGAAACACGCTTAAAATTAAAAGAAAAAATTAATATTCTAACAAGCAT
5635940 CGAT
131 CGAT
5635944 TTAGGGGCCA
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
158 130 1.00
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (158 bp):
GGATCAAAATGAAAGTTTCTCAAATTACACATCCAATGTAAAAACAACACGAAAATAACCCTAGC
ATAATTCTGGACTAAAATGAAACACGCTTAAAATTAAAAGAAAAAATTAATATTCTAACAAGCAT
CGATAACATGATACAACCGTACTACATA
Found at i:5637664 original size:53 final size:53
Alignment explanation
Indices: 5637618--5638519 Score: 1194
Period size: 53 Copynumber: 16.9 Consensus size: 53
5637608 TCTTCAGAAA
* *
5637618 ACGGGTTCGCTC-CTTCTTGCTTCAGGGAGTAGACCTCGAATAATCTTCTGCCT
1 ACGGGTTCGCTCTC-TCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * *
5637671 ACTGGTTCACTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTTCCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * *
5637724 ACGAGTTCACTCTCTCTTGTTTCAGGGAGTAAGAACTCGAACAATCTTCTGCCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCT
*
5637778 ACGGGTTCACTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * * *
5637831 ACGGGTTTGCTCTCTCTTGTTTCAGGGAGTAAGAACTTGAATAATCTTCTGCCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCT
* * * * * * *
5637885 AGGGGTTCACACACTCTTGCTTCAGGGTGTAGAACTTGAACAATCTTCTACCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* *
5637938 ACGGGTTCTCTCTCTCTTGTTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
** ** * *
5637991 GTGGGTTTACTCTCTCTTACTTCAGGGAGTAAGAACTCGAACAATCTTCTGCTT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCT
* * *
5638045 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCAAAAAATCTTTTGCCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * * * * *
5638098 GCGGTTTCACTCTCTCTTGCTCCAGTGAGTAGAACTCGAACAATCTTCTACCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * * * * *
5638151 ATGGGTTTGCTCTCTCTTACTTCATGGAGTAGAGCTCAAACAATCTTCTGCCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * * *
5638204 ACGAGTTCGTTCTCTCTTGCTTGAAGGAGTAAGAACTCGAACAATCTTCTGCCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCT
* * * *
5638258 ACGGGTTTGCTCTCTCTTGCTTAAGGGAGTAGAACTCAAACAATCTTCTGCAT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * * *
5638311 ACGGGTTCGCTCTCTCTTCCTCCAGGGAGTAAGAACTCGAACAATATTATGCCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCT
* *
5638365 ACGGGTTCGCTCTTTCTTGCTTCAGGGAGTAAGAATTCGAACAATCTTCTGCCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCT
*
5638419 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGCCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* *
5638472 ATGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAATAATCTTC
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTC
5638520 ATTTGCTTCA
Statistics
Matches: 737, Mismatches: 106, Indels: 12
0.86 0.12 0.01
Matches are distributed among these distances:
53 453 0.61
54 284 0.39
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (53 bp):
ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
Found at i:5637791 original size:107 final size:106
Alignment explanation
Indices: 5637618--5638519 Score: 1212
Period size: 107 Copynumber: 8.5 Consensus size: 106
5637608 TCTTCAGAAA
* * *
5637618 ACGGGTTCGCTC-CTTCTTGCTTCAGGGAGTAGACCTCGAATAATCTTCTGCCTACTGGTTCACT
1 ACGGGTTCGCTCTC-TCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCACT
*
5637682 CTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTTCCT
65 CTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * *
5637724 ACGAGTTCACTCTCTCTTGTTTCAGGGAGTAAGAACTCGAACAATCTTCTGCCTACGGGTTCACT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCTACGGGTTCACT
5637789 CTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
65 CTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * * * * *
5637831 ACGGGTTTGCTCTCTCTTGTTTCAGGGAGTAAGAACTTGAATAATCTTCTGCCTAGGGGTTCACA
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCTACGGGTTCACT
* * * *
5637896 CACTCTTGCTTCAGGGTGTAGAACTTGAACAATCTTCTACCT
65 CTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * ** *
5637938 ACGGGTTCTCTCTCTCTTGTTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTGTGGGTTTACTC
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCACTC
* *
5638003 TCTCTTACTTCAGGGAGTAAGAACTCGAACAATCTTCTGCTT
66 TCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCT
* * * * *
5638045 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCAAAAAATCTTTTGCCTGCGGTTTCACTC
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCACTC
* * *
5638110 TCTCTTGCTCCAGTGAGTAGAACTCGAACAATCTTCTACCT
66 TCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * * * * * * **
5638151 ATGGGTTTGCTCTCTCTTACTTCATGGAGTAGAGCTCAAACAATCTTCTGCCTACGAGTTCGTTC
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCACTC
* *
5638216 TCTCTTGCTTGAAGGAGTAAGAACTCGAACAATCTTCTGCCT
66 TCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCT
* * * * *
5638258 ACGGGTTTGCTCTCTCTTGCTTAAGGGAGTAGAACTCAAACAATCTTCTGCATACGGGTTCGCTC
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCACTC
* * * *
5638323 TCTCTTCCTCCAGGGAGTAAGAACTCGAACAATATTATGCCT
66 TCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCT
* * *
5638365 ACGGGTTCGCTCTTTCTTGCTTCAGGGAGTAAGAATTCGAACAATCTTCTGCCTACGGGTTCGCT
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCTACGGGTTCACT
*
5638430 CTCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGCCT
65 CTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* *
5638472 ATGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAATAATCTTC
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTC
5638520 ATTTGCTTCA
Statistics
Matches: 700, Mismatches: 91, Indels: 10
0.87 0.11 0.01
Matches are distributed among these distances:
106 173 0.25
107 479 0.68
108 48 0.07
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (106 bp):
ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCACTC
TCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
Found at i:5637928 original size:160 final size:160
Alignment explanation
Indices: 5637618--5638519 Score: 1207
Period size: 160 Copynumber: 5.6 Consensus size: 160
5637608 TCTTCAGAAA
* * * *
5637618 ACGGGTTCGCTC-CTTCTTGCTTCAGGGAGTAGACCTCGAATAATCTTCTGCCTACTGGTTCACT
1 ACGGGTTCGCTCTC-TCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCT
* * * *
5637682 CTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTTCCTACGAGTTCACTCTCTCTTGTTTC
65 CTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTC
5637747 AGGGAGTAAGAACTCGAACAATCTTCTGCCT
130 AGGGAGTAAGAACTCGAACAATCTTCTGCCT
* *
5637778 ACGGGTTCACTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTTGCTC
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTC
* * * * * * *
5637843 TCTCTTGTTTCAGGGAGTAAGAACTTGAATAATCTTCTGCCTAGGGGTTCACACACTCTTGCTTC
66 TCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTC
* * *
5637908 AGGGTGT-AGAACTTGAACAATCTTCTACCT
130 AGGGAGTAAGAACTCGAACAATCTTCTGCCT
* * ** **
5637938 ACGGGTTCTCTCTCTCTTGTTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTGTGGGTTTACTC
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTC
* *
5638003 TCTCTTACTTCAGGGAGTAAGAACTCGAACAATCTTCTGCTTACGGGTTCGCTCTCTCTTGCTTC
66 TCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTC
* * *
5638068 AGGGAGT-AGAACTCAAAAAATCTTTTGCCT
130 AGGGAGTAAGAACTCGAACAATCTTCTGCCT
* * * * * * * *
5638098 GCGGTTTCACTCTCTCTTGCTCCAGTGAGTAGAACTCGAACAATCTTCTACCTATGGGTTTGCTC
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTC
* * * * * * *
5638163 TCTCTTACTTCATGGAGTAGAGCTCAAACAATCTTCTGCCTACGAGTTCGTTCTCTCTTGCTTGA
66 TCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCA
*
5638228 AGGAGTAAGAACTCGAACAATCTTCTGCCT
131 GGGAGTAAGAACTCGAACAATCTTCTGCCT
* * * *
5638258 ACGGGTTTGCTCTCTCTTGCTTAAGGGAGTAGAACTCAAACAATCTTCTGCATACGGGTTCGCTC
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTC
* * * * *
5638323 TCTCTTCCTCCAGGGAGTAAGAACTCGAACAATATTATGCCTACGGGTTCGCTCTTTCTTGCTTC
66 TCTCTTGCTTCAGGGAGT-AGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTC
*
5638388 AGGGAGTAAGAATTCGAACAATCTTCTGCCT
130 AGGGAGTAAGAACTCGAACAATCTTCTGCCT
* *
5638419 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGCCTATGGGTTCGCTC
1 ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTC
*
5638484 TCTCTTGCTTCAGGGAGTAGAACTCGAATAATCTTC
66 TCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTC
5638520 ATTTGCTTCA
Statistics
Matches: 646, Mismatches: 92, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
159 46 0.07
160 411 0.64
161 189 0.29
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (160 bp):
ACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTC
TCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCA
GGGAGTAAGAACTCGAACAATCTTCTGCCT
Found at i:5639843 original size:18 final size:20
Alignment explanation
Indices: 5639822--5639862 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
5639812 TCTCTCTCTC
5639822 TTTTT-ATCTCTT-TT-CAT
1 TTTTTCATCTCTTCTTCCAT
*
5639839 TTTTTCATTTCTTCTTCCAT
1 TTTTTCATCTCTTCTTCCAT
5639859 TTTT
1 TTTT
5639863 CCATTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 2 0.10
20 7 0.35
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTCATCTCTTCTTCCAT
Found at i:5639861 original size:20 final size:19
Alignment explanation
Indices: 5639836--5639873 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
5639826 TATCTCTTTT
*
5639836 CATTTTTTCATTTCTTCTTC
1 CATTTTTCCATTT-TTCTTC
5639856 CATTTTTCCATTTTTCTT
1 CATTTTTCCATTTTTCTT
5639874 TTCATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.11, C:0.24, G:0.00, T:0.66
Consensus pattern (19 bp):
CATTTTTCCATTTTTCTTC
Found at i:5639933 original size:23 final size:22
Alignment explanation
Indices: 5639901--5639962 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
5639891 TTTTAAATTT
*
5639901 TTTTTC-CTTTTTCCATTTCCA
1 TTTTTCTCTTTTTTCATTTCCA
*
5639922 TTTTCTCTCTTTTTTC-TTTTCA
1 TTTT-TCTCTTTTTTCATTTCCA
*
5639944 TTTTTCTATTTTTTCATTT
1 TTTTTCTCTTTTTTCATTT
5639963 TTTTCTCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 14 0.40
22 14 0.40
23 7 0.20
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTCTCTTTTTTCATTTCCA
Found at i:5639957 original size:21 final size:21
Alignment explanation
Indices: 5639830--5639963 Score: 66
Period size: 21 Copynumber: 6.3 Consensus size: 21
5639820 TCTTTTTATC
*
5639830 TCTTTTCATTTTT-TCATTTCT
1 TCTTTTCATTTTTCT-ATTTTT
* *
5639851 TC-TTCCATTTTTCCA-TTTT
1 TCTTTTCATTTTTCTATTTTT
5639870 TCTTTTCA-TTTTCATCATTTTT
1 TCTTTTCATTTTTC-T-ATTTTT
* *
5639892 T-TTAAATT-TTTTTTC-CTTTTT
1 TCTT---TTCATTTTTCTATTTTT
* * *
5639913 CCATTTCCATTTTCTCTCTTTTT
1 TC-TTTTCATTTT-TCTATTTTT
5639936 TCTTTTCATTTTTCTATTTTT
1 TCTTTTCATTTTTCTATTTTT
5639957 TCATTTT
1 TC-TTTT
5639964 TTTCTCTTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 29
0.67 0.10 0.23
Matches are distributed among these distances:
19 10 0.12
20 15 0.18
21 24 0.28
22 20 0.24
23 9 0.11
24 7 0.08
ACGTcount: A:0.11, C:0.19, G:0.00, T:0.69
Consensus pattern (21 bp):
TCTTTTCATTTTTCTATTTTT
Found at i:5639963 original size:22 final size:23
Alignment explanation
Indices: 5639908--5639963 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
5639898 TTTTTTTTCC
* * *
5639908 TTTTTCCATTTCCATTTTCTCTC
1 TTTTTTCATTTTCATTTTCTCTA
5639931 TTTTTTC-TTTTCATTTT-TCTA
1 TTTTTTCATTTTCATTTTCTCTA
5639952 TTTTTTCATTTT
1 TTTTTTCATTTT
5639964 TTTCTCTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.34
22 13 0.45
23 6 0.21
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTTTCATTTTCATTTTCTCTA
Found at i:5639973 original size:16 final size:15
Alignment explanation
Indices: 5639931--5639974 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
5639921 ATTTTCTCTC
5639931 TTTTTTCTTTTCATT
1 TTTTTTCTTTTCATT
5639946 TTTCTATT-TTTTCATT
1 TTT-T-TTCTTTTCATT
5639962 TTTTTCTCTTTTC
1 TTTTT-TCTTTTC
5639975 TTCTTCAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 1 0.04
15 5 0.20
16 17 0.68
17 2 0.08
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTCTTTTCATT
Found at i:5643374 original size:12 final size:12
Alignment explanation
Indices: 5643357--5643400 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
5643347 CTAAGTTTTC
5643357 CATATATATACA
1 CATATATATACA
5643369 C--ATATATACA
1 CATATATATACA
5643379 CATATATATACA
1 CATATATATACA
*
5643391 TATATATATA
1 CATATATATA
5643401 TGGGAGAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 10 0.34
12 19 0.66
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (12 bp):
CATATATATACA
Found at i:5643398 original size:10 final size:10
Alignment explanation
Indices: 5643360--5643396 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
5643350 AGTTTTCCAT
5643360 ATATATACAC
1 ATATATACAC
5643370 ATATATACAC
1 ATATATACAC
*
5643380 ATATATATAC
1 ATATATACAC
5643390 ATATATA
1 ATATATA
5643397 TATATGGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (10 bp):
ATATATACAC
Found at i:5648102 original size:2 final size:2
Alignment explanation
Indices: 5648095--5648133 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
5648085 GTTTATACTC
*
5648095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5648134 AGCATTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5649303 original size:21 final size:22
Alignment explanation
Indices: 5649263--5649303 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
5649253 ATTTATTAAT
5649263 AAATTCCAAGTTTATCTTTTCG
1 AAATTCCAAGTTTATCTTTTCG
5649285 AAATT-CAA-TTTATTCTTTT
1 AAATTCCAAGTTTA-TCTTTT
5649304 ATAAACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (22 bp):
AAATTCCAAGTTTATCTTTTCG
Found at i:5650203 original size:31 final size:31
Alignment explanation
Indices: 5650165--5650229 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
5650155 CTAATTAATC
5650165 TCTACTAAGTTTGGCATTTTTACATCTACAT
1 TCTACTAAGTTTGGCATTTTTACATCTACAT
5650196 TCTACTAAGTTTGGCATTTTTACATCTACAT
1 TCTACTAAGTTTGGCATTTTTACATCTACAT
5650227 TCT
1 TCT
5650230 TCAAAGATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.46
Consensus pattern (31 bp):
TCTACTAAGTTTGGCATTTTTACATCTACAT
Found at i:5650889 original size:123 final size:123
Alignment explanation
Indices: 5650656--5651112 Score: 639
Period size: 123 Copynumber: 3.7 Consensus size: 123
5650646 CACTCGATGG
* * * *
5650656 ATCAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCATCTGAGGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
5650721 ATGAGAAGAACTTGTTCAACCTTTTACTTGACTCTATCACAGAAGGAGATAAATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAAATCAGC
* * **
5650779 ATCATCATTTCCAGGTAGAGTTCATAATAACAAGAACTCATCTGAAGAGGAAGAAGAAGCACATA
1 ATCAACATTTCCAGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * *
5650844 ATGAGCAGAACTTGTTCAACCTTTTGCGCGACTCTAACACAGAAGGAGATAGATCAGC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAAATCAGC
* * * *
5650902 ATCAATATTTCCAGAG-ATAGTTCATAATGAGAAGAACTCATCTGAAGAGGAGGAAGAAGTTCAT
1 ATCAACATTTCCAG-GTAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
** * *
5650966 AATCTGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAAATCAGT
65 AATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAAATCAGC
* *
5651025 ATCAACATTTTCAGATAGAGTTCATAATGAA-AAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
1 ATCAACATTTCCAGGTAGAGTTCATAAT-AAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* *
5651089 AATGAGAAGAACTTGCTCGACCTT
65 AATGAGAAGAACTTGTTCAACCTT
5651113 AGTTTGATTC
Statistics
Matches: 289, Mismatches: 42, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
123 287 0.99
124 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (123 bp):
ATCAACATTTCCAGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAAATCAGC
Found at i:5651206 original size:140 final size:136
Alignment explanation
Indices: 5651025--5651373 Score: 425
Period size: 140 Copynumber: 2.5 Consensus size: 136
5651015 ATAAATCAGT
* *
5651025 ATCAACATTTTCAGATAGAGTTCATAATGAAAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * ** * * *
5651090 ATGAGAAGAACTTGCTCGACCTTAGTTTGATTCATCACCTATTG-AGTTGAATTAGAGAAGA-AC
65 ATGAGAAGAACTTGCTCAACATTACCTTAATTCATCACATA-TGAAGTTGAA-T-CA-AAGACA-
*
5651153 CTCATTTTAG-GG
125 C-CACTTTAGAGG
* * *
5651165 ATCAATATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
1 ATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
5651230 ATGAGAAGAACTTGTTCAACATTACCTTAATTCATCACATATGAAGTTGAATCAACGACACCACT
65 ATGAGAAGAACTTGCTCAACATTACCTTAATTCATCACATATGAAGTTGAATCAAAGACACCACT
*
5651295 TTCGAGG
130 TTAGAGG
* * *
5651302 ATCAGCATTTCCAGAAGGAGTTCATAATGAGAAAAACTCATTTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAA-GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
5651367 ATGAGAA
65 ATGAGAA
5651374 CTTTTTCAAC
Statistics
Matches: 182, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
136 7 0.04
137 70 0.38
138 2 0.01
139 3 0.02
140 100 0.55
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (136 bp):
ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TGAGAAGAACTTGCTCAACATTACCTTAATTCATCACATATGAAGTTGAATCAAAGACACCACTT
TAGAGG
Found at i:5651500 original size:20 final size:20
Alignment explanation
Indices: 5651436--5651501 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
5651426 CCAGTAGAAG
*
5651436 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAATT
* * * *
5651456 AGTCCA-AAAGAGGAGGAATA
1 AGTTCATAATGA-GAAGAATT
5651476 AGTTCATAATGAGAAGAATT
1 AGTTCATAATGAGAAGAATT
*
5651496 TGTTCA
1 AGTTCA
5651502 ACATTTCCAT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 4 0.12
20 26 0.76
21 4 0.12
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAATT
Found at i:5651639 original size:3 final size:3
Alignment explanation
Indices: 5651631--5651699 Score: 60
Period size: 3 Copynumber: 24.3 Consensus size: 3
5651621 TTTATGCCTT
5651631 TTA TTA TTA TTA TT- TTA TT- TTA TT- TATA TT- TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* *
5651672 TTA TTAA TTA -AA TTA TTA TTA CTA TTA T
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA T
5651700 AGTCCCAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
2 10 0.18
3 41 0.75
4 4 0.07
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5651669 original size:16 final size:17
Alignment explanation
Indices: 5651629--5651676 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
5651619 TTTTTATGCC
5651629 TTTTATTA-TTATTATT
1 TTTTATTATTTATTATT
5651645 TTATT-TTATTTA-TATT
1 TT-TTATTATTTATTATT
5651661 TTTTATTA-TTATTATT
1 TTTTATTATTTATTATT
5651677 AATTAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 5 0.18
16 18 0.64
17 5 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTATTTATTATT
Found at i:5651673 original size:13 final size:14
Alignment explanation
Indices: 5651629--5651673 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
5651619 TTTTTATGCC
5651629 TTTTATTATTATTA
1 TTTTATTATTATTA
5651643 TTTTATT-TTATTTA
1 TTTTATTATTA-TTA
*
5651657 TATTTTTTATTATTA
1 T-TTTATTATTATTA
5651672 TT
1 TT
5651674 ATTAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 3 0.11
14 12 0.44
15 9 0.33
16 3 0.11
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:5656882 original size:2 final size:2
Alignment explanation
Indices: 5656875--5656969 Score: 87
Period size: 2 Copynumber: 49.5 Consensus size: 2
5656865 ATACTTGTGC
*
5656875 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT ACT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* *
5656917 AT AT AT A- AT AT AT AC AT AT AT -T AT AGT AA AT -T AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
5656956 -T AT AT -T CAT AT AT A
1 AT AT AT AT -AT AT AT A
5656970 ATAAATTGAA
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
1 7 0.09
2 65 0.84
3 5 0.06
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:5656959 original size:29 final size:29
Alignment explanation
Indices: 5656874--5656968 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 29
5656864 TATACTTGTG
*
5656874 CATATA-TATA-TATATATATATATATATA
1 CATATATTATACTAAATATATA-ATATATA
* *
5656902 TATATATTATACTAGATATATAATATATA
1 CATATATTATACTAAATATATAATATATA
* *
5656931 CATATATTATAGTAAATTATATAATTATATT
1 CATATATTATACTAAA-TATATAA-TATATA
5656962 CATATAT
1 CATATAT
5656969 AATAAATTGA
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 5 0.09
29 24 0.42
30 16 0.28
31 12 0.21
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (29 bp):
CATATATTATACTAAATATATAATATATA
Found at i:5657036 original size:6 final size:6
Alignment explanation
Indices: 5657025--5657059 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
5657015 ACTTGAGCTA
* *
5657025 AAATTC AAATTC AAATTC AAATTT ACATTC AAATT
1 AAATTC AAATTC AAATTC AAATTC AAATTC AAATT
5657060 AACACTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (6 bp):
AAATTC
Found at i:5658682 original size:22 final size:22
Alignment explanation
Indices: 5658654--5658699 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
5658644 ATTTGTCTGC
5658654 ATCAGGCTTTGATCGTCAGTTT
1 ATCAGGCTTTGATCGTCAGTTT
5658676 ATCAGGCTTTGATCGTCAGTTT
1 ATCAGGCTTTGATCGTCAGTTT
5658698 AT
1 AT
5658700 TAAGGATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (22 bp):
ATCAGGCTTTGATCGTCAGTTT
Found at i:5658928 original size:18 final size:18
Alignment explanation
Indices: 5658884--5658955 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
5658874 TGATACTTTA
* *
5658884 TATAATTATAAATATAAG
1 TATAAGTATATATATAAG
* **
5658902 TGTGTGTATATATATAAG
1 TATAAGTATATATATAAG
5658920 TATAAGTATATAAATATAAAG
1 TATAAGTATAT--ATAT-AAG
*
5658941 TATTAAATATATATA
1 TA-TAAGTATATATA
5658956 AATAAATTAA
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
18 21 0.51
20 7 0.17
21 5 0.12
22 8 0.20
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
TATAAGTATATATATAAG
Found at i:5658929 original size:14 final size:15
Alignment explanation
Indices: 5658912--5658951 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
5658902 TGTGTGTATA
*
5658912 TATATAAGTAT-AAG
1 TATATAAATATAAAG
5658926 TATATAAATATAAAG
1 TATATAAATATAAAG
5658941 TAT-TAAATATA
1 TATATAAATATA
5658952 TATAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
TATATAAATATAAAG
Found at i:5658969 original size:22 final size:22
Alignment explanation
Indices: 5658911--5658970 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
5658901 GTGTGTGTAT
*
5658911 ATATATAAGT-ATAAGTATATAA
1 ATATA-AAGTAATAAATATATAA
*
5658933 ATATAAAGTATTAAATATATATA
1 ATATAAAGTAATAAATATATA-A
*
5658956 A-ATAAATTAATAAAT
1 ATATAAAGTAATAAAT
5658971 TGAAGTATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 4 0.12
22 26 0.81
23 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (22 bp):
ATATAAAGTAATAAATATATAA
Found at i:5658969 original size:36 final size:37
Alignment explanation
Indices: 5658909--5658989 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 37
5658899 AAGTGTGTGT
*
5658909 ATATATATAAGTATAAGTATATAAATATAAAGTATTAA
1 ATATATATAAATATAAGTATATAAAT-TAAAGTATTAA
* *
5658947 ATATATATAAATA-AATTA-ATAAATTGAAGTATTAA
1 ATATATATAAATATAAGTATATAAATTAAAGTATTAA
5658982 AGTATATA
1 A-TATATA
5658990 AATTCAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
35 11 0.28
36 12 0.31
37 4 0.10
38 12 0.31
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (37 bp):
ATATATATAAATATAAGTATATAAATTAAAGTATTAA
Found at i:5659061 original size:23 final size:24
Alignment explanation
Indices: 5658999--5659061 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 24
5658989 AAATTCAAAT
* * *
5658999 TTCATATTTATACTTAAGCTAACA
1 TTCAAATTTATACTTGAGCTAAAA
5659023 TTCAAA-TTATACTTGAGCTAAAA
1 TTCAAATTTATACTTGAGCTAAAA
5659046 TTCAAATTTATA-TTGA
1 TTCAAATTTATACTTGA
5659062 AATTTACATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 25 0.71
24 10 0.29
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (24 bp):
TTCAAATTTATACTTGAGCTAAAA
Found at i:5659090 original size:12 final size:12
Alignment explanation
Indices: 5659049--5659087 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
5659039 GCTAAAATTC
*
5659049 AAATTTATATTG
1 AAATTTACATTG
5659061 AAATTTACATTG
1 AAATTTACATTG
5659073 AAATTTACACTTG
1 AAATTTACA-TTG
5659086 AA
1 AA
5659088 TTTGAAGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 20 0.80
13 5 0.20
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (12 bp):
AAATTTACATTG
Found at i:5659312 original size:24 final size:23
Alignment explanation
Indices: 5659272--5659316 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
5659262 CTTATACATA
5659272 TATATTTTAAATTTTAAGTTAAAT
1 TATATTTTAAATTTTAA-TTAAAT
5659296 TATA-TTTAAATTATTAATTAA
1 TATATTTTAAATT-TTAATTAA
5659317 TTTTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTAAATTTTAATTAAAT
Found at i:5659328 original size:23 final size:23
Alignment explanation
Indices: 5659279--5659328 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
5659269 ATATATATTT
*
5659279 TAAATTTTAAGTTAAATTATATT
1 TAAATTTTAAGTTAAATTATATA
* *
5659302 TAAATTATTAA-TTAATTTTTATA
1 TAAATT-TTAAGTTAAATTATATA
5659325 TAAA
1 TAAA
5659329 AATTAAATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAAATTTTAAGTTAAATTATATA
Found at i:5660184 original size:64 final size:64
Alignment explanation
Indices: 5660063--5660186 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
5660053 ATACAAGTCA
* * * *
5660063 GGTAATACCAGTTATTTACCAGGTTAATCTTGGGTTCGGGTTCATTTCAGTCGGATGCAGATCC
1 GGTAATACCAGTTATTTACCAGGTTAATCTCGGGTTCAGGTTCATCTCAGTCAGATGCAGATCC
**
5660127 GGTAATACCAGTTATTTATTAGGTTAATCTCGGGTTCAGGTTCATCTC-GCTCAGATGCAG
1 GGTAATACCAGTTATTTACCAGGTTAATCTCGGGTTCAGGTTCATCTCAG-TCAGATGCAG
5660187 GTAGGGTTAG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
63 1 0.02
64 52 0.98
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (64 bp):
GGTAATACCAGTTATTTACCAGGTTAATCTCGGGTTCAGGTTCATCTCAGTCAGATGCAGATCC
Found at i:5661610 original size:27 final size:22
Alignment explanation
Indices: 5661558--5661612 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
5661548 ATCAAACAAT
*
5661558 ATCAAGTCAACCGACTTAACTC
1 ATCAAATCAACCGACTTAACTC
5661580 ATCAAATCAACCGACTTAACTC
1 ATCAAATCAACCGACTTAACTC
5661602 ATCAAATCAAC
1 ATCAAATCAAC
5661613 ATTATATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.42, C:0.31, G:0.05, T:0.22
Consensus pattern (22 bp):
ATCAAATCAACCGACTTAACTC
Found at i:5664052 original size:16 final size:16
Alignment explanation
Indices: 5664031--5664079 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
5664021 AGATAGTTTT
5664031 GATTTGAG-TATCTTTC
1 GATTTGAGTTA-CTTTC
5664047 GATTTGAGTTACTTTC
1 GATTTGAGTTACTTTC
*
5664063 GATTTGAGTTGCTTTC
1 GATTTGAGTTACTTTC
5664079 G
1 G
5664080 GTTCATGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 29 0.94
17 2 0.06
ACGTcount: A:0.16, C:0.12, G:0.22, T:0.49
Consensus pattern (16 bp):
GATTTGAGTTACTTTC
Found at i:5664406 original size:16 final size:16
Alignment explanation
Indices: 5664379--5664422 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
5664369 ACCCAAATTG
*
5664379 AAAATGACTTGAA-TC
1 AAAATAACTTGAACTC
*
5664394 AAAAGTAACTTGAACTG
1 AAAA-TAACTTGAACTC
5664411 AAAATAACTTGA
1 AAAATAACTTGA
5664423 GTCGAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 16 0.64
17 5 0.20
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (16 bp):
AAAATAACTTGAACTC
Found at i:5665472 original size:20 final size:20
Alignment explanation
Indices: 5665449--5665488 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
5665439 AAAAACAACA
5665449 CCACCACCACAACTAGCCCT
1 CCACCACCACAACTAGCCCT
5665469 CCACCACCACAACTAGCCCT
1 CCACCACCACAACTAGCCCT
5665489 GGGAACACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.55, G:0.05, T:0.10
Consensus pattern (20 bp):
CCACCACCACAACTAGCCCT
Found at i:5666260 original size:30 final size:30
Alignment explanation
Indices: 5666225--5666285 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
5666215 ATGTTATTTG
5666225 TCATTTAGTTGTTTAGTGATCAATTATGTT
1 TCATTTAGTTGTTTAGTGATCAATTATGTT
* *
5666255 TCATTTAGTTGTTTAGTGGTCAGTTATGTT
1 TCATTTAGTTGTTTAGTGATCAATTATGTT
5666285 T
1 T
5666286 GACACCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.54
Consensus pattern (30 bp):
TCATTTAGTTGTTTAGTGATCAATTATGTT
Found at i:5671774 original size:24 final size:24
Alignment explanation
Indices: 5671747--5671834 Score: 124
Period size: 24 Copynumber: 3.7 Consensus size: 24
5671737 ATTTGAATTT
*
5671747 TGATCTGATACTTGACATGGATTC
1 TGATATGATACTTGACATGGATTC
5671771 TGATATGATA-TCTGACATGGATTC
1 TGATATGATACT-TGACATGGATTC
* * *
5671795 TGATCTGATACTTGACCTGGATTT
1 TGATATGATACTTGACATGGATTC
5671819 TGATATGATACTTGAC
1 TGATATGATACTTGAC
5671835 CTGATTTATG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
23 1 0.02
24 55 0.96
25 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (24 bp):
TGATATGATACTTGACATGGATTC
Found at i:5671796 original size:12 final size:12
Alignment explanation
Indices: 5671759--5671797 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
5671749 ATCTGATACT
5671759 TGACATGGATTC
1 TGACATGGATTC
*
5671771 TGATAT-GATATC
1 TGACATGGAT-TC
5671783 TGACATGGATTC
1 TGACATGGATTC
5671795 TGA
1 TGA
5671798 TCTGATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.13
12 17 0.74
13 3 0.13
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:5673123 original size:30 final size:30
Alignment explanation
Indices: 5673089--5673145 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
5673079 TATCTGTCAT
5673089 TTAGTTGTTTAGTGGTCAGATATGTTTCAA
1 TTAGTTGTTTAGTGGTCAGATATGTTTCAA
* *
5673119 TTAGTTGTTTAGTGGTTAGTTATGTTT
1 TTAGTTGTTTAGTGGTCAGATATGTTT
5673146 AAACACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.04, G:0.25, T:0.53
Consensus pattern (30 bp):
TTAGTTGTTTAGTGGTCAGATATGTTTCAA
Found at i:5675114 original size:32 final size:32
Alignment explanation
Indices: 5675073--5675169 Score: 92
Period size: 32 Copynumber: 3.0 Consensus size: 32
5675063 GGTTTACACG
*
5675073 ACCTAAAAATCAACTGATATGATATTGACTCA
1 ACCTAAAAATCAACTGATATGATATTGAATCA
* * * *
5675105 ACCTAAAAATTAGCTAATATGGTATT-AAGTCA
1 ACCTAAAAATCAACTGATATGATATTGAA-TCA
*
5675137 A-CTCGAAAA-CAGACTGATATGATATTGAATCA
1 ACCT-AAAAATCA-ACTGATATGATATTGAATCA
5675169 A
1 A
5675170 ACCCGAAAAC
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
31 4 0.08
32 45 0.88
33 2 0.04
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.28
Consensus pattern (32 bp):
ACCTAAAAATCAACTGATATGATATTGAATCA
Found at i:5675270 original size:28 final size:28
Alignment explanation
Indices: 5675189--5675275 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
5675179 CTAACCAATT
*
5675189 TGATATTGACCCAACCCGAAGATCGATCGATC
1 TGATATTGACCCAACCCGAA-A---ATTGATC
* ** *
5675221 TAATATTGATCTGAA-CCAAAAATTGATC
1 TGATATTGA-CCCAACCCGAAAATTGATC
5675249 TGATATTGACCCAACCCGAAAATTGAT
1 TGATATTGACCCAACCCGAAAATTGAT
5675276 TTGACCTAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
27 3 0.07
28 25 0.57
31 1 0.02
32 12 0.27
33 3 0.07
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (28 bp):
TGATATTGACCCAACCCGAAAATTGATC
Found at i:5676022 original size:16 final size:16
Alignment explanation
Indices: 5675996--5676033 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5675986 ATAATAAGGG
*
5675996 GAAAAATAAAATAAAT
1 GAAAAATAAAAGAAAT
5676012 -AAAATATAAAAGAAAT
1 GAAAA-ATAAAAGAAAT
5676028 GAAAAA
1 GAAAAA
5676034 AAAGGCTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
15 4 0.21
16 11 0.58
17 4 0.21
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (16 bp):
GAAAAATAAAAGAAAT
Found at i:5676102 original size:29 final size:29
Alignment explanation
Indices: 5676049--5676108 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
5676039 CTAAGGTTTG
* *
5676049 AAATTAAAAAATGTTAAGAAGATAAAATAA
1 AAATTAAAAAAAGTAAAGAAGAT-AAATAA
*
5676079 AAATTAAAAAAAGTAAATAA-ATAAATAA
1 AAATTAAAAAAAGTAAAGAAGATAAATAA
5676107 AA
1 AA
5676109 GGGCCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 8 0.30
29 2 0.07
30 17 0.63
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (29 bp):
AAATTAAAAAAAGTAAAGAAGATAAATAA
Found at i:5677249 original size:17 final size:16
Alignment explanation
Indices: 5677227--5677265 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
5677217 CCTATAAAAG
*
5677227 AAATAATAATAATAATA
1 AAATAATAAT-ACAATA
5677244 AAATAAATAATACAATA
1 AAAT-AATAATACAATA
5677261 AAATA
1 AAATA
5677266 TTTTAATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 13 0.65
18 6 0.30
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAATAATACAATA
Found at i:5678191 original size:106 final size:106
Alignment explanation
Indices: 5677872--5678780 Score: 1469
Period size: 106 Copynumber: 8.6 Consensus size: 106
5677862 GCATTGTTCC
* * * * * * **
5677872 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATCATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * *
5677937 CTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
* *
5677978 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
5678042 CCAGCGGTCCCTTCATTGTGAAGTTGAACATACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
* * *
5678083 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
5678148 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
*
5678189 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
5678254 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
* *
5678295 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGAGAAGTTGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
5678360 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
* *
5678401 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGATATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
5678466 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
*
5678507 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* * *
5678572 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
* * * * *
5678613 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
5678678 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
* * *
5678719 GAGTCCCATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGA
5678781 AAGACAACTT
Statistics
Matches: 756, Mismatches: 46, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
105 94 0.12
106 662 0.88
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
Found at i:5682670 original size:16 final size:16
Alignment explanation
Indices: 5682644--5682681 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5682634 ATAATAAGGG
*
5682644 GAAAAATAAAATAAAT
1 GAAAAATAAAAGAAAT
5682660 -AAAATATAAAAGAAAT
1 GAAAA-ATAAAAGAAAT
5682676 GAAAAA
1 GAAAAA
5682682 AAAGGCTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
15 4 0.21
16 11 0.58
17 4 0.21
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (16 bp):
GAAAAATAAAAGAAAT
Found at i:5682750 original size:29 final size:29
Alignment explanation
Indices: 5682697--5682756 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
5682687 CTAAGGTTTG
* *
5682697 AAATTAAAAAATGTTAAGAAGATAAAATAA
1 AAATTAAAAAAAGTAAAGAAGAT-AAATAA
*
5682727 AAATTAAAAAAAGTAAATAA-ATAAATAA
1 AAATTAAAAAAAGTAAAGAAGATAAATAA
5682755 AA
1 AA
5682757 GGGCCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 8 0.30
29 2 0.07
30 17 0.63
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.22
Consensus pattern (29 bp):
AAATTAAAAAAAGTAAAGAAGATAAATAA
Found at i:5683896 original size:17 final size:16
Alignment explanation
Indices: 5683874--5683912 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
5683864 CCTATAAAAG
*
5683874 AAATAATAATAATAATA
1 AAATAATAAT-ACAATA
5683891 AAATAAATAATACAATA
1 AAAT-AATAATACAATA
5683908 AAATA
1 AAATA
5683913 TTTTAATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 13 0.65
18 6 0.30
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAATAATACAATA
Found at i:5684838 original size:106 final size:106
Alignment explanation
Indices: 5684518--5685425 Score: 1487
Period size: 106 Copynumber: 8.6 Consensus size: 106
5684508 GCATTGTTCC
* * * * * * **
5684518 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATCATTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
5684583 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
*
5684624 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
5684688 CCAGCGGTCCCTTCATTGTGAAGTTGAACATACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
* * *
5684729 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
5684794 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
*
5684835 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
*
5684900 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
* *
5684941 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATATTGAGAAGTTGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
5685006 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
* *
5685047 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGATATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
5685112 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
*
5685153 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
5685218 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
* * * * *
5685258 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTATGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
* *
5685323 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
* * *
5685364 GAGTCCCATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGA
5685426 AAGACAACTT
Statistics
Matches: 759, Mismatches: 41, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
105 197 0.26
106 562 0.74
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTG
Found at i:5689313 original size:16 final size:16
Alignment explanation
Indices: 5689287--5689324 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5689277 ATAATAAGGG
*
5689287 GAAAAATAAAATAAAT
1 GAAAAATAAAAGAAAT
5689303 -AAAATATAAAAGAAAT
1 GAAAA-ATAAAAGAAAT
5689319 GAAAAA
1 GAAAAA
5689325 AAGGCTAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
15 4 0.21
16 11 0.58
17 4 0.21
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (16 bp):
GAAAAATAAAAGAAAT
Found at i:5690523 original size:3 final size:3
Alignment explanation
Indices: 5690515--5690548 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
5690505 CTATAAAAGA
5690515 AAT AAT AAT AAT AAT AAT AAT AA- AATT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT A
5690549 CAATAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.86
4 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5691883 original size:20 final size:20
Alignment explanation
Indices: 5691858--5691909 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
5691848 TATTCACTGG
*
5691858 TAATCTTACATTTCCAATGA
1 TAATCTTACATTACCAATGA
* *
5691878 TAATCTTACATTACCACTGG
1 TAATCTTACATTACCAATGA
5691898 TAATCTTACATT
1 TAATCTTACATT
5691910 CCGTTAACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (20 bp):
TAATCTTACATTACCAATGA
Found at i:5692391 original size:42 final size:42
Alignment explanation
Indices: 5692332--5692446 Score: 221
Period size: 42 Copynumber: 2.7 Consensus size: 42
5692322 CCGAATTTCA
*
5692332 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCC
5692374 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCC
5692416 GTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 GTGTTTGTTTCACGTAATTCGTTTTCCGGAA
5692447 TGTAATTCAT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (42 bp):
GTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTTTTCCC
Found at i:5692679 original size:53 final size:53
Alignment explanation
Indices: 5692620--5692739 Score: 129
Period size: 55 Copynumber: 2.2 Consensus size: 53
5692610 TTTTCATCAA
* **
5692620 AATATTA-A-TTATTAA-AATATTTAAAATATATTTATTAATATTTATAATAATAT
1 AATATTATATTTATTAATAATATATAAAATA-ATCAATT-ATA-TTATAATAATAT
* *
5692673 AATATTATATTTTTTAATATTATATAAAATAATCAATTATATTATAATAATAT
1 AATATTATATTTATTAATAATATATAAAATAATCAATTATATTATAATAATAT
5692726 AAGATATTATATTT
1 -A-ATATTATATTT
5692740 TTATTTTAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
53 19 0.33
54 5 0.09
55 22 0.39
56 11 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (53 bp):
AATATTATATTTATTAATAATATATAAAATAATCAATTATATTATAATAATAT
Found at i:5692682 original size:22 final size:21
Alignment explanation
Indices: 5692635--5692684 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
5692625 TAATTATTAA
*
5692635 AATATTTAAAATATATTTATT
1 AATATTTAAAATATATATATT
*
5692656 AATATTTATAATAATATAATATT
1 AATATTTAAAAT-ATAT-ATATT
5692679 -ATATTT
1 AATATTT
5692685 TTTAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.44
22 10 0.40
23 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTTAAAATATATATATT
Found at i:5692690 original size:23 final size:24
Alignment explanation
Indices: 5692639--5692741 Score: 52
Period size: 23 Copynumber: 4.1 Consensus size: 24
5692629 TATTAAAATA
**
5692639 TTTAA-AATATATTTATTA-ATATT
1 TTTAATAATATAGATATTATAT-TT
*
5692662 TATAATAATATA-ATATTATATTT
1 TTTAATAATATAGATATTATATTT
* *
5692685 TTTAATATTATATA-AAATAATCAATTAT
1 TTTAATA--ATATAGATATTAT--ATT-T
5692713 ATTATAATAATATAAGATATTATATTT
1 -TT-TAATAATAT-AGATATTATATTT
5692740 TT
1 TT
5692742 ATTTTAATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
23 17 0.27
24 8 0.13
25 10 0.16
26 2 0.03
27 4 0.06
28 8 0.13
29 3 0.05
30 10 0.16
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (24 bp):
TTTAATAATATAGATATTATATTT
Found at i:5692712 original size:32 final size:32
Alignment explanation
Indices: 5692646--5692725 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
5692636 ATATTTAAAA
5692646 TATATTTATTAATATTTATAATAATATAATAT
1 TATATTTATTAATATTTATAATAATATAATAT
* *
5692678 TATATTTTTTAATA-TTAT-ATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAATATAAT--AT
*
5692710 TATATTATAATAATAT
1 TATATT-TATTAATAT
5692726 AAGATATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 9 0.22
31 4 0.10
32 21 0.52
33 6 0.15
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAATATAATAT
Found at i:5692769 original size:29 final size:30
Alignment explanation
Indices: 5692709--5692814 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 30
5692699 AAATAATCAA
*
5692709 TTATATTATAATAATATAAGATATTATATT
1 TTATATTTTAATAATATAAGATATTATATT
*
5692739 TT-TATTTTAATAATATACA-ATAATT-TTTT
1 TTATATTTTAATAATATA-AGAT-ATTATATT
5692768 TTATATATTTAATAATGA-ATA-ATATTAT-TT
1 TTATAT-TTTAATAAT-ATA-AGATATTATATT
* *
5692798 ATATATTTCAATAATAT
1 TTATATTTTAATAATAT
5692815 TTTAGTAAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
28 1 0.02
29 29 0.45
30 19 0.30
31 14 0.22
32 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (30 bp):
TTATATTTTAATAATATAAGATATTATATT
Found at i:5692780 original size:28 final size:28
Alignment explanation
Indices: 5692756--5692812 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
5692746 TAATAATATA
* *
5692756 CAATAATTTTTTTTATATATTTAATAAT
1 CAATAATATTATTTATATATTTAATAAT
*
5692784 GAATAATATTATTTATATATTTCAATAAT
1 CAATAATATTATTTATATATTT-AATAAT
5692813 ATTTTAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (28 bp):
CAATAATATTATTTATATATTTAATAAT
Found at i:5693010 original size:20 final size:20
Alignment explanation
Indices: 5692981--5693050 Score: 113
Period size: 20 Copynumber: 3.5 Consensus size: 20
5692971 TTTCCAGATG
5692981 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
5693001 TTTTCTAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
* *
5693021 TTTTACAGAAATGTAATTTA
1 TTTTCCAGAAATGTAATTCA
5693041 TTTTCCAGAA
1 TTTTCCAGAA
5693051 TTCAAATTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:5693059 original size:40 final size:40
Alignment explanation
Indices: 5692981--5693059 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
5692971 TTTCCAGATG
* * **
5692981 TTTTCCAGAAATGTAATTCATTTTCTAGAAATGTAATTCA
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
* *
5693021 TTTTACAGAAATGTAATTTATTTTCCAGAATTCAAATTC
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
5693060 CAGTAATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (40 bp):
TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
Found at i:5693069 original size:15 final size:15
Alignment explanation
Indices: 5693043--5693112 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
5693033 GTAATTTATT
5693043 TTCCAG-AATTCAAA
1 TTCCAGTAATTCAAA
**
5693057 TTCCAGTAATTCATT
1 TTCCAGTAATTCAAA
*
5693072 TTCCAGTAATTTAAA
1 TTCCAGTAATTCAAA
* * *
5693087 TTTCAATGATTCAAA
1 TTCCAGTAATTCAAA
*
5693102 TTCTAGTAATT
1 TTCCAGTAATT
5693113 TATTTTCTGA
Statistics
Matches: 42, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
14 6 0.14
15 36 0.86
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.41
Consensus pattern (15 bp):
TTCCAGTAATTCAAA
Found at i:5693099 original size:30 final size:30
Alignment explanation
Indices: 5693034--5693114 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
5693024 TACAGAAATG
* * *
5693034 TAATTTATTTTCCAG-AATTCAAATTCCAG
1 TAATTCATTTTCCAGTAATTTAAATTCCAA
*
5693063 TAATTCATTTTCCAGTAATTTAAATTTCAA
1 TAATTCATTTTCCAGTAATTTAAATTCCAA
* ** *
5693093 TGATTCAAATTCTAGTAATTTA
1 TAATTCATTTTCCAGTAATTTA
5693115 TTTTCTGAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 14 0.33
30 29 0.67
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (30 bp):
TAATTCATTTTCCAGTAATTTAAATTCCAA
Found at i:5693500 original size:9 final size:9
Alignment explanation
Indices: 5693486--5693514 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
5693476 ATCAAAATAC
5693486 AAAAATCAA
1 AAAAATCAA
5693495 AAAAATCAA
1 AAAAATCAA
5693504 AAAAATCAA
1 AAAAATCAA
5693513 AA
1 AA
5693515 TTTTGAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAATCAA
Found at i:5694747 original size:18 final size:19
Alignment explanation
Indices: 5694705--5694748 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
5694695 TTATTTGACT
* *
5694705 TTATTTATAATTTTTTATA
1 TTATTTATAATTTTTAAAA
5694724 TATATTTATAA-TTTTAAAA
1 T-TATTTATAATTTTTAAAA
5694743 TTATTT
1 TTATTT
5694749 TATATGTCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTTATAATTTTTAAAA
Found at i:5694836 original size:18 final size:18
Alignment explanation
Indices: 5694813--5694847 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5694803 TCCATCCCTG
* *
5694813 TCCCCGTCTTCGTATCCA
1 TCCCCGTATCCGTATCCA
5694831 TCCCCGTATCCGTATCC
1 TCCCCGTATCCGTATCC
5694848 GTACAACATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.46, G:0.11, T:0.31
Consensus pattern (18 bp):
TCCCCGTATCCGTATCCA
Found at i:5696281 original size:200 final size:200
Alignment explanation
Indices: 5695692--5697507 Score: 2705
Period size: 200 Copynumber: 9.1 Consensus size: 200
5695682 ATTAAAATAA
* * * *
5695692 GTGTCGAGACTTGTTGTCCAGAAATGAATGACAAACTAGGTGGACACATAAAGTGTCGAAACATT
1 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATT
* * *
5695757 TAAAATTGTATCGATCCCAAAAATATTGAAACCCATAATTATAATGTAATAGGTAATTTTGGAAT
66 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGAAAT
5695822 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
131 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
5695887 AATTT
196 AATTT
* * * * * *
5695892 GTGTCAATATTTTTTGTCCAG-AATGAATGCCCAAACGAGATGCACGCATAAAGTGTCGATACAT
1 GTGTCGATACTTGTTGTCCAGAAATGAATG-ACAAACTAGGTGCACGCATAAAGTGTCGATACA-
** * * *
5695956 TTATAAAAAAGTATCGATCCC-AAAACATCAAAACCCATAATAATAATGTAATAGGTAATTTTGC
64 TT-TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGA
* * * *
5696020 AATGTAACCGATATAAATATACCAGTTTAATTGGAAAACATGTCAACATAATGTATCGACACTTT
128 AATGTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTT
5696085 TTAAATTT
193 TTAAATTT
*
5696093 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACGCATAAAGTGTAGATACATT
1 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATT
* **
5696158 TAAAATTGTATAGATATCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGAAAT
66 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGAAAT
* * * *
5696223 GTAACTGGTATAAATATACCGGGTTAAATAAAAAACAGGTCAACATAATGTATCGACACTTTTTA
131 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
*
5696288 ATTTT
196 AATTT
* * * *
5696293 GTGTCGATACTTTTTATCCAG-AATGAATGTCCAAACGAGGTGCACGCATAAAGTGTCGATACAT
1 GTGTCGATACTTGTTGTCCAGAAATGAATG-ACAAACTAGGTGCACGCATAAAGTGTCGATACAT
** * *
5696357 TTATAAAAAGTATTGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAATTTT-AC
65 TTA-AAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGA-
* * * *
5696421 AATATAACCGGTATAAATATACCAGTTTAATTAGAAAACAAGTCAACATAATGTATCGACACTTT
128 AATGTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTT
5696486 TTAAATTT
193 TTAAATTT
* *
5696494 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACACATAAAGTATCGATACATT
1 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATT
* *
5696559 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGATAATTTTGCAAT
66 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGAAAT
* *
5696624 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACATTTTTTT
131 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
5696689 AATTT
196 AATTT
* * * * * *
5696694 GTGTCGATATTTTTTGTCCAG-AATGAATGCCCAAACGAGGTGCACGCATAAAGTATCGATATAT
1 GTGTCGATACTTGTTGTCCAGAAATGAATG-ACAAACTAGGTGCACGCATAAAGTGTCGATACAT
** * *
5696758 TTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAAGTAATTTT-AC
65 TTA-AAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGA-
* * *
5696822 AATGTAACCGATATAAATATACCGGTTTAATTGGAAAACATGTCAACATAATGTATCGACACTTT
128 AATGTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTT
5696887 TTAAATTT
193 TTAAATTT
*
5696895 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACGCATAAAGTGTAGATACATT
1 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATT
* ** *
5696960 TAAAATTGTATAGATATCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAAT
66 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGAAAT
* *
5697025 GTAACCGGTATAAATATACCGGGTTAATTAAAAAACAGGTCAACATAATGTATCGACACTTTTTA
131 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
5697090 AATTT
196 AATTT
* * *
5697095 GTGTCGATACTTTTTGTCCAG-AATGAATGTCCAAACGAGGTGCACGCATAAAGTGTCGATACAT
1 GTGTCGATACTTGTTGTCCAGAAATGAATG-ACAAACTAGGTGCACGCATAAAGTGTCGATACAT
* * *
5697159 TTATATAA-AGTATTGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAATTTT-A
65 TTA-A-AATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGA
* * * *
5697222 CAATGTAACCGGTATAAATATACCAGTTTAATTAGAAAACAAGTCAACATAATGCATCGACACTT
128 -AATGTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTT
5697287 TTTAAATTT
192 TTTAAATTT
* *
5697296 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACACATAAAATGTCGATACATT
1 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATT
* *
5697361 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGATAATTTTGCAAT
66 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGAAAT
5697426 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
131 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
5697491 AATTT
196 AATTT
5697496 GTGTCGATACTT
1 GTGTCGATACTT
5697508 TTTTAAATTT
Statistics
Matches: 1446, Mismatches: 148, Indels: 44
0.88 0.09 0.03
Matches are distributed among these distances:
199 47 0.03
200 681 0.47
201 668 0.46
202 50 0.03
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (200 bp):
GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATT
TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGAAAT
GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
AATTT
Found at i:5696414 original size:401 final size:401
Alignment explanation
Indices: 5695692--5697510 Score: 3091
Period size: 401 Copynumber: 4.5 Consensus size: 401
5695682 ATTAAAATAA
* * *
5695692 GTGTCGAGACTTGTTGTCCAGAAATGAATGACAAACTAGGTGGACACATAAAGTGTCGAAACATT
1 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACACATAAAGTGTCGATACATT
* * *
5695757 TAAAATTGTATCGATCCCAAAAATATTGAAACCCATAATTATAATGTAATAGGTAATTTTGGAAT
66 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAAT
5695822 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
131 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
* * *
5695887 AATTTGTGTCAATATTTTTTGTCCAGAATGAATGCCCAAACGAGATGCACGCATAAAGTGTCGAT
196 AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGAT
*
5695952 ACATTTATAAAAAAGTATCGATCCC-AAAACATCAAAACCCATAATAATAATGTAATAGGTAATT
261 ACATTTAT-AAAAAGTATCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAGGTAATT
* * *
5696016 TTGCAATGTAACCGATATAAATATACCAGTTTAATTGGAAAACATGTCAACATAATGTATCGACA
325 TTACAATGTAACCGATATAAATATACCAGTTTAATTAGAAAACAAGTCAACATAATGTATCGACA
5696081 CTTTTTAAATTT
390 CTTTTTAAATTT
* *
5696093 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACGCATAAAGTGTAGATACATT
1 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACACATAAAGTGTCGATACATT
* ** *
5696158 TAAAATTGTATAGATATCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGAAAT
66 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAAT
* * * *
5696223 GTAACTGGTATAAATATACCGGGTTAAATAAAAAACAGGTCAACATAATGTATCGACACTTTTTA
131 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
* * *
5696288 ATTTTGTGTCGATACTTTTTATCCAGAATGAATGTCCAAACGAGGTGCACGCATAAAGTGTCGAT
196 AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGAT
* * *
5696353 ACATTTATAAAAAGTATTGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAATTT
261 ACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAGGTAATTT
* *
5696418 TACAATATAACCGGTATAAATATACCAGTTTAATTAGAAAACAAGTCAACATAATGTATCGACAC
326 TACAATGTAACCGATATAAATATACCAGTTTAATTAGAAAACAAGTCAACATAATGTATCGACAC
5696483 TTTTTAAATTT
391 TTTTTAAATTT
*
5696494 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACACATAAAGTATCGATACATT
1 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACACATAAAGTGTCGATACATT
*
5696559 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGATAATTTTGCAAT
66 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAAT
* *
5696624 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACATTTTTTT
131 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
* *
5696689 AATTTGTGTCGATATTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTATCGAT
196 AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGAT
* *
5696754 ATATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAAGTAATTT
261 ACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAGGTAATTT
* * *
5696819 TACAATGTAACCGATATAAATATACCGGTTTAATTGGAAAACATGTCAACATAATGTATCGACAC
326 TACAATGTAACCGATATAAATATACCAGTTTAATTAGAAAACAAGTCAACATAATGTATCGACAC
5696884 TTTTTAAATTT
391 TTTTTAAATTT
* *
5696895 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACGCATAAAGTGTAGATACATT
1 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACACATAAAGTGTCGATACATT
* ** *
5696960 TAAAATTGTATAGATATCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAAT
66 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAAT
* *
5697025 GTAACCGGTATAAATATACCGGGTTAATTAAAAAACAGGTCAACATAATGTATCGACACTTTTTA
131 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
*
5697090 AATTTGTGTCGATACTTTTTGTCCAGAATGAATGTCCAAACGAGGTGCACGCATAAAGTGTCGAT
196 AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGAT
* * * *
5697155 ACATTTATATAAAGTATTGATCCCAAAAATATCGAAACCCATAATTATAATGTAATAGGTAATTT
261 ACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAGGTAATTT
* *
5697220 TACAATGTAACCGGTATAAATATACCAGTTTAATTAGAAAACAAGTCAACATAATGCATCGACAC
326 TACAATGTAACCGATATAAATATACCAGTTTAATTAGAAAACAAGTCAACATAATGTATCGACAC
5697285 TTTTTAAATTT
391 TTTTTAAATTT
*
5697296 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACACATAAAATGTCGATACATT
1 GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACACATAAAGTGTCGATACATT
*
5697361 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGATAATTTTGCAAT
66 TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAAT
5697426 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
131 GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
5697491 AATTTGTGTCGATACTTTTT
196 AATTTGTGTCGATACTTTTT
5697511 TAAATTTCGC
Statistics
Matches: 1322, Mismatches: 95, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
400 15 0.01
401 1307 0.99
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (401 bp):
GTGTCGATACTTGTTGTCCAGAAATGAATGACAAACTAGGTGCACACATAAAGTGTCGATACATT
TAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAAT
GTAACCGGTATAAATATACCGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTA
AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGGTGCACGCATAAAGTGTCGAT
ACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATAATAATGTAATAGGTAATTT
TACAATGTAACCGATATAAATATACCAGTTTAATTAGAAAACAAGTCAACATAATGTATCGACAC
TTTTTAAATTT
Found at i:5697835 original size:15 final size:15
Alignment explanation
Indices: 5697815--5697909 Score: 127
Period size: 15 Copynumber: 6.1 Consensus size: 15
5697805 GTCTTTCTCA
5697815 AAGCTCTTCTCAACC
1 AAGCTCTTCTCAACC
* *
5697830 AAGCTCTTTTCATCC
1 AAGCTCTTCTCAACC
5697845 AAGCTCTTCTCAACC
1 AAGCTCTTCTCAACC
*
5697860 AAGCTCTTTTCAACC
1 AAGCTCTTCTCAACC
5697875 AAGCTCTTCTCAACCAC
1 AAGCTCTTCTCAA-C-C
*
5697892 AACCTCCTTCTCAACC
1 AAGCT-CTTCTCAACC
5697908 AA
1 AA
5697910 TCGATTATTC
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
15 52 0.74
16 4 0.06
17 6 0.09
18 8 0.11
ACGTcount: A:0.27, C:0.39, G:0.05, T:0.28
Consensus pattern (15 bp):
AAGCTCTTCTCAACC
Found at i:5697849 original size:30 final size:30
Alignment explanation
Indices: 5697815--5697890 Score: 143
Period size: 30 Copynumber: 2.5 Consensus size: 30
5697805 GTCTTTCTCA
*
5697815 AAGCTCTTCTCAACCAAGCTCTTTTCATCC
1 AAGCTCTTCTCAACCAAGCTCTTTTCAACC
5697845 AAGCTCTTCTCAACCAAGCTCTTTTCAACC
1 AAGCTCTTCTCAACCAAGCTCTTTTCAACC
5697875 AAGCTCTTCTCAACCA
1 AAGCTCTTCTCAACCA
5697891 CAACCTCCTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.26, C:0.37, G:0.07, T:0.30
Consensus pattern (30 bp):
AAGCTCTTCTCAACCAAGCTCTTTTCAACC
Found at i:5702411 original size:199 final size:199
Alignment explanation
Indices: 5702071--5703210 Score: 1667
Period size: 199 Copynumber: 5.7 Consensus size: 199
5702061 TTTATTAAAA
* *
5702071 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACCG
* * * *
5702136 GTAGATATATACTGATTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTATAAATTTGT
66 GTATAAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGT
*
5702201 GTCGATACTTTTTTTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAA
131 GTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAA
5702266 AATT
196 AATT
* **
5702270 GTATCGATTCCAAAAACATCGAAACCCATAATTATAATGTAATATATAACTTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACCG
* * * *
5702335 GTATAAATACACTGGTTTTATGAGAAAATATGTCTACATAATGTATCGACACGTTTTAATTTTGT
66 GTATAAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGT
* * * ** **
5702400 GTCGATACTTTTTGTCTAGAATGAATGACAAAATAGGTGCACATATAAAGTGTCGATACATTTAA
131 GTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAA
5702465 AATT
196 AATT
* * *
5702469 GTATCGATCCCAAAAAAGATCGAAACCCATAATTATAATATAATATGTAACTTTACAATGTAACC
1 GTATCGATCCC-AAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACC
* *
5702534 GGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTATAAATTTG
65 GGTATAAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTG
*
5702599 TGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAGGCATAAAGTGTC-ACTACATTT
130 TGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA-TACATTT
5702663 AAAATT
194 AAAATT
* *
5702669 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAAGTAACTTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACCG
* * *
5702734 GTATAAATATACTAGTTTTATGAGAAAATAAGTCTACATAATGTATCGATACTTTTTAAATTTGT
66 GTATAAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGT
*
5702799 GTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCATGCATAAAGTGTCGATACATTTAA
131 GTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAA
5702864 AATT
196 AATT
* * **
5702868 GTATCGATCCCAAAAACATCGAAACCGATAATTATATTGTAATAGGTAACTTTACAATGTAACTT
1 GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACCG
* * * * * *
5702933 GTATAAATACA-TCGGTTTAATTAGAAAATAGGTCAACATAATCTATCGATACTTTTTAAATTTG
66 GTATAAATATACT-GGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTG
* * * *
5702997 TATCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTA
130 TGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA
5703062 TTAAATT
195 --AAATT
* * **
5703069 -TATCGATCCCAAAGACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACTA
1 GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACCG
* * * * * *
5703133 GTAGAAACATACCGGTATAATTAGAAAATAGGT-TAACATAATGTATCGACACTTTTTAAATTTG
66 GTATAAATATACTGGTTTTATGAGAAAATAGGTCT-ACATAATGTATCGACACTTTTTAAATTTG
* *
5703197 TATCGATATTTTTT
130 TGTCGATACTTTTT
5703211 TAAATTACGT
Statistics
Matches: 854, Mismatches: 79, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
198 1 0.00
199 541 0.63
200 307 0.36
201 5 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (199 bp):
GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACCG
GTATAAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGT
GTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAA
AATT
Found at i:5702800 original size:399 final size:398
Alignment explanation
Indices: 5702071--5703210 Score: 1694
Period size: 399 Copynumber: 2.9 Consensus size: 398
5702061 TTTATTAAAA
*
5702071 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAACTTTACAATGTAACCG
* * * *
5702136 GTAGATATATACTGATTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTATAAATTTGT
66 GTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTATAAATTTGT
*
5702201 GTCGATACTTTTTTTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAA
131 GTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAA
*
5702266 AATTGTATCGATTCCAAAAACATCGAAACCCATAATTATAATGTAATATA-TAACTTTACAATGT
196 AATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA-AGTAACTTTACAATGT
* * * *
5702330 AACCGGTATAAATACACTGGTTTTATGAGAAAATATGTCTACATAATGTATCGACACGTTTTAAT
260 AACCGGTATAAATATACTGGTTTTATGAGAAAATAAGTCTACATAATGTATCGACACTTTTTAAA
* * *
5702395 TTTGTGTCGATACTTTTTGTCTAGAATGAATGACAAAATAGGTGCACATATAAAGTGTCGATACA
325 TTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAAAGAGGTGCACACATAAAGTGTCGATACA
5702460 TTTAAAATT
390 TTTAAAATT
* * * *
5702469 GTATCGATCCCAAAAAAGATCGAAACCCATAATTATAATATAATATGTAACTTTACAATGTAACC
1 GTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAATAGGTAACTTTACAATGTAACC
5702534 GGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTATAAATTTG
65 GGTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTATAAATTTG
*
5702599 TGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCAGGCATAAAGTGTC-ACTACATTT
130 TGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGA-TACATTT
*
5702663 AAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAAGTAACTTTACAATG
194 AAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAAGTAACTTTACAATG
* *
5702728 TAACCGGTATAAATATACTAGTTTTATGAGAAAATAAGTCTACATAATGTATCGATACTTTTTAA
259 TAACCGGTATAAATATACTGGTTTTATGAGAAAATAAGTCTACATAATGTATCGACACTTTTTAA
* * * **
5702793 ATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCATGCATAAAGTGTCGATAC
324 ATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAAAGAGGTGCACACATAAAGTGTCGATAC
5702858 ATTTAAAATT
389 ATTTAAAATT
* **
5702868 GTATCGATCCCAAAAACATCGAAACCGATAATTATATTGTAATAGGTAACTTTACAATGTAACTT
1 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAACTTTACAATGTAACCG
* * * * * * * *
5702933 GTATAAATACATCGGTTTAATTAGAAAATAGGTCAACATAATCTATCGATACTTTTTAAATTTGT
66 GTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTATAAATTTGT
* * * *
5702998 ATCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACACATAAAGTGTCGATACATTTAT
131 GTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA-
* * *
5703063 TAAATT-TATCGATCCCAAAGACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATG
195 -AAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAAGTAACTTTACAATG
** * * * * * * *
5703127 TAACTAGTAGAAACATACCGGTATAATTAGAAAATAGGT-TAACATAATGTATCGACACTTTTTA
259 TAACCGGTATAAATATACTGGTTTTATGAGAAAATAAGTCT-ACATAATGTATCGACACTTTTTA
* *
5703191 AATTTGTATCGATATTTTTT
323 AATTTGTGTCGATACTTTTT
5703211 TAAATTACGT
Statistics
Matches: 671, Mismatches: 64, Indels: 13
0.90 0.09 0.02
Matches are distributed among these distances:
398 175 0.26
399 491 0.73
400 5 0.01
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (398 bp):
GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAACTTTACAATGTAACCG
GTATAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTATAAATTTGT
GTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTAA
AATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAAGTAACTTTACAATGTA
ACCGGTATAAATATACTGGTTTTATGAGAAAATAAGTCTACATAATGTATCGACACTTTTTAAAT
TTGTGTCGATACTTTTTGTCCAGAATGAATGACAAAAGAGGTGCACACATAAAGTGTCGATACAT
TTAAAATT
Found at i:5703198 original size:21 final size:22
Alignment explanation
Indices: 5703174--5703216 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5703164 GTTAACATAA
5703174 TGTATCGACA-CTTTTTAAATT
1 TGTATCGACATCTTTTTAAATT
* *
5703195 TGTATCGATATTTTTTTAAATT
1 TGTATCGACATCTTTTTAAATT
5703217 ACGTGTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.53
Consensus pattern (22 bp):
TGTATCGACATCTTTTTAAATT
Found at i:5706725 original size:200 final size:199
Alignment explanation
Indices: 5706261--5706953 Score: 937
Period size: 200 Copynumber: 3.5 Consensus size: 199
5706251 AACATATTTT
* *
5706261 TCGATACATTT-TCTAAAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATAGG
1 TCGATACATTTAT-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGG
* * * * * *
5706325 TAAATTAACAATGTAACCGGTATAAATACACC-GATTAATTAGAAAACAGGTCAACATAATGTAT
65 TAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCAACATAATGTAT
* ** * *
5706389 CGACACTTGTGGAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCCAAACGAGGTACACAC
130 CGACACTTTTTAAATTTGTGTCGATACTT-TTGTCCAGAATGAATG--CCAAACGAGGTGCACTC
5706454 ATAAAGTG
192 ATAAAGTG
* *
5706462 TTGATATATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
1 TCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
** *
5706527 AAATTTACAACATAACCGGTATAAATATACCAGTTTTATGAGAGAATAGGTCAACATAATGTATC
66 AAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCAACATAATGTATC
* *
5706592 GACATTTTTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGCCAAACGAGGTGCACTCATA
131 GACACTTTTTAAATTTGTGTCGATAC-TTTTGTCCAGAATGAATGCCAAACGAGGTGCACTCATA
*
5706657 ATGTG
195 AAGTG
* * * *
5706662 TCGATACATTTATTAAAAGTATCGATCCTAAAAATATCGAAACCGACAATTACAATGTAATAGGT
1 TCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
* * * * *
5706727 AAATTTACAATGTACCCAGCAGAAATATACCAGTTTTATGAGAAAATAGGTCTACATAATGTATC
66 AAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCAACATAATGTATC
* * * *
5706792 GACACTTTTTAAGTTTGTGTCGATATTTTTTTCCAGAATGAATGCCCAACGAGGTGCA-TGCATA
131 GACACTTTTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAACGAGGTGCACT-CATA
5706856 AAGTG
195 AAGTG
* *
5706861 TCGATACATTTA--AAATTGTATCGATCCCAAAAATATCGAAACCGATAATTATAATGTAATAGG
1 TCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGG
* * *
5706924 TAAATTTGCAATGTTATCGGTATAAATATA
65 TAAATTTACAATGTAACCGGTATAAATATA
5706954 TTAGTTTAGT
Statistics
Matches: 434, Mismatches: 53, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
197 3 0.01
198 67 0.15
199 49 0.11
200 161 0.37
201 86 0.20
202 66 0.15
203 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (199 bp):
TCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
AAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCAACATAATGTATC
GACACTTTTTAAATTTGTGTCGATACTTTTGTCCAGAATGAATGCCAAACGAGGTGCACTCATAA
AGTG
Found at i:5707048 original size:23 final size:23
Alignment explanation
Indices: 5706978--5707039 Score: 115
Period size: 23 Copynumber: 2.7 Consensus size: 23
5706968 AAATGGGTCA
5706978 ATATAAGCGCTGCCTATTACATT
1 ATATAAGCGCTGCCTATTACATT
*
5707001 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTGCCTATTACATT
5707024 ATATAAGCGCTGCCTA
1 ATATAAGCGCTGCCTA
5707040 ATATGTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (23 bp):
ATATAAGCGCTGCCTATTACATT
Found at i:5707089 original size:87 final size:87
Alignment explanation
Indices: 5706988--5707163 Score: 289
Period size: 87 Copynumber: 2.0 Consensus size: 87
5706978 ATATAAGCGC
* * *
5706988 TGCCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGCTGCCTAATATGTTATTGTA
1 TGCCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGCTACATAATATATTATTGTA
*
5707053 CTTGATAATATTTCCGGTTAAA
66 CTTGATAATATTTCCGATTAAA
**
5707075 TGCCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGCTACATAATATATTATTGTA
1 TGCCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGCTACATAATATATTATTGTA
*
5707140 CTTGATAATATTTTCGATTAAA
66 CTTGATAATATTTCCGATTAAA
5707162 TG
1 TG
5707164 ATATAACATA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.41
Consensus pattern (87 bp):
TGCCTATTACATTATATAAGCGCTACCTATTACATTATATAAGCGCTACATAATATATTATTGTA
CTTGATAATATTTCCGATTAAA
Found at i:5707134 original size:23 final size:23
Alignment explanation
Indices: 5707084--5707135 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
5707074 ATGCCTATTT
* *
5707084 TATTATATAAGCGCTACCTATTA
1 TATTATATAAGCGCTACATAATA
*
5707107 CATTATATAAGCGCTACATAATA
1 TATTATATAAGCGCTACATAATA
5707130 TATTAT
1 TATTAT
5707136 TGTACTTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (23 bp):
TATTATATAAGCGCTACATAATA
Found at i:5707278 original size:3 final size:3
Alignment explanation
Indices: 5707270--5707298 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5707260 TCGGTTTCAA
5707270 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5707299 AATGAGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5708841 original size:26 final size:26
Alignment explanation
Indices: 5708774--5708842 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
5708764 TTTATGATCT
* *
5708774 TTTTAATTTGCTCTTAATCTTTATTCC
1 TTTTAATTTACT-TTAACCTTTATTCC
*
5708801 TTTTAATTTATTTTAACCTTT-TATCC
1 TTTTAATTTACTTTAACCTTTAT-TCC
*
5708827 TTTTAATTTCCTTTAA
1 TTTTAATTTACTTTAA
5708843 ATTCTTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.03
26 25 0.69
27 10 0.28
ACGTcount: A:0.22, C:0.16, G:0.01, T:0.61
Consensus pattern (26 bp):
TTTTAATTTACTTTAACCTTTATTCC
Found at i:5708850 original size:26 final size:26
Alignment explanation
Indices: 5708793--5708850 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
5708783 GCTCTTAATC
* *
5708793 TTTATTCCTTTTAATTTATTTTAACCT
1 TTTA-TCCTTTTAATTTACTTTAACAT
*
5708820 TTTATCCTTTTAATTTCCTTTAA-AT
1 TTTATCCTTTTAATTTACTTTAACAT
5708845 TCTTAT
1 T-TTAT
5708851 TTCCTCTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.07
26 21 0.78
27 4 0.15
ACGTcount: A:0.22, C:0.16, G:0.00, T:0.62
Consensus pattern (26 bp):
TTTATCCTTTTAATTTACTTTAACAT
Found at i:5708863 original size:16 final size:17
Alignment explanation
Indices: 5708832--5708864 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5708822 TATCCTTTTA
*
5708832 ATTTCCTTTAAATTCTT
1 ATTTCCTCTAAATTCTT
5708849 ATTTCCTCT-AATTCTT
1 ATTTCCTCTAAATTCTT
5708865 TTAATCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTCCTCTAAATTCTT
Found at i:5711508 original size:21 final size:22
Alignment explanation
Indices: 5711484--5711528 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
5711474 GTCTATAGAG
5711484 AGTCATAGGAGAAT-AAATATA
1 AGTCATAGGAGAATGAAATATA
* *
5711505 AGTCATATGATAATGAAATATA
1 AGTCATAGGAGAATGAAATATA
5711527 AG
1 AG
5711529 ACTATGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (22 bp):
AGTCATAGGAGAATGAAATATA
Found at i:5716438 original size:21 final size:22
Alignment explanation
Indices: 5716414--5716458 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
5716404 GTCTATAGAG
5716414 AGTCATAGGAGAAT-AAATATA
1 AGTCATAGGAGAATGAAATATA
* *
5716435 AGTCATATGATAATGAAATATA
1 AGTCATAGGAGAATGAAATATA
5716457 AG
1 AG
5716459 ACTATGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (22 bp):
AGTCATAGGAGAATGAAATATA
Found at i:5717385 original size:23 final size:20
Alignment explanation
Indices: 5717337--5717391 Score: 56
Period size: 23 Copynumber: 2.6 Consensus size: 20
5717327 GGGTCTACGC
*
5717337 GGTCCTTCGGGATATATAGT
1 GGTCATTCGGGATATATAGT
*
5717357 GATCATTCGGGATATTTCATAGT
1 GGTCATTCGGGATA--T-ATAGT
*
5717380 GGTCATTTGGGA
1 GGTCATTCGGGA
5717392 CAAATTTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 12 0.43
22 1 0.04
23 15 0.54
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (20 bp):
GGTCATTCGGGATATATAGT
Found at i:5720547 original size:21 final size:19
Alignment explanation
Indices: 5720514--5720557 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
5720504 CTAATATTAA
* *
5720514 AATTAAACTTTAGCTTTTTT
1 AATTAAACCTTAG-ATTTTT
5720534 AATTAAAACCTTAGATTTTT
1 AATT-AAACCTTAGATTTTT
5720554 AATT
1 AATT
5720558 CTTTAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (19 bp):
AATTAAACCTTAGATTTTT
Found at i:5720850 original size:3 final size:3
Alignment explanation
Indices: 5720844--5720877 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
5720834 ATAATAATCA
5720844 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
5720878 TACAGGTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:5723368 original size:131 final size:129
Alignment explanation
Indices: 5723122--5723483 Score: 354
Period size: 131 Copynumber: 2.8 Consensus size: 129
5723112 TGATATAGAG
* * * * *
5723122 AATAGTAATATCTTTTCA-TGCCACTTGGAGTAATAAATGAATGCTTTAAGGATGAGAGGTCATT
1 AATAGTAATATCTCTTCATTTCGA-TTGGAGCAATAAATGAATGCTTTAAGGATGAGAAGTCA-T
* * * ** ** *
5723186 TATTCTTGATTGGAAATAATTCGATATTACCGTTTTCTCTTGAATCAATATTGCTTTTTAAGATT
64 TATTCTTGATTGGAAATAATTAGATATTATCGTTTTCACTCAAATCAATATTGAATTTTAAGA-C
5723251 G-
128 GA
* * * *
5723252 AATAGTGATATCTCTTTATTTCGATTTGAGCAATAAATGACTGCTTTAAGGTATGAGAAGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGCAATAAATGAATGCTTTAAGG-ATGAGAAGTCATT
* ** **
5723317 CATTCTTGATTGGAAATCATTAGATATTATTTTTTTCACTCAAATTGATATTGAATTTTAAGACG
65 -ATTCTTGATTGGAAATAATTAGATATTATCGTTTTCACTCAAATCAATATTGAATTTTAAGACG
5723382 A
129 A
* * * * *
5723383 AATAGTAATATCTCTTCATTTCGATTGGAGTAATATATGATTGTTTTTAGGCATGA-AAGGTCAT
1 AATAGTAATATCTCTTCATTTCGATTGGAGCAATAAATGAATGCTTTAAGG-ATGAGAA-GTCAT
* * *
5723447 TATGT-TCGATTGGAAATAATTAAATATTATCATTTTC
64 TAT-TCTTGATTGGAAATAATTAGATATTATCGTTTTC
5723484 TTTCTTAAAA
Statistics
Matches: 190, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
130 73 0.38
131 117 0.62
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.41
Consensus pattern (129 bp):
AATAGTAATATCTCTTCATTTCGATTGGAGCAATAAATGAATGCTTTAAGGATGAGAAGTCATTA
TTCTTGATTGGAAATAATTAGATATTATCGTTTTCACTCAAATCAATATTGAATTTTAAGACGA
Found at i:5732865 original size:2 final size:2
Alignment explanation
Indices: 5732858--5732889 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
5732848 AACAATATGA
5732858 AT AT AT AT AT AT AT AT AT AT AT -T AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5732890 GGTTAGAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:5745982 original size:9 final size:9
Alignment explanation
Indices: 5745968--5746023 Score: 58
Period size: 10 Copynumber: 5.8 Consensus size: 9
5745958 ACCGCAGTCC
5745968 AAAAGAAGA
1 AAAAGAAGA
5745977 AAAAGAAAGA
1 AAAAG-AAGA
*
5745987 AAAGAAAATGA
1 AAA-AGAA-GA
*
5745998 AAAAGAAAA
1 AAAAGAAGA
5746007 AAAAGGAAGA
1 AAAA-GAAGA
5746017 AAAAGAA
1 AAAAGAA
5746024 ACAAAAACAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 13 0.33
10 20 0.51
11 6 0.15
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (9 bp):
AAAAGAAGA
Found at i:5745984 original size:6 final size:6
Alignment explanation
Indices: 5745973--5746042 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 6
5745963 AGTCCAAAAG
*
5745973 AAGAAA AAG--A AAG-AA AAGAAA ATGAAA AAGAAA AA-AAA GGAAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA --AAGAAA
* *
5746019 AAGAAA CAA-AAA CAGAAA CAGAAA
1 AAGAAA -AAGAAA AAGAAA AAGAAA
5746043 GAAAAAACCA
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
4 4 0.07
5 8 0.15
6 35 0.65
7 4 0.07
8 3 0.06
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.01
Consensus pattern (6 bp):
AAGAAA
Found at i:5745989 original size:18 final size:18
Alignment explanation
Indices: 5745968--5746047 Score: 81
Period size: 18 Copynumber: 4.2 Consensus size: 18
5745958 ACCGCAGTCC
5745968 AAAAGAAGAAAAAGAAAG
1 AAAAGAAGAAAAAGAAAG
*
5745986 AAAAGAAAATGAAAAAGAAAA
1 AAAAG--AA-GAAAAAGAAAG
*
5746007 AAAAGGAAGAAAAAGAAAC
1 AAAA-GAAGAAAAAGAAAG
*
5746026 AAAA-ACAGAAACAGAAAG
1 AAAAGA-AGAAAAAGAAAG
5746044 AAAA
1 AAAA
5746048 AACCAAAGTG
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.02
18 19 0.36
19 14 0.26
20 4 0.08
21 14 0.26
22 1 0.02
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.01
Consensus pattern (18 bp):
AAAAGAAGAAAAAGAAAG
Found at i:5746001 original size:21 final size:19
Alignment explanation
Indices: 5745968--5746048 Score: 76
Period size: 19 Copynumber: 4.2 Consensus size: 19
5745958 ACCGCAGTCC
*
5745968 AAAAG-AAGAAAAAGAAAG
1 AAAAGAAAGAAAAAGAAAA
5745986 AAAAGAAAATGAAAAAGAAAA
1 AAAAG-AAA-GAAAAAGAAAA
* *
5746007 AAAAGGAAGAAAAAGAAAC
1 AAAAGAAAGAAAAAGAAAA
* *
5746026 AAAA-ACAGAAACAGAAAGA
1 AAAAGAAAGAAAAAGAAA-A
5746045 AAAA
1 AAAA
5746049 ACCAAAGTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
18 15 0.29
19 18 0.35
20 4 0.08
21 15 0.29
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.01
Consensus pattern (19 bp):
AAAAGAAAGAAAAAGAAAA
Done.