Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 40 of 75
Found at i:12739598 original size:17 final size:18
Alignment explanation
Indices: 12739576--12739609 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12739566 GAACTTATCA
*
12739576 AAATTAAGTTA-AAAAGG
1 AAATTAAATTAGAAAAGG
12739593 AAATTAAATTAGAAAAG
1 AAATTAAATTAGAAAAG
12739610 TAATATATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (18 bp):
AAATTAAATTAGAAAAGG
Found at i:12739724 original size:21 final size:21
Alignment explanation
Indices: 12739700--12739742 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
12739690 TTACAACAAA
*
12739700 ATTTTAAACATTTTA-GTTATT
1 ATTTTAAA-ATTTAAGGTTATT
12739721 ATTTTAAAATTTAAGGTTATT
1 ATTTTAAAATTTAAGGTTATT
12739742 A
1 A
12739743 CATATGCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (21 bp):
ATTTTAAAATTTAAGGTTATT
Found at i:12740041 original size:21 final size:21
Alignment explanation
Indices: 12739982--12740044 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
12739972 TCTTTAATTC
*
12739982 TTTTTTATATA-TTA-TTTAT
1 TTTTTTATAAATTTATTTTAT
* * * *
12740001 TCATTTAATAATTTTCTTTTAT
1 T-TTTTTATAAATTTATTTTAT
12740023 TTTTTTATAAATTTATTTTAT
1 TTTTTTATAAATTTATTTTAT
12740044 T
1 T
12740045 AAAATTTAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 1 0.03
20 6 0.19
21 19 0.59
22 6 0.19
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTTATAAATTTATTTTAT
Found at i:12740049 original size:15 final size:16
Alignment explanation
Indices: 12740018--12740052 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12740008 ATAATTTTCT
*
12740018 TTTATTTTTTTATAAA
1 TTTATTTTATTATAAA
12740034 TTTATTTTATTA-AAA
1 TTTATTTTATTATAAA
12740049 TTTA
1 TTTA
12740053 AACATAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATTTTATTATAAA
Found at i:12749825 original size:17 final size:18
Alignment explanation
Indices: 12749803--12749836 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
12749793 GAACTTATCA
*
12749803 AAATTAAGTTA-AAAAGG
1 AAATTAAATTAGAAAAGG
12749820 AAATTAAATTAGAAAAG
1 AAATTAAATTAGAAAAG
12749837 TAATATATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (18 bp):
AAATTAAATTAGAAAAGG
Found at i:12749951 original size:21 final size:21
Alignment explanation
Indices: 12749927--12749969 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
12749917 TTACAACAAA
*
12749927 ATTTTAAACATTTTA-GTTATT
1 ATTTTAAA-ATTTAAGGTTATT
12749948 ATTTTAAAATTTAAGGTTATT
1 ATTTTAAAATTTAAGGTTATT
12749969 A
1 A
12749970 CATATGCATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.53
Consensus pattern (21 bp):
ATTTTAAAATTTAAGGTTATT
Found at i:12750268 original size:21 final size:21
Alignment explanation
Indices: 12750209--12750271 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
12750199 TCTTTAATTC
*
12750209 TTTTTTATATA-TTA-TTTAT
1 TTTTTTATAAATTTATTTTAT
* * * *
12750228 TCATTTAATAATTTTCTTTTAT
1 T-TTTTTATAAATTTATTTTAT
12750250 TTTTTTATAAATTTATTTTAT
1 TTTTTTATAAATTTATTTTAT
12750271 T
1 T
12750272 AAAATTTAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 1 0.03
20 6 0.19
21 19 0.59
22 6 0.19
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTTATAAATTTATTTTAT
Found at i:12750276 original size:15 final size:16
Alignment explanation
Indices: 12750245--12750279 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12750235 ATAATTTTCT
*
12750245 TTTATTTTTTTATAAA
1 TTTATTTTATTATAAA
12750261 TTTATTTTATTA-AAA
1 TTTATTTTATTATAAA
12750276 TTTA
1 TTTA
12750280 AACATAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATTTTATTATAAA
Found at i:12750579 original size:35 final size:36
Alignment explanation
Indices: 12750509--12750584 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 36
12750499 ATATGAAAAG
* *
12750509 ATAATTCATTATATACAGGTTTATATTTTAAAAATA
1 ATAATTCATTATATACAAGTTTACATTTTAAAAATA
*
12750545 ATAATTCA-TATATA-AATTTTACATTTTAAGAAATA
1 ATAATTCATTATATACAAGTTTACATTTTAA-AAATA
12750580 ATAAT
1 ATAAT
12750585 ATTTAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 12 0.33
35 16 0.44
36 8 0.22
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.43
Consensus pattern (36 bp):
ATAATTCATTATATACAAGTTTACATTTTAAAAATA
Found at i:12752464 original size:22 final size:21
Alignment explanation
Indices: 12752434--12752491 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
12752424 ATGCAATCGT
*
12752434 AGATTTGATATGTAATCTAAG
1 AGATTTGATTTGTAATCTAAG
* *
12752455 AAGATATGATTTTGTAATCTTAG
1 -AGATTTGA-TTTGTAATCTAAG
12752478 AGATTTGATTTGTA
1 AGATTTGATTTGTA
12752492 GATACCATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 6 0.19
22 14 0.45
23 11 0.35
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.43
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTAAG
Found at i:12753061 original size:329 final size:329
Alignment explanation
Indices: 12752463--12753125 Score: 1240
Period size: 329 Copynumber: 2.0 Consensus size: 329
12752453 AGAAGATATG
12752463 ATTTTGTAATCTTAGAGATTTGATTTGTAGATACCATTCGATCTTAGCCATTCATGTATTTGATC
1 ATTTTGTAATCTTAGAGATTTGATTTGTAGATACCATTCGATCTTAGCCATTCATGTATTTGATC
12752528 TGTACCGTTGATTTGGAGAAGGCTCTACTATAAATAGAGGCCTCTCCCCTCATTGTAAATCACTT
66 TGTACCGTTGATTTGGAGAAGGCTCTACTATAAATAGAGGCCTCTCCCCTCATTGTAAATCACTT
12752593 GAGTTTTGAGGAATAATAAGAGTTCTTGAGAGTATTCACTCAAACATTATTCTCTCTTGTGTTCT
131 GAGTTTTGAGGAATAATAAGAGTTCTTGAGAGTATTCACTCAAACATTATTCTCTCTTGTGTTCT
* *
12752658 TGATATTTCGTGGCTTGTTCTTATTTCGTTCTTCGTCCGCCTTTGTTTGATCTTTGAGTTGTTTT
196 TGATATTTCGTGGCTTGTTCTTATTGCGTTCTTCGTCCGCCTTTGTTTGATCTTTGAGTTGCTTT
*
12752723 CGTTTGTGTTGGTTTTC-AAAGAGGTATTCTATTGAATCCTCAAATCGTGGGAGTTAGGCTGACT
261 CGTTTGTGTTGGTTTTCAAAAG-GGAATTCTATTGAATCCTCAAATCGTGGGAGTTAGGCTGACT
*
12752787 TAGGT
325 TAGGC
12752792 ATTTTGTAATCTTAGAGATTTGATTTGTAGATACCATTCGATCTTAGCCATTCATGTATTTGATC
1 ATTTTGTAATCTTAGAGATTTGATTTGTAGATACCATTCGATCTTAGCCATTCATGTATTTGATC
12752857 TGTACCGTTAGATTTGGAG-AGGCTCTACTATAAATAGAGGCCTCTCCCCTCATTGTAAATCACT
66 TGTACCGTT-GATTTGGAGAAGGCTCTACTATAAATAGAGGCCTCTCCCCTCATTGTAAATCACT
12752921 TGAGTTTTGAGGAATAATAAGAGTTCTTGAGAGTATTCACTCAAACATTATTCTCTCTTGTGTTC
130 TGAGTTTTGAGGAATAATAAGAGTTCTTGAGAGTATTCACTCAAACATTATTCTCTCTTGTGTTC
*
12752986 TTGATATTTCGTGGCTTGTTCTTATTGCGTTCTTCGTTCGCCTTTGTTTGATCTTTGAGTTGCTT
195 TTGATATTTCGTGGCTTGTTCTTATTGCGTTCTTCGTCCGCCTTTGTTTGATCTTTGAGTTGCTT
*
12753051 TCGTTTGTGTTGGTTTTCAAAAGGGAATTCTATTGAATCCTCAAATTGTGGGAGTTAGGCTGACT
260 TCGTTTGTGTTGGTTTTCAAAAGGGAATTCTATTGAATCCTCAAATCGTGGGAGTTAGGCTGACT
12753116 TAGGC
325 TAGGC
12753121 ATTTT
1 ATTTT
12753126 TGAAGCGAGA
Statistics
Matches: 326, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
329 313 0.96
330 13 0.04
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.42
Consensus pattern (329 bp):
ATTTTGTAATCTTAGAGATTTGATTTGTAGATACCATTCGATCTTAGCCATTCATGTATTTGATC
TGTACCGTTGATTTGGAGAAGGCTCTACTATAAATAGAGGCCTCTCCCCTCATTGTAAATCACTT
GAGTTTTGAGGAATAATAAGAGTTCTTGAGAGTATTCACTCAAACATTATTCTCTCTTGTGTTCT
TGATATTTCGTGGCTTGTTCTTATTGCGTTCTTCGTCCGCCTTTGTTTGATCTTTGAGTTGCTTT
CGTTTGTGTTGGTTTTCAAAAGGGAATTCTATTGAATCCTCAAATCGTGGGAGTTAGGCTGACTT
AGGC
Found at i:12757940 original size:22 final size:21
Alignment explanation
Indices: 12757910--12757967 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
12757900 ATGCAATCGT
*
12757910 AGATTTGATATGTAATCTAAG
1 AGATTTGATTTGTAATCTAAG
* *
12757931 AAGATATGATTTTGTAATCTTAG
1 -AGATTTGA-TTTGTAATCTAAG
12757954 AGATTTGATTTGTA
1 AGATTTGATTTGTA
12757968 GATCCCATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 6 0.19
22 14 0.45
23 11 0.35
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.43
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTAAG
Found at i:12759830 original size:24 final size:24
Alignment explanation
Indices: 12759796--12759865 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
12759786 TATAAACAAA
* * *
12759796 AATAA-AATAATAAAACCAATAAT
1 AATAACAATAATAATACTAATAAC
* *
12759819 AATAATAGTAATAATACTAATAAC
1 AATAACAATAATAATACTAATAAC
12759843 AATAACAATAATAATACTAATAA
1 AATAACAATAATAATACTAATAA
12759866 ATAGAATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 5 0.12
24 35 0.88
ACGTcount: A:0.64, C:0.09, G:0.01, T:0.26
Consensus pattern (24 bp):
AATAACAATAATAATACTAATAAC
Found at i:12759876 original size:3 final size:3
Alignment explanation
Indices: 12759796--12759865 Score: 63
Period size: 3 Copynumber: 23.7 Consensus size: 3
12759786 TATAAACAAA
* * *
12759796 AAT AA- AAT AAT AA- AACC AAT AAT AAT AAT AGT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
12759840 AAC AAT AAC AAT AAT AAT ACT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
12759866 ATAGAATAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
2 4 0.08
3 47 0.89
4 2 0.04
ACGTcount: A:0.64, C:0.09, G:0.01, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:12759876 original size:24 final size:24
Alignment explanation
Indices: 12759801--12759885 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 24
12759791 ACAAAAATAA
* * * *
12759801 AATAATAAAACCAATAATAATAAT
1 AATAATAATACTAATAACAAGAAT
* * *
12759825 AGTAATAATACTAATAACAATAAC
1 AATAATAATACTAATAACAAGAAT
12759849 AATAATAATACTAATAA-ATAGAAT
1 AATAATAATACTAATAACA-AGAAT
*
12759873 AATATTAA-ACTAA
1 AATAATAATACTAA
12759886 AAAAATAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
23 6 0.12
24 45 0.88
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.27
Consensus pattern (24 bp):
AATAATAATACTAATAACAAGAAT
Found at i:12760530 original size:13 final size:13
Alignment explanation
Indices: 12760505--12760537 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12760495 AATGTAGAAT
12760505 AATAAAA-ATTAA
1 AATAAAAGATTAA
12760517 AATAAAAGATTAA
1 AATAAAAGATTAA
*
12760530 AATGAAAG
1 AATAAAAG
12760538 TAGAAGTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (13 bp):
AATAAAAGATTAA
Found at i:12764518 original size:25 final size:25
Alignment explanation
Indices: 12764484--12764532 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
12764474 TTCCTATCAT
12764484 AATGCAGACCATGCAATAATATTAA
1 AATGCAGACCATGCAATAATATTAA
*
12764509 AATGTAGACCATGCAATAATATTA
1 AATGCAGACCATGCAATAATATTA
12764533 TTAAAGAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (25 bp):
AATGCAGACCATGCAATAATATTAA
Found at i:12766977 original size:17 final size:16
Alignment explanation
Indices: 12766951--12766984 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
12766941 TTAAAATTAA
*
12766951 AAAATAAAAATAGAGT
1 AAAATAAAAAAAGAGT
12766967 AAAATAGAAAAAAGAGT
1 AAAATA-AAAAAAGAGT
12766984 A
1 A
12766985 TGAACTATTG
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:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (16 bp):
AAAATAAAAAAAGAGT
Found at i:12768224 original size:17 final size:18
Alignment explanation
Indices: 12768182--12768225 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
12768172 AAAAGATGTG
*
12768182 TTTTTTTACTGTTTTGTT
1 TTTTTTTTCTGTTTTGTT
* *
12768200 GTTATTTTCT-TTTTGTT
1 TTTTTTTTCTGTTTTGTT
12768217 TTTTTTTTC
1 TTTTTTTTC
12768226 ATTGTTGTGC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.05, C:0.07, G:0.09, T:0.80
Consensus pattern (18 bp):
TTTTTTTTCTGTTTTGTT
Found at i:12768475 original size:13 final size:13
Alignment explanation
Indices: 12768453--12768490 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
12768443 ATGTATTGTA
*
12768453 TATATTAAAAATT
1 TATATAAAAAATT
12768466 TATATAAAAAA-T
1 TATATAAAAAATT
*
12768478 AATATAAAAAATT
1 TATATAAAAAATT
12768491 AATACTGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
TATATAAAAAATT
Found at i:12768493 original size:13 final size:13
Alignment explanation
Indices: 12768454--12768494 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
12768444 TGTATTGTAT
* *
12768454 ATATTAAAAATTT
1 ATATAAAAAATTA
12768467 ATATAAAAAA-TA
1 ATATAAAAAATTA
12768479 ATATAAAAAATTA
1 ATATAAAAAATTA
12768492 ATA
1 ATA
12768495 CTGGAAAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATAAAAAATTA
Found at i:12788095 original size:42 final size:42
Alignment explanation
Indices: 12787941--12788096 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
12787931 TTTCAACAGG
* * * * * * * *
12787941 CATGCTTAACATGCGAATCAAATCTAAGATCAACATAGTCGA
1 CATGCTTAATATGCAAATTAAATCTCAGTTTATCATAATCGA
*
12787983 CATGCTTAACATGCAAATTAAATCTCAGTTTATCATAATCGA
1 CATGCTTAATATGCAAATTAAATCTCAGTTTATCATAATCGA
* * *
12788025 CATGCTTAATATGTAAATCAAATATCAGTTTATCATAATCGA
1 CATGCTTAATATGCAAATTAAATCTCAGTTTATCATAATCGA
* * *
12788067 CATCCTTAATATACAAATTAGATCTCAGTT
1 CATGCTTAATATGCAAATTAAATCTCAGTT
12788097 AATAAATCAG
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 97 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (42 bp):
CATGCTTAATATGCAAATTAAATCTCAGTTTATCATAATCGA
Found at i:12790304 original size:126 final size:126
Alignment explanation
Indices: 12790140--12790557 Score: 737
Period size: 126 Copynumber: 3.3 Consensus size: 126
12790130 TAATTTAAAA
* ** *
12790140 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCAAGAAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
* *
12790205 TTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAGTACTGAAAG
66 CTGAGCAGATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAGTACTGAAAG
12790266 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
12790331 CTGAGCAGATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAGTACTGAAAG
66 CTGAGCAGATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAGTACTGAAAG
12790392 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
* * * * *
12790457 CAGAGCAGATAGTGTCAAAAATGCTTTAAGCAAGATGCTTTGTCAGCAAAAGTATTGAAAG
66 CTGAGCAGATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAGTACTGAAAG
12790518 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
12790558 TTTGGCCTGA
Statistics
Matches: 281, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 281 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
CTGAGCAGATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAAAAGTACTGAAAG
Found at i:12793850 original size:23 final size:23
Alignment explanation
Indices: 12793805--12793852 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
12793795 AATAAAATAC
*
12793805 CCTAACCCGAAATACTAACTAAA
1 CCTAACCCGAAATACCAACTAAA
* * *
12793828 CCTAACCCGAATTACCCATTAAA
1 CCTAACCCGAAATACCAACTAAA
12793851 CC
1 CC
12793853 CTAGCCCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.35, G:0.04, T:0.19
Consensus pattern (23 bp):
CCTAACCCGAAATACCAACTAAA
Found at i:12794968 original size:3 final size:3
Alignment explanation
Indices: 12794960--12795008 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
12794950 ATGTTCATCC
12794960 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12795008 T
1 T
12795009 TCTCCTTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12796593 original size:21 final size:21
Alignment explanation
Indices: 12796555--12796594 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12796545 TTGTCCAGCT
* *
12796555 TCCGGCGGGGGCTGTGGTTAC
1 TCCGGCGGGGACTCTGGTTAC
*
12796576 TCCGGCGGGGATTCTGGTT
1 TCCGGCGGGGACTCTGGTT
12796595 CCTCTGGTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.23, G:0.45, T:0.28
Consensus pattern (21 bp):
TCCGGCGGGGACTCTGGTTAC
Found at i:12797463 original size:7 final size:7
Alignment explanation
Indices: 12797451--12797475 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12797441 TATTAGTTAT
12797451 ATACATA
1 ATACATA
12797458 ATACATA
1 ATACATA
12797465 ATACATA
1 ATACATA
12797472 ATAC
1 ATAC
12797476 TAAATACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:12798631 original size:11 final size:11
Alignment explanation
Indices: 12798617--12798664 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
12798607 AGCTTTTTTA
12798617 AGAGGAATTTG
1 AGAGGAATTTG
12798628 AGAGGAATTTG
1 AGAGGAATTTG
12798639 AGA-GAATATTG
1 AGAGGAAT-TTG
*
12798650 -GAGAGAAATTG
1 AGAG-GAATTTG
12798661 AGAG
1 AGAG
12798665 AAAGGATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
10 6 0.19
11 20 0.62
12 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:12798663 original size:10 final size:10
Alignment explanation
Indices: 12798625--12798667 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
12798615 TAAGAGGAAT
*
12798625 TTGAGAGGAAT
1 TTGAGA-GAAA
12798636 TTGAGAGAATA
1 TTGAGAGAA-A
12798647 TTGGAGAGAAA
1 TT-GAGAGAAA
12798658 TTGAGAGAAA
1 TTGAGAGAAA
12798668 GGATTTAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 11 0.38
11 11 0.38
12 7 0.24
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:12799093 original size:33 final size:33
Alignment explanation
Indices: 12799056--12799151 Score: 82
Period size: 33 Copynumber: 3.1 Consensus size: 33
12799046 TTTAATCTAG
12799056 TAAATAATTAACTAAATTACATAGTATTTATTA
1 TAAATAATTAACTAAATTACATAGTATTTATTA
* ** *
12799089 TAAATTATT---TTTATTA-A-A--ATGTA-TA
1 TAAATAATTAACTAAATTACATAGTATTTATTA
*
12799114 CTAAATAGTTAACTAAATTACATAGTATTTATTA
1 -TAAATAATTAACTAAATTACATAGTATTTATTA
12799148 TAAA
1 TAAA
12799152 CATCTACTCG
Statistics
Matches: 45, Mismatches: 9, Indels: 18
0.62 0.12 0.25
Matches are distributed among these distances:
25 2 0.04
26 11 0.24
28 1 0.02
29 6 0.13
30 6 0.13
31 1 0.02
33 16 0.36
34 2 0.04
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (33 bp):
TAAATAATTAACTAAATTACATAGTATTTATTA
Found at i:12810652 original size:18 final size:20
Alignment explanation
Indices: 12810631--12810674 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
12810621 TTTTTAAATA
12810631 AAATTAAGTTTT-ATT-TTT
1 AAATTAAGTTTTGATTATTT
*
12810649 AAATTAATTTTTGATTAATTT
1 AAATTAAGTTTTGATT-ATTT
12810670 AAATT
1 AAATT
12810675 CAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 11 0.50
19 3 0.14
21 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
AAATTAAGTTTTGATTATTT
Found at i:12811492 original size:12 final size:11
Alignment explanation
Indices: 12811461--12811499 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
12811451 TGCTGTAAGC
12811461 TTTTATTATTA
1 TTTTATTATTA
12811472 TTATTATTATTA
1 TT-TTATTATTA
*
12811484 TTTTAATTAATA
1 TTTT-ATTATTA
12811496 TTTT
1 TTTT
12811500 TAACATATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 4 0.16
12 21 0.84
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:12813237 original size:5 final size:5
Alignment explanation
Indices: 12813224--12813267 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
12813214 AAATCTGAGT
* * *
12813224 ATATT ATATG ATATT ATATG ATATG ATATG ATATG ATATT ATAT
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATAT
12813268 TTATATTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (5 bp):
ATATG
Found at i:12813239 original size:10 final size:10
Alignment explanation
Indices: 12813224--12813278 Score: 65
Period size: 10 Copynumber: 5.4 Consensus size: 10
12813214 AAATCTGAGT
12813224 ATATTATATG
1 ATATTATATG
12813234 ATATTATATG
1 ATATTATATG
*
12813244 ATATGATATG
1 ATATTATATG
* *
12813254 ATATGATATT
1 ATATTATATG
*
12813264 ATATTTATATT
1 ATA-TTATATG
12813275 ATAT
1 ATAT
12813279 AAATGTTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
10 32 0.78
11 9 0.22
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (10 bp):
ATATTATATG
Found at i:12813241 original size:15 final size:15
Alignment explanation
Indices: 12813223--12813278 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
12813213 GAAATCTGAG
*
12813223 TATATTATATGATAT
1 TATATGATATGATAT
12813238 TATATGATATGATAT
1 TATATGATATGATAT
* *
12813253 GATATGATATTATATT
1 TATATGATATGATA-T
*
12813269 TATATTATAT
1 TATATGATAT
12813279 AAATGTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
15 26 0.74
16 9 0.26
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (15 bp):
TATATGATATGATAT
Found at i:12813268 original size:5 final size:5
Alignment explanation
Indices: 12813223--12813278 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
12813213 GAAATCTGAG
* * * * *
12813223 TATAT TATAT GATAT TATAT GATAT GATAT GATAT GATAT TATATT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA-T TATAT
12813274 TATAT
1 TATAT
12813279 AAATGTTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 41 0.89
6 5 0.11
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (5 bp):
TATAT
Found at i:12813376 original size:5 final size:5
Alignment explanation
Indices: 12813366--12813418 Score: 76
Period size: 5 Copynumber: 11.2 Consensus size: 5
12813356 TAACAAAACC
*
12813366 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-AA TAT-T TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
12813414 T-TAT T
1 TATAT T
12813419 TTTTGTTACA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
4 10 0.23
5 34 0.77
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:12814167 original size:69 final size:69
Alignment explanation
Indices: 12814056--12814195 Score: 226
Period size: 69 Copynumber: 2.0 Consensus size: 69
12814046 GGACTTTTAA
* * * *
12814056 TAATCACCTTTTGGTGTTCTATGGGCTGTAGGTAGGGGAAGATTCAGTTAAGGTACCATTAAGGT
1 TAATCACCTTTTGGTGTTCCATAGGCTGCAGGTAGGGGAAGATTCAATTAAGGTACCATTAAGGT
*
12814121 TCTT
66 TATT
*
12814125 TAATCACCTTTTGGTGTTCCATAGGCTGCAGGTAGGGGAAGATTCAATTAATGTACCATTAAGGT
1 TAATCACCTTTTGGTGTTCCATAGGCTGCAGGTAGGGGAAGATTCAATTAAGGTACCATTAAGGT
12814190 TATT
66 TATT
12814194 TA
1 TA
12814196 CTTTTTGGGT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.36
Consensus pattern (69 bp):
TAATCACCTTTTGGTGTTCCATAGGCTGCAGGTAGGGGAAGATTCAATTAAGGTACCATTAAGGT
TATT
Found at i:12819411 original size:16 final size:17
Alignment explanation
Indices: 12819389--12819430 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
12819379 ATCTAGTAAA
12819389 ATATTTTTATAAATTTT
1 ATATTTTTATAAATTTT
*
12819406 -TATTTTT-TTAATTTT
1 ATATTTTTATAAATTTT
12819421 ATATATTTTA
1 ATAT-TTTTA
12819431 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 7 0.33
16 10 0.48
17 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATTTTTATAAATTTT
Found at i:12834286 original size:18 final size:18
Alignment explanation
Indices: 12834263--12834323 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
12834253 ATCATGCACA
12834263 TTTGGCGGACTCGCCAAG
1 TTTGGCGGACTCGCCAAG
* *
12834281 TTTGGC-GAATCCCCTAAG
1 TTTGGCGGACTCGCC-AAG
* * *
12834299 ATTGGTGAACTCGCCAAG
1 TTTGGCGGACTCGCCAAG
*
12834317 TCTGGCG
1 TTTGGCG
12834324 AATCCCCTAA
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
17 6 0.19
18 20 0.65
19 5 0.16
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.25
Consensus pattern (18 bp):
TTTGGCGGACTCGCCAAG
Found at i:12834323 original size:36 final size:36
Alignment explanation
Indices: 12834264--12834346 Score: 130
Period size: 36 Copynumber: 2.3 Consensus size: 36
12834254 TCATGCACAT
* *
12834264 TTGGCGGACTCGCCAAGTTTGGCGAATCCCCTAAGA
1 TTGGCGAACTCGCCAAGTCTGGCGAATCCCCTAAGA
* *
12834300 TTGGTGAACTCGCCAAGTCTGGCGAATCCCCTAAGC
1 TTGGCGAACTCGCCAAGTCTGGCGAATCCCCTAAGA
12834336 TTGGCGAACTC
1 TTGGCGAACTC
12834347 ATGATAAGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.23
Consensus pattern (36 bp):
TTGGCGAACTCGCCAAGTCTGGCGAATCCCCTAAGA
Found at i:12834342 original size:18 final size:17
Alignment explanation
Indices: 12834282--12834343 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
12834272 CTCGCCAAGT
12834282 TTGGCGAATCCCCTAAG
1 TTGGCGAATCCCCTAAG
* *
12834299 ATTGGTGAACTCGCC-AAG
1 -TTGGCGAA-TCCCCTAAG
12834317 TCTGGCGAATCCCCTAAG
1 T-TGGCGAATCCCCTAAG
12834335 CTTGGCGAA
1 -TTGGCGAA
12834344 CTCATGATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
17 5 0.14
18 26 0.72
19 5 0.14
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (17 bp):
TTGGCGAATCCCCTAAG
Found at i:12834514 original size:24 final size:24
Alignment explanation
Indices: 12834487--12834539 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
12834477 ATAGAATTAG
*
12834487 TATTTACTAGCATAATATATTTGA
1 TATTTACTAGCATAAAATATTTGA
* * *
12834511 TATTTATTAGCATAAAATCTTTGT
1 TATTTACTAGCATAAAATATTTGA
12834535 TATTT
1 TATTT
12834540 CTTTCTGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (24 bp):
TATTTACTAGCATAAAATATTTGA
Found at i:12844602 original size:99 final size:95
Alignment explanation
Indices: 12844415--12844602 Score: 247
Period size: 95 Copynumber: 1.9 Consensus size: 95
12844405 CTGATAATCA
* *
12844415 TCAACAAAAATCCTATCTATATTGTATTTTGTTATAACAGACACTGATTGCTTATTATTCGGATC
1 TCAACAAAAATCCTATCTAAATTGTATTTTGTTATAACAGACACTGATTGCTTATTATTCAGATC
*
12844480 ATCATATCTGTATTAAGAAAATATTACATT
66 ATCATATCTGTATTAACAAAATATTACATT
*
12844510 TCAACATAAATCCTATCTAAATTGTATTTTGTTCA-ACCACA-ACACTGA-TGCCTTACTACTAT
1 TCAACAAAAATCCTATCTAAATTGTATTTTGTT-ATA--ACAGACACTGATTG-CTTA-T--TAT
*
12844572 TCAGATCATCATATTTGTATTAACAAAATAT
59 TCAGATCATCATATCTGTATTAACAAAATAT
12844603 AAGAAATGAC
Statistics
Matches: 81, Mismatches: 5, Indels: 10
0.84 0.05 0.10
Matches are distributed among these distances:
95 34 0.42
96 12 0.15
97 4 0.05
99 31 0.38
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (95 bp):
TCAACAAAAATCCTATCTAAATTGTATTTTGTTATAACAGACACTGATTGCTTATTATTCAGATC
ATCATATCTGTATTAACAAAATATTACATT
Found at i:12844791 original size:16 final size:16
Alignment explanation
Indices: 12844772--12844802 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12844762 GATTCAGTCT
*
12844772 CAAAATTATTTAAATC
1 CAAAATAATTTAAATC
12844788 CAAAATAATTTAAAT
1 CAAAATAATTTAAAT
12844803 AAAGTAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
CAAAATAATTTAAATC
Found at i:12844901 original size:20 final size:19
Alignment explanation
Indices: 12844855--12844901 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
12844845 TTTTTAAAAA
*
12844855 TAATTATAACATTAAATTT
1 TAATTATAACATTAAATTG
12844874 TAATTTATAAC-TTACAAATTG
1 TAA-TTATAACATT--AAATTG
12844895 TAATTAT
1 TAATTAT
12844902 CATATTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 5 0.21
20 11 0.46
21 8 0.33
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (19 bp):
TAATTATAACATTAAATTG
Found at i:12847066 original size:103 final size:103
Alignment explanation
Indices: 12846882--12847088 Score: 369
Period size: 103 Copynumber: 2.0 Consensus size: 103
12846872 AAATGGAAAA
12846882 TCTCATAATCTTGAGTAAACCTATGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAAAA
1 TCTCATAATCTTGAGTAAACCTATGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAAAA
*
12846947 GGTATTTCACTTCAATTTGATTGTTCATAACCGAATTT
66 GGTATTTCACTTCAATTTGATGGTTCATAACCGAATTT
* * * *
12846985 TCTCGTAATCTTGAGTAAACCTGTGTTTACAAAGTGATTTTTGATTCAGTCTGACCTAATTAGAA
1 TCTCATAATCTTGAGTAAACCTATGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAAAA
12847050 GGTATTTCACTTCAATTTGATGGTTCATAACCGAATTT
66 GGTATTTCACTTCAATTTGATGGTTCATAACCGAATTT
12847088 T
1 T
12847089 TAAGAATCAC
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (103 bp):
TCTCATAATCTTGAGTAAACCTATGTTTACAAAGTGATTTTTGATTCAGTCTAACCTAATTAAAA
GGTATTTCACTTCAATTTGATGGTTCATAACCGAATTT
Found at i:12859268 original size:28 final size:29
Alignment explanation
Indices: 12859214--12859269 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
12859204 AATTAAATAA
*
12859214 TAAAATATAAATATAAAATATGTTTATAC
1 TAAAATATAAATATAAAATATGATTATAC
*
12859243 TAAATTATAAATA-AAAATTAT-ATTATA
1 TAAAATATAAATATAAAA-TATGATTATA
12859270 AAAATAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (29 bp):
TAAAATATAAATATAAAATATGATTATAC
Found at i:12860082 original size:3 final size:3
Alignment explanation
Indices: 12860076--12860105 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
12860066 AGATGATGAA
*
12860076 TGG TGG TGG TGG TGG TGG TGG TGA TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
12860106 GTTTTGATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.00, G:0.63, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:12860343 original size:20 final size:20
Alignment explanation
Indices: 12860318--12860366 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
12860308 TTAATTATCC
*
12860318 ATTAAATAAATAACTA-TTTA
1 ATTAAATAAATAA-AACTTTA
*
12860338 ATTAAACAAATAAAACTTTA
1 ATTAAATAAATAAAACTTTA
12860358 ATTAAATAA
1 ATTAAATAA
12860367 TTTTTCCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTAAATAAATAAAACTTTA
Found at i:12863774 original size:22 final size:22
Alignment explanation
Indices: 12863749--12863793 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
12863739 GGTCAATCTC
12863749 TCAACAAAAATTAT-AAAATAAT
1 TCAA-AAAAATTATCAAAATAAT
* *
12863771 TCAAAATAATTTTCAAAATAAT
1 TCAAAAAAATTATCAAAATAAT
12863793 T
1 T
12863794 TTTAAATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (22 bp):
TCAAAAAAATTATCAAAATAAT
Found at i:12863787 original size:12 final size:12
Alignment explanation
Indices: 12863770--12863795 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12863760 TATAAAATAA
12863770 TTCAAAATAATT
1 TTCAAAATAATT
12863782 TTCAAAATAATT
1 TTCAAAATAATT
12863794 TT
1 TT
12863796 TAAATTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (12 bp):
TTCAAAATAATT
Found at i:12863860 original size:20 final size:20
Alignment explanation
Indices: 12863835--12863901 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
12863825 ATATTTATAT
*
12863835 TTTTAAAAACATTCTAAAAA
1 TTTTAAAAAAATTCTAAAAA
12863855 TTTTAAAAAAATTCTAAAAA
1 TTTTAAAAAAATTCTAAAAA
* * *
12863875 TATATAAAGAAA-GCT-AAAA
1 T-TTTAAAAAAATTCTAAAAA
12863894 TTTTAAAA
1 TTTTAAAA
12863902 TTTTCTAGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 5 0.12
19 5 0.12
20 22 0.55
21 8 0.20
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (20 bp):
TTTTAAAAAAATTCTAAAAA
Found at i:12869428 original size:15 final size:17
Alignment explanation
Indices: 12869408--12869445 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
12869398 TTACTAAAAT
*
12869408 AAAAATCTT-GTG-GGG
1 AAAAATCTTAGTGAAGG
12869423 AAAAATCTTAGTGAAGG
1 AAAAATCTTAGTGAAGG
12869440 AAAAAT
1 AAAAAT
12869446 AATATACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 3 0.15
17 8 0.40
ACGTcount: A:0.47, C:0.05, G:0.24, T:0.24
Consensus pattern (17 bp):
AAAAATCTTAGTGAAGG
Found at i:12874656 original size:9 final size:9
Alignment explanation
Indices: 12874644--12874695 Score: 50
Period size: 10 Copynumber: 5.3 Consensus size: 9
12874634 TATTTTAGTC
*
12874644 TTTTTATGT
1 TTTTTATAT
12874653 TTTTCTATAAT
1 TTTT-TAT-AT
12874664 TTTTTATAAT
1 TTTTTAT-AT
*
12874674 TTTTTATAA
1 TTTTTATAT
12874683 TTTTTATGAT
1 TTTTTAT-AT
12874693 TTT
1 TTT
12874696 AATTTTCATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 12 0.32
10 20 0.54
11 5 0.14
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (9 bp):
TTTTTATAT
Found at i:12874671 original size:10 final size:10
Alignment explanation
Indices: 12874652--12874687 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
12874642 TCTTTTTATG
12874652 TTTTTCTATAA
1 TTTTT-TATAA
12874663 TTTTTTATAA
1 TTTTTTATAA
12874673 TTTTTTATAA
1 TTTTTTATAA
12874683 TTTTT
1 TTTTT
12874688 ATGATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:12877678 original size:25 final size:25
Alignment explanation
Indices: 12877634--12877780 Score: 125
Period size: 25 Copynumber: 5.9 Consensus size: 25
12877624 CAAACATGTA
* **
12877634 AACGGGAAGCTCTTTCGAGCCATAT
1 AACGGGAAGCTCATGAGAGCCATAT
* **
12877659 AACGGGAAGCTCATGTGAGCTGTAT
1 AACGGGAAGCTCATGAGAGCCATAT
* ** * *
12877684 AACGGAAAGCTTTTGTGAGCCAAAT
1 AACGGGAAGCTCATGAGAGCCATAT
* * *
12877709 ATCAGGAAGCTCAAGAGAGCCAT-T
1 AACGGGAAGCTCATGAGAGCCATAT
* *
12877733 AATCGGGAAGCTCATGAGAGCTAAAT
1 AA-CGGGAAGCTCATGAGAGCCATAT
*
12877759 AACGGGAAGCTCGTGAGAGCCA
1 AACGGGAAGCTCATGAGAGCCA
12877781 AGTATTGAGA
Statistics
Matches: 94, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
24 2 0.02
25 89 0.95
26 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCATGAGAGCCATAT
Found at i:12877761 original size:75 final size:75
Alignment explanation
Indices: 12877650--12877805 Score: 190
Period size: 75 Copynumber: 2.1 Consensus size: 75
12877640 AAGCTCTTTC
* ** ** *
12877650 GAGCCATATAACGGGAAGCTCATGTGAGCTGTATAACGGAAAGCTTTTGTGAGCCAAATATCAG-
1 GAGCCATATAACGGGAAGCTCATGAGAGCTAAATAACGGAAAGCTCGTGAGAGCCAAATAT-AGA
12877714 GAAGCTCAAGA
65 GAAGCTCAAGA
* * *
12877725 GAGCCAT-TAATCGGGAAGCTCATGAGAGCTAAATAACGGGAAGCTCGTGAGAGCCAAGTATTGA
1 GAGCCATATAA-CGGGAAGCTCATGAGAGCTAAATAACGGAAAGCTCGTGAGAGCCAAATATAGA
*
12877789 GAAGCTCGAGA
65 GAAGCTCAAGA
12877800 GAGCCA
1 GAGCCA
12877806 AATATTGGGA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
74 4 0.06
75 65 0.94
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (75 bp):
GAGCCATATAACGGGAAGCTCATGAGAGCTAAATAACGGAAAGCTCGTGAGAGCCAAATATAGAG
AAGCTCAAGA
Found at i:12877792 original size:25 final size:25
Alignment explanation
Indices: 12877764--12877812 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
12877754 TAAATAACGG
* *
12877764 GAAGCTCGTGAGAGCCAAGTATTGA
1 GAAGCTCGAGAGAGCCAAATATTGA
12877789 GAAGCTCGAGAGAGCCAAATATTG
1 GAAGCTCGAGAGAGCCAAATATTG
12877813 GGACATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (25 bp):
GAAGCTCGAGAGAGCCAAATATTGA
Found at i:12882912 original size:16 final size:16
Alignment explanation
Indices: 12882891--12882947 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
12882881 TCAAAAATAA
12882891 TAATATTTAAATAGTT
1 TAATATTTAAATAGTT
* * *
12882907 TAATATATAAACATTT
1 TAATATTTAAATAGTT
* *
12882923 TATTATTTTAATATGATT
1 TAATATTTAAATA-G-TT
12882941 TAATATT
1 TAATATT
12882948 GAAGCGATTA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 22 0.73
18 8 0.27
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (16 bp):
TAATATTTAAATAGTT
Found at i:12884221 original size:34 final size:34
Alignment explanation
Indices: 12884181--12884299 Score: 139
Period size: 34 Copynumber: 3.5 Consensus size: 34
12884171 ATTATTTACT
* *
12884181 GTATTGATATGATATAGGCATATTAATTGCTATC
1 GTATTGATCTGATATAAGCATATTAATTGCTATC
* * *
12884215 GTATTGATCTGTTATAAACATATTAATTGCTACC
1 GTATTGATCTGATATAAGCATATTAATTGCTATC
* * * * *
12884249 GAAATGATCTGCTATAAGCATACTAATTGTTATC
1 GTATTGATCTGATATAAGCATATTAATTGCTATC
*
12884283 GTATTGATCTGTTATAA
1 GTATTGATCTGATATAA
12884300 ATATGACATA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 70 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (34 bp):
GTATTGATCTGATATAAGCATATTAATTGCTATC
Found at i:12884498 original size:44 final size:44
Alignment explanation
Indices: 12884450--12884556 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 44
12884440 TCTATCTGTG
*
12884450 AGATTTTGCTGTGTATCCATAGCTAGAGGCAAAT-TCTATTTGCA
1 AGATTTTGTTGTGTATCCATAGCTAGAGGCAAATCTC-ATTTGCA
* * * * * * *
12884494 AGATTATGTTGGGCATCTATTGCTAGTGGCAGATCTCATTTGCA
1 AGATTTTGTTGTGTATCCATAGCTAGAGGCAAATCTCATTTGCA
* *
12884538 ATATTTTGTTGTGTGTCCA
1 AGATTTTGTTGTGTATCCA
12884557 CAACCATTAG
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
44 46 0.96
45 2 0.04
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.39
Consensus pattern (44 bp):
AGATTTTGTTGTGTATCCATAGCTAGAGGCAAATCTCATTTGCA
Found at i:12885744 original size:22 final size:22
Alignment explanation
Indices: 12885704--12885745 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
12885694 ATTCCATTAT
*
12885704 ATTTGTAAAAAAATTATAAATA
1 ATTTGTAAAAAAATAATAAATA
12885726 ATTT-TAAAAAAATAAATAAA
1 ATTTGTAAAAAAAT-AATAAA
12885746 AAGGGAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
ATTTGTAAAAAAATAATAAATA
Found at i:12897165 original size:24 final size:24
Alignment explanation
Indices: 12897137--12897191 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
12897127 CTTCTTTTTG
*
12897137 GGCTCTTTAGCAACAAG-TTGAGTA
1 GGCTCCTTAGC-ACAAGTTTGAGTA
* *
12897161 GGCTCCTTAGCAGAAGTTTGAGTG
1 GGCTCCTTAGCACAAGTTTGAGTA
12897185 GGCTCCT
1 GGCTCCT
12897192 CGGTAGCATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (24 bp):
GGCTCCTTAGCACAAGTTTGAGTA
Found at i:12906634 original size:133 final size:133
Alignment explanation
Indices: 12906380--12906652 Score: 357
Period size: 133 Copynumber: 2.1 Consensus size: 133
12906370 CACATGGCTG
* * * *
12906380 TGTGTCTTATTGATTTTAAGTGCAGGATTTTTCACACGGCATCAACCTGTGACACGTCCTGGCAA
1 TGTGACTTATTGATTTTAAGTACAAGATTTTTCACACGGCATCAACCTGTGACACGGCCTGGCAA
* * * *
12906445 CACGGGCGTGTGGGGTAGCCACACAACCATGTTTGAGGCTACACGGGCTGATCGCTTTCACACGA
66 CACGAGCGTGTGCGGTAGCCACACAACCATGTTTGAGGCTACACGAGCTGACCGCTTTCACACGA
12906510 CCA
131 CCA
* * *
12906513 TGTGACTTATTGATTTTAGGTACAAGATTTTTCACACGGTATCAACCTGTTACACGGCCTGGCAA
1 TGTGACTTATTGATTTTAAGTACAAGATTTTTCACACGGCATCAACCTGTGACACGGCCTGGCAA
* * * ** * * * *
12906578 CACGAGTGTGTGCTGTAGCCATATGACCATGTTTGAGGCTACATGAGTTGGCCGCTTTCACACGG
66 CACGAGCGTGTGCGGTAGCCACACAACCATGTTTGAGGCTACACGAGCTGACCGCTTTCACACGA
*
12906643 CCG
131 CCA
12906646 TGTGACT
1 TGTGACT
12906653 CCTATTTTCA
Statistics
Matches: 119, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
133 119 1.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (133 bp):
TGTGACTTATTGATTTTAAGTACAAGATTTTTCACACGGCATCAACCTGTGACACGGCCTGGCAA
CACGAGCGTGTGCGGTAGCCACACAACCATGTTTGAGGCTACACGAGCTGACCGCTTTCACACGA
CCA
Found at i:12916289 original size:299 final size:299
Alignment explanation
Indices: 12915901--12916576 Score: 764
Period size: 307 Copynumber: 2.2 Consensus size: 299
12915891 TATCAAAATT
* * * * *
12915901 AACTTTTAATATAAAATATTTTCTCTCATCAAACTTGTGTATCTATACTATTAATAGAATTTCTG
1 AACTTTTAACATAAAATATTTTCTCTCACCAAATTTGTGTATCTATACTATTAATAAAATCTCTG
* ** * *
12915966 ATTGAATTGGTATCACAAGTTAACT-GGATACCAACTTAGTTAGGAAATGACTAATA-TACTGAC
66 ATTGAATTGGTATCACAAGTTAACTAGG-CACCAACCCAGTTAGGAAATGACTAATATTACTAAA
* *
12916029 T-GCTA-T-TATTATTTTGATGACTTTTTCTTTTCTTTTCATACTATTATATAGTTTTTAAATAA
130 TGGCTACTATATTATTTTGATGAC-ATTT-TTGTCTTTTCATACTATTATATAGTTTTTAAATAA
* * * *** *
12916091 AAGAACTAAAGTTAGCTTATCTAGGGATTGAACCCCTTTTTAAT-AATAGATTTATAAACAAATT
193 AAGAACTAAAATTAACATATCTAAAAATTGAACCCCTGTTTAATGAAT---TTTATAAACAAA-T
12916155 TTTTACCACTACACCAATAATAATTCTTGAA-TAAACTT-AAAAAAA
254 TTTTACCACTACACCAATAATAATTCTT-AAGTAAACTTAAAAAAAA
*
12916200 AA-TTTTAACATAAAAT-TTCTTCTCTCACCAAATTTGTGTATCTATATTTATCT-ATAAAATC-
1 AACTTTTAACATAAAATATT-TTCTCTCACCAAATTTGTGTATCTATA-CTAT-TAATAAAATCT
* ** * *
12916261 CTTGATTGAGTTGGTATCACGGGTTAACTAGGCACCATCCCGGTTAGGAAATGACTAATACCTTT
63 C-TGATTGAATTGGTATCACAAGTTAACTAGGCACCAACCCAGTTAGGAAATGACTAATA-----
*
12916326 TTATTAAATGGCTACTACTATTATTTTGATGACATTTTTGTCTTTTCATACTATTATATAGTTTT
122 TTACTAAATGGCTACTA-TATTATTTTGATGACATTTTTGTCTTTTCATACTATTATATAGTTTT
* *
12916391 TAAATAAAAGAACTAAAATTAACATATCTAAAAATTGAACTCGTGTTTAATGAATTTTATAAACA
186 TAAATAAAAGAACTAAAATTAACATATCTAAAAATTGAACCCCTGTTTAATGAATTTTATAAACA
12916456 AATTTTTACCACTACACCAATAATAATTCTTAAGTAAACTTAAAAAAAAAA
251 AATTTTTACCACTACACCAATAATAATTCTTAAGTAAACTT--AAAAAAAA
* * * *
12916507 AACTTTTAACATAAAATGTTTTCTCTCACCTAATTTGTATATCCATACTTACTAATAATAAAATC
1 AACTTTTAACATAAAATATTTTCTCTCACCAAATTTGTGTAT-C-TA--TACTATTAATAAAATC
12916572 TCTGA
62 TCTGA
12916577 CTAACTTAGT
Statistics
Matches: 317, Mismatches: 32, Indels: 44
0.81 0.08 0.11
Matches are distributed among these distances:
297 2 0.01
298 39 0.12
299 58 0.18
300 3 0.01
303 2 0.01
304 36 0.11
305 17 0.05
306 4 0.01
307 79 0.25
308 40 0.13
309 18 0.06
310 3 0.01
311 13 0.04
312 3 0.01
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.39
Consensus pattern (299 bp):
AACTTTTAACATAAAATATTTTCTCTCACCAAATTTGTGTATCTATACTATTAATAAAATCTCTG
ATTGAATTGGTATCACAAGTTAACTAGGCACCAACCCAGTTAGGAAATGACTAATATTACTAAAT
GGCTACTATATTATTTTGATGACATTTTTGTCTTTTCATACTATTATATAGTTTTTAAATAAAAG
AACTAAAATTAACATATCTAAAAATTGAACCCCTGTTTAATGAATTTTATAAACAAATTTTTACC
ACTACACCAATAATAATTCTTAAGTAAACTTAAAAAAAA
Found at i:12918818 original size:10 final size:9
Alignment explanation
Indices: 12918784--12918819 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
12918774 AGTTTACCAC
12918784 CAATTAAAA
1 CAATTAAAA
12918793 CAATTAAAA
1 CAATTAAAA
*
12918802 AAATTAAAA
1 CAATTAAAA
12918811 CAACTTAAA
1 CAA-TTAAA
12918820 CACTAACCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 19 0.79
10 5 0.21
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (9 bp):
CAATTAAAA
Found at i:12921897 original size:121 final size:115
Alignment explanation
Indices: 12921727--12921946 Score: 327
Period size: 115 Copynumber: 1.9 Consensus size: 115
12921717 TACTCTAATA
* *
12921727 TTCACGCATGGGAAAGAAAATTTTCATCAATATCCAATTAAAAATATAAAAAAATAAAAAAAATC
1 TTCACACATGGGAAAGAAAATTTTCATCAATATCCAATT----A-A-AAAAATA-AAAAAAAATC
*
12921792 -CTCAATTTCTTATGAACCCTAAAACAAATCGGCTAAATATGCTTACCTGAATACAT
59 ACACAATTTCTTATGAACCCTAAAACAAATCGGCTAAATATGCTTACCTGAATACAT
12921848 TTCACACATGGGAAAG-AAATGTTTCATCAATATCCAATTAAAAAAATAAAAAAAAATCACACAA
1 TTCACACATGGGAAAGAAAAT-TTTCATCAATATCCAATTAAAAAAATAAAAAAAAATCACACAA
12921912 TTTCTTATGAACCCTAAAACAAATCGGCTAAATAT
65 TTTCTTATGAACCCTAAAACAAATCGGCTAAATAT
12921947 ATAGTGACTA
Statistics
Matches: 94, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
114 10 0.11
115 45 0.48
116 1 0.01
117 1 0.01
120 4 0.04
121 33 0.35
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.26
Consensus pattern (115 bp):
TTCACACATGGGAAAGAAAATTTTCATCAATATCCAATTAAAAAAATAAAAAAAAATCACACAAT
TTCTTATGAACCCTAAAACAAATCGGCTAAATATGCTTACCTGAATACAT
Found at i:12922918 original size:23 final size:23
Alignment explanation
Indices: 12922874--12922918 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
12922864 ATGGATGAAA
* *
12922874 GTTAAAATATTTATATTAAACAT
1 GTTAAAATATTCATATAAAACAT
12922897 GTTAAAA-ATTCATATAATAACA
1 GTTAAAATATTCATATAA-AACA
12922919 ATTGCCATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (23 bp):
GTTAAAATATTCATATAAAACAT
Found at i:12925573 original size:39 final size:39
Alignment explanation
Indices: 12925518--12925593 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
12925508 TTGAACGCGG
*
12925518 GATTGAGTACAGTCGTTCTGTGCCAAAGGATGAATTGAT
1 GATTGAGTACAATCGTTCTGTGCCAAAGGATGAATTGAT
*
12925557 GATTGAGTACAATCGTTCTGTGGCAAAGGATGAATTG
1 GATTGAGTACAATCGTTCTGTGCCAAAGGATGAATTG
12925594 TCGGATAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (39 bp):
GATTGAGTACAATCGTTCTGTGCCAAAGGATGAATTGAT
Found at i:12928435 original size:19 final size:19
Alignment explanation
Indices: 12928411--12928447 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
12928401 AGCCGTCCTA
*
12928411 TCCTTTCTTTTTTCTACTC
1 TCCTTTCTCTTTTCTACTC
12928430 TCCTTTCTCTTTTCTACT
1 TCCTTTCTCTTTTCTACT
12928448 TTGATGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.62
Consensus pattern (19 bp):
TCCTTTCTCTTTTCTACTC
Found at i:12930936 original size:16 final size:17
Alignment explanation
Indices: 12930915--12930949 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
12930905 AATTAATTTA
*
12930915 AATTAATTAA-TTTCTC
1 AATTAAATAATTTTCTC
12930931 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
12930948 AA
1 AA
12930950 CCTAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:12940105 original size:43 final size:42
Alignment explanation
Indices: 12939970--12940119 Score: 160
Period size: 42 Copynumber: 3.5 Consensus size: 42
12939960 AATGTGATAT
*
12939970 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCG-ATTTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACAG-TGGCATCGTATAT--GA-TTA
* *
12940014 CGTGTAAGACCATGTCTGGGACATTGGCGTCGTATATGATTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATTA
* * * * *
12940056 TGTGTAAGGCCCTGTCTGGGACAGTGGCATTGTTATTTGATTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCG-TATATGATTA
*
12940099 CATGTAAGACCATGTCTGGGA
1 CGTGTAAGACCATGTCTGGGA
12940120 TGTTGGCATT
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 29 0.33
43 28 0.31
44 29 0.33
45 3 0.03
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCGTATATGATTA
Found at i:12940131 original size:43 final size:42
Alignment explanation
Indices: 12939970--12940128 Score: 178
Period size: 43 Copynumber: 3.7 Consensus size: 42
12939960 AATGTGATAT
12939970 CGTGTAAGACCATGTCTGGGACGTTGGCATCG-ATTTGAGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGTATTT--GA-TTA
* * *
12940014 CGTGTAAGACCATGTCTGGGACATTGGCGTCGTATATGATTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTA
* * * *
12940056 TGTGTAAGGCCCTGTCTGGGACAG-TGGCATTGTTATTTGATTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCG-TATTTGATTA
* *
12940099 CATGTAAGACCATGTCTGGGATGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
12940129 TGTACGAGCC
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 29 0.30
43 34 0.35
44 30 0.31
45 3 0.03
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.33
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATTA
Found at i:12946876 original size:2 final size:2
Alignment explanation
Indices: 12946869--12946918 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
12946859 CATTACTCTA
*
12946869 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12946911 AT AT AT AT
1 AT AT AT AT
12946919 CACACCNNNN
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12950819 original size:19 final size:19
Alignment explanation
Indices: 12950783--12950825 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
12950773 ATTAAAAATA
12950783 TAAAATTAATTTTCCATT-
1 TAAAATTAATTTTCCATTG
* *
12950801 TAAAATTAGGTTTTTCATTG
1 TAAAATTA-ATTTTCCATTG
12950821 TAAAA
1 TAAAA
12950826 ACCCATGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (19 bp):
TAAAATTAATTTTCCATTG
Found at i:12960229 original size:40 final size:41
Alignment explanation
Indices: 12960151--12960231 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
12960141 TGTTACTAAA
* *
12960151 TACTACATGATTGCTACTGATACTGTGATGGGCTAAGGCCC
1 TACTACATGATTGATACTGATACTGAGATGGGCTAAGGCCC
*
12960192 TACTACAT-ATTTGATACTG-TATTGAGATGGGCTAAGGCCC
1 TACTACATGA-TTGATACTGATACTGAGATGGGCTAAGGCCC
12960232 AAACTGTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 20 0.56
41 16 0.44
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (41 bp):
TACTACATGATTGATACTGATACTGAGATGGGCTAAGGCCC
Found at i:12963256 original size:33 final size:33
Alignment explanation
Indices: 12963205--12963271 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
12963195 TAATATAAGA
* *
12963205 ATATAATATGATATACAATCATATTTTAGTCTT
1 ATATAATACGATATACAATCATATTTGAGTCTT
*
12963238 ATATGATACGATATACAATCATATTTGAGTCTT
1 ATATAATACGATATACAATCATATTTGAGTCTT
12963271 A
1 A
12963272 CACGAGCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (33 bp):
ATATAATACGATATACAATCATATTTGAGTCTT
Found at i:12967047 original size:23 final size:25
Alignment explanation
Indices: 12966991--12967079 Score: 78
Period size: 26 Copynumber: 3.6 Consensus size: 25
12966981 ACCATATGTC
12966991 ATATGAGCTTACCGATATATCAGCTC-
1 ATATGAGCTTACCG-TAT-TCAGCTCG
*
12967017 TTATGAGCTTACCGT-TTCAGCTCG
1 ATATGAGCTTACCGTATTCAGCTCG
* * *
12967041 ATA-GAGCTCACCATTCTTCAGCTCGG
1 ATATGAGCTTACC-GTATTCAGCTC-G
12967067 A-ATGAGCTTACCG
1 ATATGAGCTTACCG
12967080 ATCATGGCTC
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
23 15 0.29
24 4 0.08
25 10 0.19
26 23 0.44
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (25 bp):
ATATGAGCTTACCGTATTCAGCTCG
Found at i:12971664 original size:28 final size:28
Alignment explanation
Indices: 12971623--12971676 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
12971613 TGCTCGGAAA
12971623 GATCAACTCAAGATCGACGATAGGGAGG
1 GATCAACTCAAGATCGACGATAGGGAGG
* *
12971651 GATCAACTCGAGATTGACGATAGGGA
1 GATCAACTCAAGATCGACGATAGGGA
12971677 AGTTGAATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.17
Consensus pattern (28 bp):
GATCAACTCAAGATCGACGATAGGGAGG
Found at i:12972341 original size:20 final size:20
Alignment explanation
Indices: 12972315--12972367 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
12972305 TTGGAGAGGG
*
12972315 AATATTGATACCTTAGGAAA
1 AATATTGATACCTTAAGAAA
*
12972335 TATATTGATACCTTAAGAAA
1 AATATTGATACCTTAAGAAA
*
12972355 AATATCGATACCT
1 AATATTGATACCT
12972368 GATCAATACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.32
Consensus pattern (20 bp):
AATATTGATACCTTAAGAAA
Found at i:12973695 original size:50 final size:51
Alignment explanation
Indices: 12973631--12973731 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 51
12973621 ATAGCAGTTA
12973631 TAATTGATTTAG-ACATATCTAAATGCCTTGGAGAGCAGGTTTCATTTTAC
1 TAATTGATTTAGAACATATCTAAATGCCTTGGAGAGCAGGTTTCATTTTAC
* * *
12973681 TAATTGATTTAGACACATATCTAAATGTCTTTGAGAGCAGGTTTCTTTTTA
1 TAATTGATTTAGA-ACATATCTAAATGCCTTGGAGAGCAGGTTTCATTTTA
12973732 ATATATAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 12 0.26
52 34 0.74
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (51 bp):
TAATTGATTTAGAACATATCTAAATGCCTTGGAGAGCAGGTTTCATTTTAC
Found at i:12976871 original size:40 final size:40
Alignment explanation
Indices: 12976827--12976930 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 40
12976817 AAGCACATTG
* * ** *
12976827 ACGTGGGAGTGTTTTACCCTTTGTTAGCAAAAGCGCGCTA
1 ACGTGGGAGCGCTTTACCCCGTGTCAGCAAAAGCGCGCTA
* *
12976867 ACGTGGGAGCGCTTTACCCCGTGTCAGCAAAAGCGTGCTG
1 ACGTGGGAGCGCTTTACCCCGTGTCAGCAAAAGCGCGCTA
* * * *
12976907 ACGTGAGCGCACTTTACACCGTGT
1 ACGTGGGAGCGCTTTACCCCGTGT
12976931 TTGATTAGGG
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.25
Consensus pattern (40 bp):
ACGTGGGAGCGCTTTACCCCGTGTCAGCAAAAGCGCGCTA
Found at i:12977029 original size:27 final size:29
Alignment explanation
Indices: 12976973--12977037 Score: 100
Period size: 27 Copynumber: 2.3 Consensus size: 29
12976963 GGGCTTAGGG
*
12976973 TTAGGG-TTAGTGTTTTTGAAAAAATAAA
1 TTAGGGTTTAGTGGTTTTGAAAAAATAAA
12977001 TTAGGGTTTAG-GGTTTT-AAAAAATAAA
1 TTAGGGTTTAGTGGTTTTGAAAAAATAAA
12977028 TTAGGGTTTA
1 TTAGGGTTTA
12977038 ATTTTTTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 20 0.57
28 11 0.31
29 4 0.11
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (29 bp):
TTAGGGTTTAGTGGTTTTGAAAAAATAAA
Found at i:12977044 original size:27 final size:27
Alignment explanation
Indices: 12976985--12977044 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
12976975 AGGGTTAGTG
* *
12976985 TTTTTGAAAAAATAAATTAGGGTTTAG
1 TTTTTTAAAAAATAAATTAGGGTTTAA
**
12977012 GGTTTTAAAAAATAAATTAGGGTTTAA
1 TTTTTTAAAAAATAAATTAGGGTTTAA
12977039 TTTTTT
1 TTTTTT
12977045 TAATTGGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (27 bp):
TTTTTTAAAAAATAAATTAGGGTTTAA
Found at i:12978432 original size:59 final size:59
Alignment explanation
Indices: 12978349--12978515 Score: 203
Period size: 59 Copynumber: 2.8 Consensus size: 59
12978339 TAACTCTTAA
** ** *
12978349 TTTATTAAATGAAACAATGA-AAAAATAATTTGTA-TTATCTCATTCAAAAGAACTTCTAT
1 TTTATTAAATGAAACAAT-ATAAAAATAATTTGTACAAAAAT-ATTCAAAACAACTTCTAT
* * *
12978408 TTTATTAAATGAAATAATATAAAAATAGTTTGTACAAAAATATTCAAAACAACTTCTGT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTTCTAT
* * *
12978467 TTTATTAAATGAAACAATATAAAAACAATTTGTACAAATATATTAAAAA
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAA
12978516 ATCAATGCAT
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
58 1 0.01
59 90 0.97
60 2 0.02
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (59 bp):
TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAACAACTTCTAT
Found at i:12978916 original size:18 final size:17
Alignment explanation
Indices: 12978876--12978916 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
12978866 GAGTGGAAAA
*
12978876 AGGAAACATATAAGGTT
1 AGGATACATATAAGGTT
*
12978893 ATGATACATATAAGGGTT
1 AGGATACATATAA-GGTT
12978911 AGGATA
1 AGGATA
12978917 TGCACCTGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.44, C:0.05, G:0.24, T:0.27
Consensus pattern (17 bp):
AGGATACATATAAGGTT
Found at i:12979904 original size:49 final size:49
Alignment explanation
Indices: 12979830--12979929 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
12979820 GGCAACCTCC
* *
12979830 GATTTTGATTTTATTTGGTTACGTCGCCCGACACATCTCCCGATACAAT
1 GATTTTGATTTTATTTAGTTACGTCGCCCAACACATCTCCCGATACAAT
* *
12979879 GATTTTGATTTTATTTAGTTGCGTCGCCCAACACATCTCTCGATACAAT
1 GATTTTGATTTTATTTAGTTACGTCGCCCAACACATCTCCCGATACAAT
12979928 GA
1 GA
12979930 CGACAACACA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (49 bp):
GATTTTGATTTTATTTAGTTACGTCGCCCAACACATCTCCCGATACAAT
Found at i:12989932 original size:273 final size:274
Alignment explanation
Indices: 12989412--12989950 Score: 852
Period size: 273 Copynumber: 2.0 Consensus size: 274
12989402 TAATAGAAGT
* * *
12989412 CGTATATCTTTAAGAGCGGTAGGTATTCCAACATAACTTACCAAATGGTTCCACCTAATTAAATG
1 CGTATATCTTTAAGAGCGATAGGTATTCCAACATAACTTACCAAATGGTTCAACCTAATTAAATA
* * *
12989477 AATTTTTAGCATAAAATCATATTTTAAATCTATGTAATAATTGTAAAATTTAATATACATTTTAC
66 AAATTTTAGCATAAAATCATATTTTAAATCTATGTAATAATTGTAAAATCTAATATAAATTTTAC
* *
12989542 CTCGTTATGAGTGAGAATGAATCCATGTAGTTCACTTGAGGACATAAAAATGGAAAGTGAAACTG
131 CTCGTTAAGAGTGAGAATGAATACATGTAGTTCACTTGAGGACATAAAAATGGAAAGTGAAACTG
* *
12989607 AGCCCATGATTGTAGCAGTGAGAGGCAACCTCCGATTTGATTTTATTTTGGTTGCGTCTCCCGAC
196 AGCCCATGATTGTAGCAGTGAGAGGCAACCTCCGATTTGATTTTATTTTGGTTACGTCGCCCGAC
*
12989672 GCATCTAAAAAAGC
261 ACATCTAAAAAAGC
* * *
12989686 CGTATAT-TTTCAAGAGCGATAGGTATTCC-CCGTAACTCT-CCAAATGGTTCAACCTATTTAAA
1 CGTATATCTTT-AAGAGCGATAGGTATTCCAACATAACT-TACCAAATGGTTCAACCTAATTAAA
* *
12989748 TAAAATTTTAGTATAAAATTATATTTTAAATCTATGTAATAATTGTAAAATCTAATATAAATTTT
64 TAAAATTTTAGCATAAAATCATATTTTAAATCTATGTAATAATTGTAAAATCTAATATAAATTTT
* * *
12989813 ATCTTGTTAAGAGTGAGAATGTATACATGTAGTTCACTTGAGGACATAAAAATGGAAAGTGAAAC
129 ACCTCGTTAAGAGTGAGAATGAATACATGTAGTTCACTTGAGGACATAAAAATGGAAAGTGAAAC
12989878 TGAGCCCATGATTGTAGCAGTGAGAGGCAACCTCCGATTTTGATTTTA-TTTGGTTACGTCGCCC
194 TGAGCCCATGATTGTAGCAGTGAGAGGCAACCTCCGA-TTTGATTTTATTTTGGTTACGTCGCCC
12989942 GACACATCT
258 GACACATCT
12989951 CCCGATACAA
Statistics
Matches: 243, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
273 208 0.86
274 35 0.14
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (274 bp):
CGTATATCTTTAAGAGCGATAGGTATTCCAACATAACTTACCAAATGGTTCAACCTAATTAAATA
AAATTTTAGCATAAAATCATATTTTAAATCTATGTAATAATTGTAAAATCTAATATAAATTTTAC
CTCGTTAAGAGTGAGAATGAATACATGTAGTTCACTTGAGGACATAAAAATGGAAAGTGAAACTG
AGCCCATGATTGTAGCAGTGAGAGGCAACCTCCGATTTGATTTTATTTTGGTTACGTCGCCCGAC
ACATCTAAAAAAGC
Found at i:12989987 original size:49 final size:49
Alignment explanation
Indices: 12989913--12990012 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
12989903 GGCAACCTCC
* *
12989913 GATTTTGATTTTATTTGGTTACGTCGCCCGACACATCTCCCGATACAAT
1 GATTTTGATTTTATTTAGTTACGTCGCCCAACACATCTCCCGATACAAT
* *
12989962 GATTTTGATTTTATTTAGTTGCGTCGCCCAACACATCTCTCGATACAAT
1 GATTTTGATTTTATTTAGTTACGTCGCCCAACACATCTCCCGATACAAT
12990011 GA
1 GA
12990013 CGACAACACA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (49 bp):
GATTTTGATTTTATTTAGTTACGTCGCCCAACACATCTCCCGATACAAT
Found at i:12990643 original size:32 final size:32
Alignment explanation
Indices: 12990572--12990644 Score: 78
Period size: 32 Copynumber: 2.2 Consensus size: 32
12990562 CCGACTGATA
* *
12990572 TAAAAAATTATAAAAAAAATTATTAATTAAAT
1 TAAAAAATGATAAAAAAAATTATTAAATAAAT
*
12990604 TACAAAAATGA-AATAAAAA-TATTAAATAATATT
1 TA-AAAAATGATAAAAAAAATTATTAAATAA-A-T
12990637 TAAAAAAT
1 TAAAAAAT
12990645 TAAAATTAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
31 9 0.26
32 16 0.46
33 10 0.29
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (32 bp):
TAAAAAATGATAAAAAAAATTATTAAATAAAT
Found at i:12991008 original size:40 final size:41
Alignment explanation
Indices: 12990950--12991026 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 41
12990940 TTGGGGGGAA
* *
12990950 ACACATGGGTAAAGCGCTCCCACGTCAGCACGCTTTTGCTG
1 ACACATGGGTAAAACGCTCCCACGTCAACACGCTTTTGCTG
* *
12990991 ACACA-GGGTAAAACGCTCTCACGTCAACGCGCTTTT
1 ACACATGGGTAAAACGCTCCCACGTCAACACGCTTTT
12991027 CTGCATTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 27 0.84
41 5 0.16
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (41 bp):
ACACATGGGTAAAACGCTCCCACGTCAACACGCTTTTGCTG
Found at i:12991495 original size:26 final size:27
Alignment explanation
Indices: 12991466--12991522 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
12991456 CCATTTTTTT
* **
12991466 AATAAAAACT-AAAAATTTATTTTAAA
1 AATAAAAAATAAAAAAAATATTTTAAA
12991492 AATAAAAAATAAAAAAAATATTTTAAA
1 AATAAAAAATAAAAAAAATATTTTAAA
12991519 AATA
1 AATA
12991523 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (27 bp):
AATAAAAAATAAAAAAAATATTTTAAA
Found at i:12991531 original size:10 final size:11
Alignment explanation
Indices: 12991505--12991530 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12991495 AAAAAATAAA
12991505 AAAAATATTTT
1 AAAAATATTTT
12991516 AAAAATATTTT
1 AAAAATATTTT
12991527 AAAA
1 AAAA
12991531 TTAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:12996082 original size:24 final size:24
Alignment explanation
Indices: 12996055--12996106 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12996045 TTAGTAAGTC
*
12996055 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
12996079 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
12996103 AAAT
1 AAAT
12996107 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:12997745 original size:24 final size:24
Alignment explanation
Indices: 12997718--12997769 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
12997708 TTAGTAAGTC
*
12997718 AAATAAACT-ATACTAATAAATGCT
1 AAATAAA-TAATACTAATAAATACT
*
12997742 AAATATATAATACTAATAAATACT
1 AAATAAATAATACTAATAAATACT
12997766 AAAT
1 AAAT
12997770 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAATAATACTAATAAATACT
Found at i:13009160 original size:39 final size:39
Alignment explanation
Indices: 13009111--13009190 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
13009101 TTTCTAAGTA
13009111 TAAATTCTATTTTTCAGGAAAATCAATTTTATCGATTTC
1 TAAATTCTATTTTTCAGGAAAATCAATTTTATCGATTTC
13009150 TAAATTCTATTTTTCAGGAAAATCAATTTTATCGATTTC
1 TAAATTCTATTTTTCAGGAAAATCAATTTTATCGATTTC
13009189 TA
1 TA
13009191 TTGAGAGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (39 bp):
TAAATTCTATTTTTCAGGAAAATCAATTTTATCGATTTC
Found at i:13014367 original size:14 final size:14
Alignment explanation
Indices: 13014333--13014367 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
13014323 TTTAAAAAAT
13014333 ATATTTTTACATAA
1 ATATTTTTACATAA
*
13014347 GTATTTTTACATAA
1 ATATTTTTACATAA
13014361 AT-TTTTT
1 ATATTTTT
13014368 CATCTAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (14 bp):
ATATTTTTACATAA
Found at i:13019083 original size:18 final size:18
Alignment explanation
Indices: 13019060--13019102 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
13019050 AGGGTTAGTG
13019060 GGCCCAAGAGGAGCATTC
1 GGCCCAAGAGGAGCATTC
13019078 GGCCCAAGAGGAGCATTC
1 GGCCCAAGAGGAGCATTC
13019096 GGCCCAA
1 GGCCCAA
13019103 TATTAGTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.33, T:0.09
Consensus pattern (18 bp):
GGCCCAAGAGGAGCATTC
Found at i:13019290 original size:21 final size:21
Alignment explanation
Indices: 13019266--13019306 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13019256 TATACCCATC
13019266 AGCACACA-CATTTTGACCAGA
1 AGCACA-ATCATTTTGACCAGA
*
13019287 AGCACAATTATTTTGACCAG
1 AGCACAATCATTTTGACCAG
13019307 CCCCAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (21 bp):
AGCACAATCATTTTGACCAGA
Found at i:13025132 original size:19 final size:20
Alignment explanation
Indices: 13025095--13025136 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
13025085 AAAAAACTTT
13025095 CAAAATATAATTTTATTAAA
1 CAAAATATAATTTTATTAAA
13025115 CAAAA-ATAATATTT-TTAAA
1 CAAAATATAAT-TTTATTAAA
13025134 CAA
1 CAA
13025137 TAAGTGTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (20 bp):
CAAAATATAATTTTATTAAA
Found at i:13025548 original size:11 final size:11
Alignment explanation
Indices: 13025532--13025566 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
13025522 GTCAAATTTT
13025532 CTCTCAATCTC
1 CTCTCAATCTC
*
13025543 CTCTCAATTTC
1 CTCTCAATCTC
*
13025554 CTCTCAATGTC
1 CTCTCAATCTC
13025565 CT
1 CT
13025567 TCCAAATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.17, C:0.40, G:0.03, T:0.40
Consensus pattern (11 bp):
CTCTCAATCTC
Found at i:13025557 original size:22 final size:22
Alignment explanation
Indices: 13025524--13025582 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
13025514 AATCCTCTGT
13025524 CAAATTTTCTCTCAATCTCC-TC
1 CAAA-TTTCTCTCAATCTCCTTC
*
13025546 TC-AATTTCCTCTCAATGTCCTTC
1 -CAAATTT-CTCTCAATCTCCTTC
13025569 CAAATTTCTCTCAA
1 CAAATTTCTCTCAA
13025583 ATTCATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.09
22 21 0.66
23 8 0.25
ACGTcount: A:0.24, C:0.34, G:0.02, T:0.41
Consensus pattern (22 bp):
CAAATTTCTCTCAATCTCCTTC
Found at i:13025643 original size:51 final size:51
Alignment explanation
Indices: 13025544--13025643 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
13025534 CTCAATCTCC
* *
13025544 TCTCAATTTCCTCTCAATGTCCTTCCAAATTTCTCTCAAATTCATATTTAA
1 TCTCAATTACCTCTCAATGTCCTTCCAAATTTCTCTCAAATCCATATTTAA
* ** * *
13025595 TCTCAATTAGCTCTCAAAT-TCCTTTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTACCTCTC-AATGTCCTTCCAAATTTCTCTCAAATCCATATTT
13025644 TTAAATAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 38 0.93
52 3 0.07
ACGTcount: A:0.27, C:0.26, G:0.02, T:0.45
Consensus pattern (51 bp):
TCTCAATTACCTCTCAATGTCCTTCCAAATTTCTCTCAAATCCATATTTAA
Found at i:13028634 original size:16 final size:17
Alignment explanation
Indices: 13028595--13028641 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
13028585 TCATTTTATA
*
13028595 TATG-TTATTTTAAAAT
1 TATGTTTATTTTCAAAT
*
13028611 TTTGTTTATTTTCAAAT
1 TATGTTTATTTTCAAAT
*
13028628 TAT-TTTAATTTCAA
1 TATGTTTATTTTCAA
13028642 TTTTCTCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (17 bp):
TATGTTTATTTTCAAAT
Found at i:13031115 original size:22 final size:22
Alignment explanation
Indices: 13031054--13031284 Score: 228
Period size: 22 Copynumber: 10.6 Consensus size: 22
13031044 TAACCCTAAT
*
13031054 CCTAACCCTT-AACTTAAAAAC
1 CCTAAACCTTAAACTTAAAAAC
13031075 CCT-AACTCTTAAA-TTAAAAAC
1 CCTAAAC-CTTAAACTTAAAAAC
*
13031096 GCT-AACCTTAAACTTAAAAAC
1 CCTAAACCTTAAACTTAAAAAC
* *
13031117 CCCAAACCTTAAACCTAAAAAC
1 CCTAAACCTTAAACTTAAAAAC
*
13031139 CCTAAACCCTAAACTTAAAAAC
1 CCTAAACCTTAAACTTAAAAAC
*
13031161 TCTAAACAC-TAAACTTAAAAAC
1 CCTAAAC-CTTAAACTTAAAAAC
*
13031183 CCTAAAACC-TAAACCTAAAAAAC
1 CCT-AAACCTTAAA-CTTAAAAAC
* * *
13031206 TCTAAACCCTAAACCTAAAAAC
1 CCTAAACCTTAAACTTAAAAAC
13031228 CAC-AAACAC-TAAACTT-AAAAC
1 C-CTAAAC-CTTAAACTTAAAAAC
*
13031249 CCTTAAACCCTAAACTTAAAAAC
1 CC-TAAACCTTAAACTTAAAAAC
*
13031272 CCTAAACCATAAA
1 CCTAAACCTTAAA
13031285 ACCTTAACTT
Statistics
Matches: 179, Mismatches: 17, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
20 9 0.05
21 35 0.20
22 107 0.60
23 28 0.16
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.19
Consensus pattern (22 bp):
CCTAAACCTTAAACTTAAAAAC
Found at i:13031271 original size:15 final size:15
Alignment explanation
Indices: 13031253--13031305 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
13031243 TAAAACCCTT
13031253 AAACCCTAAACTTAA
1 AAACCCTAAACTTAA
*
13031268 AAACCCTAAAC-CATA
1 AAACCCTAAACTTA-A
* *
13031283 AAA-CCTTAACTTTA
1 AAACCCTAAACTTAA
13031297 AAACCCTAA
1 AAACCCTAA
13031306 CCCTTAAGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
AAACCCTAAACTTAA
Found at i:13034628 original size:126 final size:126
Alignment explanation
Indices: 13034339--13034681 Score: 356
Period size: 126 Copynumber: 2.7 Consensus size: 126
13034329 CCCAAACATG
* * *
13034339 CTACTGTAGCAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTTTTCTCATAAAGCA-TCTTG
1 CTACTGTAGCAAAAGCGCGTCCACATGGGCGCGATTTCACAAATTCTTCTCATAAAGCATTCTTG
* * * *
13034403 GTAGAAGCAATTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGAC
66 CTAGAAGCAATTTTATACTATTTGCTCAGAAACATCAACTCAAAATAATTTCTTCCAAGAC
* * * *
13034464 CAACTGTAGCCAAAGCACGTCCACGA-GGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATTC-
1 CTACTGTAGCAAAAGCGCGTCCAC-ATGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATTCT
* ** * * * ** *
13034526 TGCTTGAAGCGTTTTTTTATTCTATTTGCTTAGAAACATCAATTTGAAATAATTT-TTTCAAGAC
64 TGCTAGAAGC--AATTTTATACTATTTGCTCAGAAACATCAACTCAAAATAATTTCTTCCAAGAC
* * *
13034590 CTACTGTAGCAAAAGCGCGTCCACATGGGCGCGGTTTCACATATTCTTCTCATAAAGCA-TCCTG
1 CTACTGTAGCAAAAGCGCGTCCACATGGGCGCGATTTCACAAATTCTTCTCATAAAGCATTCTTG
* * ** *
13034654 GTATAAGTGATTTTATACTATTTTCTCA
66 CTAGAAGCAATTTTATACTATTTGCTCA
13034682 AGGAGAAACT
Statistics
Matches: 175, Mismatches: 35, Indels: 17
0.77 0.15 0.07
Matches are distributed among these distances:
124 17 0.10
125 59 0.34
126 63 0.36
127 36 0.21
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACATGGGCGCGATTTCACAAATTCTTCTCATAAAGCATTCTTG
CTAGAAGCAATTTTATACTATTTGCTCAGAAACATCAACTCAAAATAATTTCTTCCAAGAC
Found at i:13037987 original size:27 final size:27
Alignment explanation
Indices: 13037954--13038010 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
13037944 AAGGAAAGGA
13037954 ATGGTAAGTGTTCAAAGGAACTATGTC
1 ATGGTAAGTGTTCAAAGGAACTATGTC
*
13037981 ATGGTAAGTGTTCAAATGAACTATGTC
1 ATGGTAAGTGTTCAAAGGAACTATGTC
13038008 ATG
1 ATG
13038011 AAGCTCTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (27 bp):
ATGGTAAGTGTTCAAAGGAACTATGTC
Found at i:13041665 original size:13 final size:14
Alignment explanation
Indices: 13041649--13041678 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13041639 AAAGCAATTG
13041649 AAAAA-GCATAACA
1 AAAAATGCATAACA
13041662 AAAAATGCATAACA
1 AAAAATGCATAACA
13041676 AAA
1 AAA
13041679 TAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.70, C:0.13, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATGCATAACA
Found at i:13041718 original size:32 final size:32
Alignment explanation
Indices: 13041669--13041747 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
13041659 ACAAAAAATG
*
13041669 CATAACAAA-ATA-AAATATATAAATCCAAAA
1 CATAAAAAATATATAAATATATAAATCCAAAA
13041699 CATAAAAAATATATAAATATATAAATCCAAAA
1 CATAAAAAATATATAAATATATAAATCCAAAA
* *
13041731 AATATAAAAATAAATAA
1 CATA-AAAAATATATAA
13041748 TAAAAATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 8 0.19
31 3 0.07
32 21 0.49
33 11 0.26
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (32 bp):
CATAAAAAATATATAAATATATAAATCCAAAA
Found at i:13041752 original size:13 final size:13
Alignment explanation
Indices: 13041730--13041761 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13041720 TAAATCCAAA
13041730 AAAT-ATAAAAAT
1 AAATAATAAAAAT
13041742 AAATAATAAAAAT
1 AAATAATAAAAAT
13041755 AAA-AATA
1 AAATAATA
13041762 GGGTTGGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAATAAAAAT
Found at i:13042141 original size:37 final size:36
Alignment explanation
Indices: 13042095--13042174 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
13042085 AATTCATATT
* * *
13042095 CCCC-AAGCCCAAATATTTTTACTTTACCCTATTTCC
1 CCCCAAAGCCCAAA-ACTTTTACGTCACCCTATTTCC
*
13042131 CCCCAAAGCCCAAACCTTTTACGTCACCCTATTTCC
1 CCCCAAAGCCCAAAACTTTTACGTCACCCTATTTCC
*
13042167 CCCTAAAG
1 CCCCAAAG
13042175 GCCACCTGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
36 29 0.76
37 9 0.24
ACGTcount: A:0.26, C:0.40, G:0.05, T:0.29
Consensus pattern (36 bp):
CCCCAAAGCCCAAAACTTTTACGTCACCCTATTTCC
Found at i:13042383 original size:44 final size:42
Alignment explanation
Indices: 13042282--13042383 Score: 116
Period size: 44 Copynumber: 2.4 Consensus size: 42
13042272 AATGTCAAAT
*
13042282 TTCTTCTTCTCCTTCAAAAAAAACCCCTAAATTAAACCCCAA
1 TTCTTCTTCTTCTTCAAAAAAAACCCCTAAATTAAACCCCAA
* * * *
13042324 ATCAATTATTC-TCTTCTTAAAAAAACCCCTAAATTAAACTCCCCA
1 TTC--TTCTTCTTCTTC-AAAAAAAACCCCTAAATTAAAC-CCCAA
13042369 TTCTTCTTCTTCTTC
1 TTCTTCTTCTTCTTC
13042384 CTCATCAGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.04
43 9 0.19
44 31 0.65
45 6 0.12
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.35
Consensus pattern (42 bp):
TTCTTCTTCTTCTTCAAAAAAAACCCCTAAATTAAACCCCAA
Found at i:13049869 original size:14 final size:14
Alignment explanation
Indices: 13049852--13049905 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
13049842 AAAAATAATA
13049852 ATTGAGAATTGAGG
1 ATTGAGAATTGAGG
* *
13049866 ATTGAAAATTGAGA
1 ATTGAGAATTGAGG
* * *
13049880 ATTTAGGATTGAAG
1 ATTGAGAATTGAGG
*
13049894 ATTGAGTATTGA
1 ATTGAGAATTGA
13049906 ATTAAAAATA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (14 bp):
ATTGAGAATTGAGG
Found at i:13049875 original size:21 final size:21
Alignment explanation
Indices: 13049851--13049905 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
13049841 TAAAAATAAT
13049851 AATTGAGAATTGAGGATTGAA
1 AATTGAGAATTGAGGATTGAA
*
13049872 AATTGAGAATTTAGGATTGAA
1 AATTGAGAATTGAGGATTGAA
* *
13049893 GATTGAGTATTGA
1 AATTGAGAATTGA
13049906 ATTAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (21 bp):
AATTGAGAATTGAGGATTGAA
Found at i:13067967 original size:41 final size:41
Alignment explanation
Indices: 13067909--13068038 Score: 224
Period size: 41 Copynumber: 3.1 Consensus size: 41
13067899 CTTAATTTAA
*
13067909 CAGATTCACCGGCACTTAACCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
13067951 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGACT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
13067992 CAGATCACGGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
13068033 CAGATC
1 CAGATC
13068039 GCATAAGATA
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
41 80 0.95
42 4 0.05
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:13072978 original size:49 final size:49
Alignment explanation
Indices: 13072895--13072997 Score: 122
Period size: 49 Copynumber: 2.1 Consensus size: 49
13072885 GTACATGTAT
* *
13072895 GCTCATACGAGCTTTGAATCGATATGCTCTTACGAGCTGTAAT-T-GGTAA
1 GCTCATACGAGC-TTGAATCGATAAGCTCATACGAGCTG-AATATCGGTAA
*
13072944 GCTCATACGAGC-TGAATAACGGTAAGCTCATACGAGCTGAATATCGGTAA
1 GCTCATACGAGCTTGAAT--CGATAAGCTCATACGAGCTGAATATCGGTAA
13072994 GCTC
1 GCTC
13072998 TCTCGAGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
47 5 0.11
48 3 0.06
49 30 0.64
50 9 0.19
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (49 bp):
GCTCATACGAGCTTGAATCGATAAGCTCATACGAGCTGAATATCGGTAA
Found at i:13073004 original size:25 final size:25
Alignment explanation
Indices: 13072895--13072997 Score: 115
Period size: 25 Copynumber: 4.2 Consensus size: 25
13072885 GTACATGTAT
* *
13072895 GCTCATACGAGCTTTG-A-ATCGATAT
1 GCTCATACGAGC--TGAATATCGGTAA
*
13072920 GCTCTTACGAGCTGTAAT-T-GGTAA
1 GCTCATACGAGCTG-AATATCGGTAA
*
13072944 GCTCATACGAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATATCGGTAA
13072969 GCTCATACGAGCTGAATATCGGTAA
1 GCTCATACGAGCTGAATATCGGTAA
13072994 GCTC
1 GCTC
13072998 TCTCGAGTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
23 5 0.07
24 16 0.24
25 46 0.69
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTGAATATCGGTAA
Found at i:13077206 original size:12 final size:12
Alignment explanation
Indices: 13077189--13077214 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13077179 GGTATAAGCA
13077189 ATCGTGGAGGAT
1 ATCGTGGAGGAT
13077201 ATCGTGGAGGAT
1 ATCGTGGAGGAT
13077213 AT
1 AT
13077215 AGAGGTGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.08, G:0.38, T:0.27
Consensus pattern (12 bp):
ATCGTGGAGGAT
Done.