Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 50 of 290
Found at i:16010840 original size:412 final size:403
Alignment explanation
Indices: 16010010--16011182 Score: 1052
Period size: 412 Copynumber: 2.8 Consensus size: 403
16010000 GTTGATTTTT
* * * * *
16010010 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCC-AAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTG-AAAAGACCTCAGCGTG---CCCTGAGACTCAACTCACCTCTCGCAAT
* * * * **
16010074 ATGAGTTGATTTTTTGAAAAA-TAGAAATTGAAAACACCTCAGCAAGT---GAGGCTCAACTCAC
62 ATGAGTTGATTTTTTAAAAAAGAAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCAC
*** * *
16010135 CTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAGCAGAAATTGAAAATACCTCAACGG
127 CTCTCGCAATATGAGTTGATTTTT-TTGAA-A-AAA-T----AG-AATTGAAAATACCTCAGCGT
* * **
16010200 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--ATGATAAATTGAAAATAC
183 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTGAAAATAC
* * * *
16010263 CTCAATGTGACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAATTAAAACAGA
248 CTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT---TTGAAACAGA
* * * *
16010328 AATTGAAAATAAAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
308 AATTAAAAAAAAAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
16010393 CTGATTTTTTTGAAACACATAAATTAAAAAAAAA
373 CTGA---TTTTGAAACACAGAAATTAAAAAAAAA
* * *
16010427 TT-AAAAACAGAATTTGAAAGGACCTCGACGTGTGGCCC-GAGACTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAAGACCTC-A-GCGT-GCCCTGAGACTCAACTCACCTCTCGCAATA
*
16010490 TGAGTTGATTCTTTT-AAAAAGCAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCAC
63 TGAGTTGATT-TTTTAAAAAAGAAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCAC
*
16010554 CTCTCGCAATATGAGTTGATTTTTTTGATAAAAATAGAATTTGAAAATATCTCAGCGTGTCCTGA
127 CTCTCGCAATATGAGTTGATTTTTTTGA-AAAAATAGAA-TTGAAAATACCTCAGCGTGTCCTGA
* *
16010619 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTACCTCAGC
190 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACATAAATTGAAAATACCTCAGC
* *
16010683 GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAAA
254 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAACAGAAATTAAAAAAA
* * * *
16010748 CGAAAATTGAAAATACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
319 --AAAATGGAAAACACCTCAGC--GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
* **
16010812 TGAAA-AGCAGAATTTGTAAGGCAAAAA
380 TGAAACA-CAGAA-AT-TAA-AAAAAAA
* * *
16010839 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCGTGCCCTGAGACTCAACTCACCTCTCGCAATATGA
* * *
16010904 GTTGATTTTTGAAAAACAGAAATTAAAAGCAGAAATTGAAAAATAGAAATTAAAAATACCTCGGA
66 GTTGA-TTTT------------TT--AA--A-AAA--G---AA-A-AAATTGAAAATACCTCAGC
* * *
16010969 GTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAGCATA-AATTGAA
106 GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-AATAGAATTGAA
* *
16011031 ATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCA
170 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-CA
* * *
16011096 TAAATTGAAAAAACCTTAGCGTGTGACCTGAGGC-CAAACTCACCTCTCGCAATATGAGTTGA-T
234 TAAATTGAAAATACCTCAGC--GT--CTTGAGGCTC-AACTCACCTCTCGCAATATGAGTTGATT
16011159 TTTTTTGAAAGACAGAAA-TAAAAA
294 TTTTTTG-AA-ACAGAAATTAAAAA
16011183 CATCAAAATA
Statistics
Matches: 631, Mismatches: 66, Indels: 98
0.79 0.08 0.12
Matches are distributed among these distances:
408 1 0.00
409 28 0.04
410 5 0.01
411 64 0.10
412 105 0.17
413 57 0.09
414 17 0.03
415 48 0.08
416 39 0.06
417 8 0.01
418 3 0.00
419 39 0.06
423 2 0.00
426 1 0.00
428 1 0.00
429 3 0.00
431 1 0.00
432 56 0.09
433 30 0.05
434 11 0.02
435 3 0.00
436 63 0.10
437 40 0.06
438 6 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (403 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCGTGCCCTGAGACTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTAAAAAAGAAAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTTGAAAAAATAGAATTGAAAATACCTCAGCGTGTCCTGAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTGAAAATACCTCAGCGTCTTGA
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAACAGAAATTAAAAAAAAAAATGG
AAAACACCTCAGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAACACAGA
AATTAAAAAAAAA
Found at i:16010961 original size:13 final size:13
Alignment explanation
Indices: 16010915--16010959 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
16010905 TTGATTTTTG
16010915 AAAAACAGAAATT
1 AAAAACAGAAATT
*
16010928 AAAAGCAGAAATT
1 AAAAACAGAAATT
*
16010941 GAAAAATAGAAATT
1 -AAAAACAGAAATT
16010955 AAAAA
1 AAAAA
16010960 TACCTCGGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:16010980 original size:100 final size:101
Alignment explanation
Indices: 16010743--16011031 Score: 415
Period size: 100 Copynumber: 2.9 Consensus size: 101
16010733 CATAAATTAA
*
16010743 AAAAAC-GAAAATTGAAAATACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCGGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
16010807 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
* *
16010842 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCGGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
16010907 GATTTTTGAAAAACAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
* * * * *
16010942 AAAAATAGAAATTAAAAATACCTCGGAGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCGGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
16011007 GATTTTTGAAAAGCATAAATTGAAA
66 GATTTTTGAAAAGCAGAAATTGAAA
16011032 TTACCTTAGC
Statistics
Matches: 169, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
99 62 0.37
100 89 0.53
101 18 0.11
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCGGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
Found at i:16011158 original size:76 final size:74
Alignment explanation
Indices: 16010976--16011168 Score: 309
Period size: 74 Copynumber: 2.6 Consensus size: 74
16010966 GGAGTGCCCC
* **
16010976 GAGGCTCAGCTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGCATAAATTGAAATTACCTTA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCATAAATTGAAAAAACCTTA
16011040 GCGTGTCCT
66 GCGTGTCCT
16011049 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCATAAATTGAAAAAACCTTA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCATAAATTGAAAAAACCTTA
16011114 GCGTGTGACCT
66 GCGTGT--CCT
16011125 GAGGC-CAAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
1 GAGGCTC-AACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA
16011169 GACAGAAATA
Statistics
Matches: 112, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
73 32 0.29
74 35 0.31
75 1 0.01
76 34 0.30
77 10 0.09
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (74 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCATAAATTGAAAAAACCTTA
GCGTGTCCT
Found at i:16018145 original size:16 final size:15
Alignment explanation
Indices: 16018119--16018153 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16018109 TGATGTGAAT
16018119 AATATAAAATATTAA
1 AATATAAAATATTAA
*
16018134 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
16018150 AATA
1 AATA
16018154 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:16018411 original size:15 final size:14
Alignment explanation
Indices: 16018379--16018444 Score: 57
Period size: 14 Copynumber: 4.7 Consensus size: 14
16018369 AGATAACATG
16018379 TAAATATATATATA
1 TAAATATATATATA
16018393 TAAATA-ATATAGTA
1 TAAATATATATA-TA
* *
16018407 TTAAAGATATATACA
1 -TAAATATATATATA
16018422 TAAA-ATAGTATA-A
1 TAAATATA-TATATA
*
16018435 TATATATATA
1 TAAATATATA
16018445 CGTAATATAG
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
13 14 0.32
14 19 0.43
15 6 0.14
16 5 0.11
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.38
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:16018445 original size:25 final size:26
Alignment explanation
Indices: 16018303--16018454 Score: 95
Period size: 25 Copynumber: 6.0 Consensus size: 26
16018293 TACGTGATAA
* *
16018303 TATTAA-AAATATGTACATAATATAG
1 TATTAATATATATATACATAATATAG
* * * *
16018328 T-GTAAAAAATACATACATAATATA-
1 TATTAATATATATATACATAATATAG
* *
16018352 -ATTAA-A-ATATATACATAAGATAA
1 TATTAATATATATATACATAATATAG
* *
16018375 CATGTAAATATATATATATAAATAATATAG
1 TAT-T--A-ATATATATATACATAATATAG
* *
16018405 TATTAA-AGATATATACATAAAATAG
1 TATTAATATATATATACATAATATAG
*
16018430 TA-TAATATATATATACGTAATATAG
1 TATTAATATATATATACATAATATAG
16018455 AATTTAGAAT
Statistics
Matches: 100, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
22 14 0.14
23 1 0.01
24 11 0.11
25 52 0.52
26 1 0.01
27 2 0.02
28 1 0.01
29 2 0.02
30 16 0.16
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.34
Consensus pattern (26 bp):
TATTAATATATATATACATAATATAG
Found at i:16018517 original size:23 final size:25
Alignment explanation
Indices: 16018474--16018519 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16018464 TATACCTAAT
16018474 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
16018499 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
16018520 ACAAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:16019073 original size:30 final size:30
Alignment explanation
Indices: 16018983--16019081 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
16018973 TAGGTACAAG
16018983 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * ** *
16019013 AGGTAGTAAAGCAAGTGTAGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
16019043 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
16019073 TGGTGGTGG
1 TGGTGGTGG
16019082 CAAATGCTAG
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.20, C:0.06, G:0.47, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:16020237 original size:16 final size:14
Alignment explanation
Indices: 16020216--16020249 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
16020206 ATTGGACAAT
16020216 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
16020232 TTATAAATTTTATA
1 TTATAAATTTTATA
16020246 TTAT
1 TTAT
16020250 TTTTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:16021864 original size:25 final size:25
Alignment explanation
Indices: 16021836--16021896 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
16021826 TCTTGTTTTA
*
16021836 ATATTTTATTT-TTATGTTTTTAAAT
1 ATATTTTATTTATTAT-ATTTTAAAT
*
16021861 ATATTTAATTTATTATATTTTAAAT
1 ATATTTTATTTATTATATTTTAAAT
*
16021886 -TTTTTTATTTA
1 ATATTTTATTTA
16021897 ATAAAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 9 0.29
25 18 0.58
26 4 0.13
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
ATATTTTATTTATTATATTTTAAAT
Found at i:16021909 original size:20 final size:20
Alignment explanation
Indices: 16021886--16021925 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16021876 TATTTTAAAT
16021886 TTTTTTATTTAATAAAATAA
1 TTTTTTATTTAATAAAATAA
*
16021906 TTTTTTATTTAATGAAATAA
1 TTTTTTATTTAATAAAATAA
16021926 GCTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTTTTATTTAATAAAATAA
Found at i:16046290 original size:43 final size:45
Alignment explanation
Indices: 16046243--16046337 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 45
16046233 AAAATCAAGC
* *
16046243 CTTATCTCTCTAAGGT-AGCAAGAAAGCAGGTTGAGGATTG-AG-T
1 CTTATCTCTCTAAGGTCA-CAAGAAAGCAGATTGAAGATTGTAGAT
* * *
16046286 CTTATCTTTCTGAGGTCACAAGGAAGCAGATTGAAGATTGTAGAT
1 CTTATCTCTCTAAGGTCACAAGAAAGCAGATTGAAGATTGTAGAT
16046331 CTTATCT
1 CTTATCT
16046338 TCCTAAGCAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
43 33 0.75
44 3 0.07
45 8 0.18
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (45 bp):
CTTATCTCTCTAAGGTCACAAGAAAGCAGATTGAAGATTGTAGAT
Found at i:16046408 original size:219 final size:218
Alignment explanation
Indices: 16045920--16046487 Score: 784
Period size: 219 Copynumber: 2.6 Consensus size: 218
16045910 GCAGCGGAGT
* ** * *
16045920 AGATCGGAAA-AGGCAAATCTTATCTCCATGTATCGATAATGGAGCAGATTTAAGCCTCAAGCTT
1 AGATC-GAAAGAGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCT
* * * * *
16045984 TATCTCTCTGAGGTAGCAAGAGAACAGGTTAAAGATCAAGCCTTATCTCTCTGAGGTAGCAAGAG
65 TATCTCTCTGAGGTAGCAAAAGAGCAGGTTAAAAATCAAGCCTTATCTCTCTAAGGTAGCAAGAA
16046049 AGCAAGTTGAAAATTGAGTCTTTCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCT
130 AGCAAGTTGAAAATTGAGTCTTTCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCT
* *
16046114 TATCTCCCTAAGTAGTAATGGAGC
195 TATCTCCCTAAGCAGTAATGGAAC
* * *
16046138 AGATCGGAAGAGGCGGATCTTATCTCCATGTATCGGCAATAGAGCAGATTTAAGCCCCAAGCCTT
1 AGATCGAAAGAGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTT
*
16046203 ATCTATCTGAGGTAGCAAAAGAGCAGGTTAAAAATCAAGCCTTATCTCTCTAAGGTAGCAAGAAA
66 ATCTCTCTGAGGTAGCAAAAGAGCAGGTTAAAAATCAAGCCTTATCTCTCTAAGGTAGCAAGAAA
* ** * * *
16046268 GCAGGTTGAGGATTGAGTCTTATCTTTCTGAGGTCA-CAAGGAAGCAGATTGAAGATTGTAGATC
131 GCAAGTTGAAAATTGAGTCTT-TCTTCCTGAGGT-AGCAAGGAAGCAGACTGAAGATTGAAGATC
* *
16046332 TTATCTTCCTAAGCAGTAGTGGAAC
194 TTATCTCCCTAAGCAGTAATGGAAC
* *
16046357 AGATCGAAAGAGGTGAATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCCCCAAGCCTT
1 AGATCGAAAGAGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTT
* * * * *
16046422 ATCTCTCTGAGGTAGCAAGAA-AGTAGGTTGAAGAAT-GAGTCTTATCTTTCTAAGGTAGCAAGA
66 ATCTCTCTGAGGTAGCAA-AAGAGCAGGTT-AAAAATCAAGCCTTATCTCTCTAAGGTAGCAAGA
16046485 AAG
129 AAG
16046488 TAGACTGAAG
Statistics
Matches: 310, Mismatches: 35, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
217 3 0.01
218 130 0.42
219 169 0.55
220 8 0.03
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (218 bp):
AGATCGAAAGAGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTT
ATCTCTCTGAGGTAGCAAAAGAGCAGGTTAAAAATCAAGCCTTATCTCTCTAAGGTAGCAAGAAA
GCAAGTTGAAAATTGAGTCTTTCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTT
ATCTCCCTAAGCAGTAATGGAAC
Found at i:16046605 original size:177 final size:177
Alignment explanation
Indices: 16046242--16046945 Score: 932
Period size: 177 Copynumber: 4.0 Consensus size: 177
16046232 AAAAATCAAG
* * *
16046242 CCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTGAGGATTGAGTCTTATCTTTCTGAGGTCA-CA
1 CCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGT-AGCA
* * * * * ** * *
16046306 AGGAAGCAGATTGAAGATTGTAGATCTTATCTTCCT-AAGCAGTAGTGGAACAGATCGAAAGA-G
65 AGAAAGCAGACTGAAGATAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCG-AAGATG
** *
16046369 GTGAATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCC-CCAA
129 GCAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
* *
16046417 GCCTTATCTCTCTGAGGTAGCAAGAAAGTAGGTTGAAGAATGAGTCTTATCTTTCTAAGGTAGCA
1 -CCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCA
* * *
16046482 AGAAAGTAGACTGAAGATAGAAGATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATCGAAGATGG
65 AGAAAGCAGACTGAAGATAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGG
*
16046547 CAAATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAAGCCACCAA
130 CAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
* * * * *
16046595 CCTTATCTCTCTGAGGTAGCAGGAGAGCAGGTTAAAGATTGAGTCTTATCTTTCCGAGGTAGCAA
1 CCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAA
* * * *
16046660 GAAAGCAGACTGAAGATTA-AAAATCTTATCTCCCTGAGGTTGTAGTGGAGTAGATCGAAGATGG
66 GAAAGCAGACTGAAGA-TAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGG
** * *
16046724 TGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACCAG
130 CAAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
* *
16046772 TCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAA
1 CCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAA
* * * * * *
16046837 GAAAGCAGACTGAACATTGAAGATCTTATCTTCCTGAAGTTGCAGCGGAGCAGATCGAATATGTC
66 GAAAGCAGACTGAAGATAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGC
* * *
16046902 AAATCTTATCTCCATGTATCGGTAATGGAGTAGATTTTAGCCAC
131 AAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCAC
16046946 TAGCATTATC
Statistics
Matches: 465, Mismatches: 57, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
175 1 0.00
176 92 0.20
177 366 0.79
178 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (177 bp):
CCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAA
GAAAGCAGACTGAAGATAGAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGC
AAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCACCAA
Found at i:16046676 original size:43 final size:43
Alignment explanation
Indices: 16046596--16046677 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 43
16046586 AGCCACCAAC
* * * **
16046596 CTTATCTCTCTGAGGTAGCAGGAGAGCAGGTTAAAGATTGAGT
1 CTTATCTCTCCGAGGTAGCAAGAAAGCAGACTAAAGATTGAGT
* *
16046639 CTTATCTTTCCGAGGTAGCAAGAAAGCAGACTGAAGATT
1 CTTATCTCTCCGAGGTAGCAAGAAAGCAGACTAAAGATT
16046678 AAAAATCTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (43 bp):
CTTATCTCTCCGAGGTAGCAAGAAAGCAGACTAAAGATTGAGT
Found at i:16046894 original size:354 final size:353
Alignment explanation
Indices: 16046242--16046945 Score: 1027
Period size: 354 Copynumber: 2.0 Consensus size: 353
16046232 AAAAATCAAG
* * *
16046242 CCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTGAGGATTGAGTCTTATCTTTCTGAGGTCACAA
1 CCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTAAAGATTGAGTCTTATCTTTCCGAGGTCACAA
* * ** * *
16046307 GGAAGCAGATTGAAGATTGTAGATCTTATCTTCCTAAGCAGTAGTGGAACAGATCGAAAGAGGTG
66 GAAAGCAGACTGAAGATTAAAAATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAAGAGGTG
* *
16046372 AATCTTATCTCCATGTATCGGCAATGGAGTAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAG
131 AATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAG
* * *
16046437 CAAGAAAGTAGGTTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGTAGACTGAAGATAG
196 CAAGAAAGCAGGTTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAACATAG
* * *
16046502 AAGATCTTATCTCCCTGAGGTTGCAGTGGAGTAGATCGAAGATGGCAAATCTTATCTCCATGTAT
261 AAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTAT
16046567 CAGCAATGGAGCAGATTTAAGCCACCAA
326 CAGCAATGGAGCAGATTTAAGCCACCAA
* * *
16046595 CCTTATCTCTCTGAGGTAGCAGGAGAGCAGGTTAAAGATTGAGTCTTATCTTTCCGAGGT-AGCA
1 CCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTAAAGATTGAGTCTTATCTTTCCGAGGTCA-CA
* ** **
16046659 AGAAAGCAGACTGAAGATTAAAAATCTTATCTCCCTGAGGTTGTAGTGGAGTAGATCG-AAGATG
65 AGAAAGCAGACTGAAGATTAAAAATCTTATCTCCCT-AAGCAGTAGTGGAACAGATCGAAAGA-G
*
16046723 GTGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACC-AGTCTTATCTCTCTGAG
128 GTGAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCC-CCAAGCCTTATCTCTCTGAG
* *
16046787 GTAGCAAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAAC
192 GTAGCAAGAAAGCAGGTTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAAC
* * * *
16046852 ATTGAAGATCTTATCTTCCTGAAGTTGCAGCGGAGCAGATCGAATATGTCAAATCTTATCTCCAT
257 ATAGAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATGGCAAATCTTATCTCCAT
* * * *
16046917 GTATCGGTAATGGAGTAGATTTTAGCCAC
322 GTATCAGCAATGGAGCAGATTTAAGCCAC
16046946 TAGCATTATC
Statistics
Matches: 311, Mismatches: 36, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
352 1 0.00
353 90 0.29
354 218 0.70
355 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (353 bp):
CCTTATCTCTCTAAGGTAGCAAGAAAGCAGGTTAAAGATTGAGTCTTATCTTTCCGAGGTCACAA
GAAAGCAGACTGAAGATTAAAAATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAAGAGGTG
AATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAG
CAAGAAAGCAGGTTGAAGAATGAGTCTTATCTTTCTAAGGTAGCAAGAAAGCAGACTGAACATAG
AAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAAGATGGCAAATCTTATCTCCATGTAT
CAGCAATGGAGCAGATTTAAGCCACCAA
Found at i:16047028 original size:311 final size:311
Alignment explanation
Indices: 16046662--16047256 Score: 754
Period size: 311 Copynumber: 1.9 Consensus size: 311
16046652 GGTAGCAAGA
* ** * *
16046662 AAGCAGACTGAAGATTAAAAATCTTATCTCCCTGAGGTTGTAGTGGAGTAGATCG-AAGATGGTG
1 AAGCAGACTGAAGATTAAAAATCTTATCTCCCTGAAGCAGTAGTGGAGCAGATCGAAAGA-GGCG
* * *
16046726 AATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACC-AGTCTTATCTCTCTGAGGTA
65 AATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCC-CCAAGCCTTATCTCTCTGAAGTA
* * *
16046790 GCAAG-AGAGCAGGTTGAAGAAT-GAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAACA
129 GC-AGTAGAGCAGGTTCAA-AATAAAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAACA
** * * *
16046853 TTGAAGATCTTATCT-TCCTGAAGTTGCAGCGGAGCAGATCGAATA-TGTCAAATCTTATCTCCA
192 TTGAAGATCTTATCTCT-CT-AAGCAGCAACGGAGCAGATCGAA-AGAGGCAAATCTTATCTCCA
** *
16046916 TGTATCGGTAATGGAGTAGATTTTAGCCACTAGCATTATCTTTTTGAGATAGCAGAAG
254 TGTATCGACAATGGAGTAGATTTAAGCCACTAGCATTATCTTTTTGAGATAGCAGAAG
* * *
16046974 AAGCAGACTGAAGATTGAAAATCTTATCTTCCT-AAGCAGTTGTGGAGCAGATCGAAAGAGGCGA
1 AAGCAGACTGAAGATTAAAAATCTTATCTCCCTGAAGCAGTAGTGGAGCAGATCGAAAGAGGCGA
* ** * *
16047038 ATGTTATCTCCATGTATCGGTAATAGAGCGGATTTAAGCCCCAAGCCTTATCTCTCTGAAGTTGC
66 ATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAAGTAGC
* * * *
16047103 AGTGGAGCAGGTTCAAAATACAAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAGATTG
131 AGTAGAGCAGGTTCAAAATA-AAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAACATTG
* * * *
16047168 AAGATCTTATCTCTCTAAGCAGTAATGGAGCAGATCGAAAGAGGCGAATCTTATTTCCATGTATC
195 AAGATCTTATCTCTCTAAGCAGCAACGGAGCAGATCGAAAGAGGCAAATCTTATCTCCATGTATC
16047233 GACAATGGAGTAGATTTAAGCCAC
260 GACAATGGAGTAGATTTAAGCCAC
16047257 CAAGCCTTAT
Statistics
Matches: 241, Mismatches: 35, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
310 8 0.03
311 144 0.60
312 88 0.37
313 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (311 bp):
AAGCAGACTGAAGATTAAAAATCTTATCTCCCTGAAGCAGTAGTGGAGCAGATCGAAAGAGGCGA
ATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAAGTAGC
AGTAGAGCAGGTTCAAAATAAAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAACATTGA
AGATCTTATCTCTCTAAGCAGCAACGGAGCAGATCGAAAGAGGCAAATCTTATCTCCATGTATCG
ACAATGGAGTAGATTTAAGCCACTAGCATTATCTTTTTGAGATAGCAGAAG
Found at i:16047057 original size:134 final size:134
Alignment explanation
Indices: 16046817--16047061 Score: 325
Period size: 134 Copynumber: 1.8 Consensus size: 134
16046807 AGAATGAGTC
* * **
16046817 TTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAACATTGAAGATCTTATCTTCCTGAAGTTGCAG
1 TTATCTTTCTGAGATAGCAAGAAAGCAGACTGAACATTGAAAATCTTATCTTCCTGAAGCAGCAG
* *
16046882 CGGAGCAGATCGAATATGTCAAATCTTATCTCCATGTATCGGTAATGGAGTAGATTTTAGCCACT
66 CGGAGCAGATCGAATAAGGCAAATCTTATCTCCATGTATCGGTAATGGAGTAGATTTTAGCCACT
16046947 AGCA
131 AGCA
* * *
16046951 TTATCTTTTTGAGATAGC-AGAAGAAGCAGACTGAAGATTGAAAATCTTATCTTCCT-AAGCAGT
1 TTATCTTTCTGAGATAGCAAG-A-AAGCAGACTGAACATTGAAAATCTTATCTTCCTGAAGCAGC
* * * *
16047014 TGTGGAGCAGATCGAA-AGAGGCGAATGTTATCTCCATGTATCGGTAAT
64 AGCGGAGCAGATCGAATA-AGGCAAATCTTATCTCCATGTATCGGTAAT
16047062 AGAGCGGATT
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
133 3 0.03
134 61 0.64
135 31 0.33
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (134 bp):
TTATCTTTCTGAGATAGCAAGAAAGCAGACTGAACATTGAAAATCTTATCTTCCTGAAGCAGCAG
CGGAGCAGATCGAATAAGGCAAATCTTATCTCCATGTATCGGTAATGGAGTAGATTTTAGCCACT
AGCA
Found at i:16047072 original size:134 final size:134
Alignment explanation
Indices: 16046817--16047096 Score: 323
Period size: 134 Copynumber: 2.1 Consensus size: 134
16046807 AGAATGAGTC
* * **
16046817 TTATCTTTCTGAGGTAGCAAGAAAGCAGACTGAACATTGAAGATCTTATCTTCCTGAAGTTGCAG
1 TTATCTTTCTGAGATAGCAAGAAAGCAGACTGAACATTGAAAATCTTATCTTCCTGAAGCAGCAG
* * * * *
16046882 CGGAGCAGATCGAATATGTCAAATCTTATCTCCATGTATCGGTAATGGAGTAGATTTTAGCCACT
66 CGGAGCAGATCGAATAAGGCAAATCTTATCTCCATGTATCGGTAATAGAGCAGATTTAAGCCACT
16046947 AGCA
131 AGCA
* * *
16046951 TTATCTTTTTGAGATAGC-AGAAGAAGCAGACTGAAGATTGAAAATCTTATCTTCCT-AAGCAGT
1 TTATCTTTCTGAGATAGCAAG-A-AAGCAGACTGAACATTGAAAATCTTATCTTCCTGAAGCAGC
* * * * *
16047014 TGTGGAGCAGATCGAA-AGAGGCGAATGTTATCTCCATGTATCGGTAATAGAGCGGATTTAAGCC
64 AGCGGAGCAGATCGAATA-AGGCAAATCTTATCTCCATGTATCGGTAATAGAGCAGATTTAAGCC
* * *
16047078 CCAAGCC
128 ACTAGCA
*
16047085 TTATCTCTCTGA
1 TTATCTTTCTGA
16047097 AGTTGCAGTG
Statistics
Matches: 121, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
133 3 0.02
134 87 0.72
135 31 0.26
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (134 bp):
TTATCTTTCTGAGATAGCAAGAAAGCAGACTGAACATTGAAAATCTTATCTTCCTGAAGCAGCAG
CGGAGCAGATCGAATAAGGCAAATCTTATCTCCATGTATCGGTAATAGAGCAGATTTAAGCCACT
AGCA
Found at i:16047177 original size:177 final size:178
Alignment explanation
Indices: 16046973--16047296 Score: 508
Period size: 177 Copynumber: 1.8 Consensus size: 178
16046963 GATAGCAGAA
**
16046973 GAAGCAGACTGAAGATTGAAAATCTTATCT-TCCTAAGCAGTTGTGGAGCAGATCGAAAGAGGCG
1 GAAGCAGACTGAAGATTGAAAATCTTATCTCT-CTAAGCAGTAATGGAGCAGATCGAAAGAGGCG
* ** * * *
16047037 AATGTTATCTCCATGTATCGGTAATAGAGCGGATTTAAGCC-CCAAGCCTTATCTCTCTGAAGTT
65 AATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCCACCAAGCCTTATCTCCCTGAAGTG
*
16047101 GCAGTGGAGCAGGTTCAAAATACAAGTCTTATCTTCCTGAGGTAGTAAG
130 GCAATGGAGCAGGTTCAAAATACAAGTCTTATCTTCCTGAGGTAGTAAG
*
16047150 GAAGCAGACTGAAGATTGAAGATCTTATCTCTCTAAGCAGTAATGGAGCAGATCGAAAGAGGCGA
1 GAAGCAGACTGAAGATTGAAAATCTTATCTCTCTAAGCAGTAATGGAGCAGATCGAAAGAGGCGA
* * *
16047215 ATCTTATTTCCATGTATCGACAATGGAGTAGATTTAAGCCACCAAGCCTTATCTCCCTGAAGTGG
66 ATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCCACCAAGCCTTATCTCCCTGAAGTGG
16047280 CAATGGAGCAGGTTCAA
131 CAATGGAGCAGGTTCAA
16047297 GTGAAGCAGG
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
177 93 0.70
178 39 0.30
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (178 bp):
GAAGCAGACTGAAGATTGAAAATCTTATCTCTCTAAGCAGTAATGGAGCAGATCGAAAGAGGCGA
ATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCCACCAAGCCTTATCTCCCTGAAGTGG
CAATGGAGCAGGTTCAAAATACAAGTCTTATCTTCCTGAGGTAGTAAG
Found at i:16048860 original size:20 final size:20
Alignment explanation
Indices: 16048825--16048867 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 20
16048815 TTATATTTCA
16048825 GTTTTTGTTTTTATTC-TTT
1 GTTTTTGTTTTTATTCATTT
16048844 GTTTTT-TTTTTAAATTCATTT
1 GTTTTTGTTTTT--ATTCATTT
16048865 GTT
1 GTT
16048868 ATTCATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 4 0.19
21 6 0.29
ACGTcount: A:0.12, C:0.05, G:0.09, T:0.74
Consensus pattern (20 bp):
GTTTTTGTTTTTATTCATTT
Found at i:16049133 original size:16 final size:16
Alignment explanation
Indices: 16049108--16049138 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16049098 TATTGATTTC
16049108 ATATTATTCTATGTAA
1 ATATTATTCTATGTAA
*
16049124 ATATTTTTCTATGTA
1 ATATTATTCTATGTA
16049139 TGTATATATA
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:0.32, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
ATATTATTCTATGTAA
Found at i:16049272 original size:17 final size:17
Alignment explanation
Indices: 16049243--16049275 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16049233 TTTCATATAT
*
16049243 TATTATCTTTATGTATG
1 TATTATCTATATGTATG
16049260 TATTATCTATATGTAT
1 TATTATCTATATGTAT
16049276 CATTAATCCA
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:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (17 bp):
TATTATCTATATGTATG
Found at i:16054539 original size:35 final size:35
Alignment explanation
Indices: 16054493--16054563 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
16054483 AAGGTTGATG
16054493 TTGGATAATGTGTTGTTAGCTTATAAAATTCTACA
1 TTGGATAATGTGTTGTTAGCTTATAAAATTCTACA
*
16054528 TTGGATAATGTGTTGTTAGCTTATGAAATTCTACA
1 TTGGATAATGTGTTGTTAGCTTATAAAATTCTACA
16054563 T
1 T
16054564 ACTCTCAGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (35 bp):
TTGGATAATGTGTTGTTAGCTTATAAAATTCTACA
Found at i:16058432 original size:7 final size:7
Alignment explanation
Indices: 16058403--16058447 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
16058393 TCCTTTTACT
16058403 TTTTTTA
1 TTTTTTA
16058410 TTTGTTT-
1 TTT-TTTA
*
16058417 TTCTTTA
1 TTTTTTA
16058424 TTTTTTA
1 TTTTTTA
16058431 TTTTTTA
1 TTTTTTA
*
16058438 TTTATTA
1 TTTTTTA
16058445 TTT
1 TTT
16058448 ATTTTATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 3 0.09
7 27 0.82
8 3 0.09
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.82
Consensus pattern (7 bp):
TTTTTTA
Found at i:16058435 original size:18 final size:18
Alignment explanation
Indices: 16058414--16058452 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
16058404 TTTTTATTTG
* *
16058414 TTTTTCTTTATTTTTTAT
1 TTTTTATTTATTATTTAT
16058432 TTTTTATTTATTATTTAT
1 TTTTTATTTATTATTTAT
16058450 TTT
1 TTT
16058453 ATAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTATTTATTATTTAT
Found at i:16058441 original size:11 final size:10
Alignment explanation
Indices: 16058402--16058454 Score: 52
Period size: 11 Copynumber: 4.9 Consensus size: 10
16058392 ATCCTTTTAC
16058402 TTTTTTTATT
1 TTTTTTTATT
* *
16058412 TGTTTTTCTT
1 TTTTTTTATT
16058422 TATTTTTTATT
1 T-TTTTTTATT
16058433 TTTTATTTATT
1 TTTT-TTTATT
16058444 ATTTATTTTAT
1 -TTT-TTTTAT
16058455 AATATTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 12 0.34
11 14 0.40
12 8 0.23
13 1 0.03
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:16058483 original size:9 final size:10
Alignment explanation
Indices: 16058447--16058493 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
16058437 ATTTATTATT
16058447 TATTTTATAA
1 TATTTTATAA
*
16058457 TATTTTAAATGTA
1 TATTTT--AT-AA
16058470 TATTTTA-AA
1 TATTTTATAA
16058479 TATTTTATAA
1 TATTTTATAA
16058489 TATTT
1 TATTT
16058494 ATTTATTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 8 0.26
10 13 0.42
11 1 0.03
12 2 0.06
13 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TATTTTATAA
Found at i:16058496 original size:23 final size:23
Alignment explanation
Indices: 16058443--16058497 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
16058433 TTTTATTTAT
16058443 TATTTATTTTATAATATTTTAAA
1 TATTTATTTTATAATATTTTAAA
* *
16058466 TGTATATTTTA-AATATTTTATAA
1 TATTTATTTTATAATATTTTA-AA
16058489 TATTTATTT
1 TATTTATTT
16058498 ATTCAAACGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTTATTTTATAATATTTTAAA
Found at i:16058575 original size:14 final size:14
Alignment explanation
Indices: 16058552--16058598 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
16058542 TTTAAAAAAT
*
16058552 TAAAATAAATATTA
1 TAAAACAAATATTA
*
16058566 TAAAACAAATA-AA
1 TAAAACAAATATTA
*
16058579 T-AAACAAATGTTA
1 TAAAACAAATATTA
16058592 TAAAACA
1 TAAAACA
16058599 TTAAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 8 0.30
13 4 0.15
14 15 0.56
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (14 bp):
TAAAACAAATATTA
Found at i:16058658 original size:12 final size:13
Alignment explanation
Indices: 16058630--16058657 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16058620 TAAAAATAAT
16058630 AAATTTCAAAAAA
1 AAATTTCAAAAAA
16058643 AAATTTCAAAAAA
1 AAATTTCAAAAAA
16058656 AA
1 AA
16058658 TGTTTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATTTCAAAAAA
Found at i:16060937 original size:23 final size:24
Alignment explanation
Indices: 16060900--16060944 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
16060890 TAAAAAACAT
16060900 TAAAAAATATGAAAAA-TAATTTA
1 TAAAAAATATGAAAAATTAATTTA
* *
16060923 TAAAAATTATTAAAAATTAATT
1 TAAAAAATATGAAAAATTAATT
16060945 AAAAATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAAAATATGAAAAATTAATTTA
Found at i:16060945 original size:11 final size:10
Alignment explanation
Indices: 16060886--16060971 Score: 50
Period size: 10 Copynumber: 8.3 Consensus size: 10
16060876 TTATTAAGTT
16060886 TTATTAAAAA
1 TTATTAAAAA
**
16060896 ACATTAAAAA
1 TTATTAAAAA
* *
16060906 ATATGAAAAA
1 TTATTAAAAA
*
16060916 TAATTTATAAAAA
1 T--TAT-TAAAAA
16060929 TTATTAAAAA
1 TTATTAAAAA
16060939 TTAATTAAAAA
1 TT-ATTAAAAA
*
16060950 TCA-T-AAAA
1 TTATTAAAAA
*
16060958 TTTTATAAAAA
1 TTAT-TAAAAA
16060969 TTA
1 TTA
16060972 AATTATTTTA
Statistics
Matches: 57, Mismatches: 12, Indels: 13
0.70 0.15 0.16
Matches are distributed among these distances:
8 5 0.09
9 1 0.02
10 26 0.46
11 17 0.30
12 2 0.04
13 6 0.11
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:16060966 original size:19 final size:18
Alignment explanation
Indices: 16060919--16060990 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 18
16060909 TGAAAAATAA
*
16060919 TTTATAAAAATTATTAAAAA
1 TTTATAAAAA-TA-TAAAAT
*
16060939 TTAATTAAAAATCATAAAAT
1 TTTA-TAAAAAT-ATAAAAT
16060959 TTTATAAAAAT-TAAATTAT
1 TTTATAAAAATATAAA--AT
16060978 TTTATAAAAATAT
1 TTTATAAAAATAT
16060991 TTTCCTGATT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
17 4 0.09
19 20 0.45
20 13 0.30
21 7 0.16
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (18 bp):
TTTATAAAAATATAAAAT
Found at i:16061584 original size:18 final size:18
Alignment explanation
Indices: 16061545--16061586 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
16061535 TAAGAATTAC
*
16061545 TTTTGACATAAAAAGTACT
1 TTTTAACATAAAAAGTA-T
*
16061564 TTTTAACATAAAAA-TGT
1 TTTTAACATAAAAAGTAT
16061581 TTTTAA
1 TTTTAA
16061587 ATTTTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.33
18 1 0.05
19 13 0.62
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (18 bp):
TTTTAACATAAAAAGTAT
Found at i:16065421 original size:13 final size:13
Alignment explanation
Indices: 16065403--16065427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16065393 ATAAATTATA
16065403 ATAATATAATAAC
1 ATAATATAATAAC
16065416 ATAATATAATAA
1 ATAATATAATAA
16065428 AACATAAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATATAATAAC
Found at i:16068057 original size:19 final size:19
Alignment explanation
Indices: 16068033--16068070 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16068023 GAAATGAATA
*
16068033 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
16068052 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
16068071 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:16068414 original size:17 final size:17
Alignment explanation
Indices: 16068392--16068427 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
16068382 AATAGATCGT
16068392 AAAATAAATAATAAATA
1 AAAATAAATAATAAATA
*
16068409 AAAATAAATAATACATA
1 AAAATAAATAATAAATA
16068426 AA
1 AA
16068428 GTATATAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATAAATAATAAATA
Found at i:16069278 original size:11 final size:11
Alignment explanation
Indices: 16069242--16069283 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
16069232 AGGTTAGGTT
16069242 TTTTTCTTTTTC
1 TTTTT-TTTTTC
**
16069254 TTCATTTTTTC
1 TTTTTTTTTTC
16069265 TTTTTTTTTTC
1 TTTTTTTTTTC
16069276 TTTTTTTT
1 TTTTTTTT
16069284 ATTTTGGGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 23 0.88
12 3 0.12
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:16069288 original size:17 final size:19
Alignment explanation
Indices: 16069240--16069288 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
16069230 AGAGGTTAGG
*
16069240 TTTTTTTCTTTTTCTTCAT
1 TTTTTTTATTTTTCTTCAT
*
16069259 TTTTTCTT-TTTTTTTTC-T
1 TTTTT-TTATTTTTCTTCAT
16069277 TTTTTTTATTTT
1 TTTTTTTATTTT
16069289 GGGTTGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 10 0.37
19 13 0.48
20 2 0.07
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTTATTTTTCTTCAT
Found at i:16069633 original size:44 final size:44
Alignment explanation
Indices: 16069579--16070372 Score: 1180
Period size: 44 Copynumber: 18.3 Consensus size: 44
16069569 CCCCGAATAA
* *
16069579 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
16069623 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16069667 TACGGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
16069711 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
16069755 TACAGAGATGCCAAATC----ATTTTCGATCTGCTCTTCGCCAC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
**
16069795 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCATCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16069839 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16069883 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCAC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16069923 TACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16069967 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCAGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16070011 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16070055 TACAGAGACGCCAAATCTGTTATCTTCGATCTGTTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
16070099 TACAGAGATGCCAAATC----ATCTTTGATCTGCTCTCCGCTGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
16070139 TACAAAGATGCCAAATTTGTTATCTTCGATCTACTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
16070183 TACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCAC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16070227 TACAGAGACGTCAAATCTGTTATCTTCGACCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
16070271 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
16070315 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
16070359 TACAGAGACGCCAA
1 TACAGAGACGCCAA
16070373 CTCATCTTGG
Statistics
Matches: 681, Mismatches: 57, Indels: 24
0.89 0.07 0.03
Matches are distributed among these distances:
40 106 0.16
44 575 0.84
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.29
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:16069869 original size:172 final size:172
Alignment explanation
Indices: 16069579--16070372 Score: 1130
Period size: 172 Copynumber: 4.6 Consensus size: 172
16069569 CCCCGAATAA
* *
16069579 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGTTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
*
16069644 ATCTTCGATCTGCTCTCCGCCGCTACGGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCC
62 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCC
16069709 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
127 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
16069755 TACAGAGATGCCAAATCATTTTCGATCTGCTCTTCGCCACTACAGAGACGCCAAATCTGTTATCT
1 TACAGAGACGCCAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCT
** * * *
16069820 TCGATCTGCTCTCCATCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCACCGCTA
66 TCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCGCTA
* *
16069885 CAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCAC
131 CAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
16069923 TACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGTTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAA----TCATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
* * *
16069988 ATCTTCGATCTGCTCTCTGCAGCTACAGAGACGCCAAATCTGCTATCTTCGATCTGCTC-TCTGC
62 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTC-GC
* *
16070052 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGTTCTCTGCCGC
126 CGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * * * * *
16070099 TACAGAGATGCCAAATCATCTTTGATCTGCTCTCCGCTGCTACAAAGATGCCAAATTTGTTATCT
1 TACAGAGACGCCAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCT
* * *
16070164 TCGATCTACTCTCCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCACTA
66 TCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCGCTA
* *
16070229 CAGAGACGTCAAATCTGTTATCTTCGACCTGCTCTCCGCCGC
131 CAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
16070271 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
*
16070336 ATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAA
62 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
16070373 CTCATCTTGG
Statistics
Matches: 544, Mismatches: 60, Indels: 28
0.86 0.09 0.04
Matches are distributed among these distances:
168 36 0.07
171 1 0.00
172 383 0.70
173 2 0.00
176 122 0.22
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.29
Consensus pattern (172 bp):
TACAGAGACGCCAAATCATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCT
TCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCCGCTA
CAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:16069997 original size:216 final size:217
Alignment explanation
Indices: 16069579--16070372 Score: 1208
Period size: 216 Copynumber: 3.7 Consensus size: 217
16069569 CCCCGAATAA
* *
16069579 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGTTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
* *
16069644 ATCTTCGATCTGCTCTCCGCCGCTACGGAGACGCCAAATCTGTTATCTTCGATCTGCTCTTCGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCC
*
16069709 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC--
128 GCTACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTG
*
16069772 --ATTTTCGATCTGCTCTTCGCCAC
193 TTATCTTCGATCTGCTCTTCGCCAC
** *
16069795 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCATCGCTACAGAGATGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
* * *
16069860 ATCTTCGATCTGCTCTCCACCGCTACAGAGATGCCAAATC-ATCTTCGATCTGCTCTCCGCCACT
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGCT
* *
16069924 ACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGTTACAGAGACGCCAAATCTGTTA
131 ACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTA
16069989 TCTTCGATCTGCTC-TCTG-CAGC
196 TCTTCGATCTGCTCTTC-GCCA-C
* *
16070011 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
* * * * *
16070076 ATCTTCGATCTGTTCTCTGCCGCTACAGAGATGCCAAATC-ATCTTTGATCTGCTCTCCGCTGCT
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGCT
* * *
16070140 ACAAAGATGCCAAATTTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGATGCCAAATCTGTTA
131 ACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTA
16070205 TCTTCGATCTGCTCTTCGCCAC
196 TCTTCGATCTGCTCTTCGCCAC
* *
16070227 TACAGAGACGTCAAATCTGTTATCTTCGACCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
* *
16070292 ATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCC
66 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCC
16070357 GCTACAGAGACGCCAA
128 GCTACAGAGACGCCAA
16070373 CTCATCTTGG
Statistics
Matches: 525, Mismatches: 41, Indels: 20
0.90 0.07 0.03
Matches are distributed among these distances:
212 79 0.15
215 4 0.01
216 406 0.77
217 4 0.01
220 32 0.06
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.29
Consensus pattern (217 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGCT
ACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTGTTA
TCTTCGATCTGCTCTTCGCCAC
Found at i:16070701 original size:61 final size:64
Alignment explanation
Indices: 16070582--16070704 Score: 191
Period size: 61 Copynumber: 2.0 Consensus size: 64
16070572 TCATGTATCC
16070582 ATGCTTATGCCAAATAATTAGGATGTTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGTTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* *
16070646 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGTTCCTAACTAAATG
1 ATGC-TTATGCCAAATAATTAGGATGTTATGATTGAAATGAATCAAATGCTCCTAACTAAATG
16070705 AATGGTTATG
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 29 0.52
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.36
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGTTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:16082533 original size:19 final size:19
Alignment explanation
Indices: 16082509--16082546 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
16082499 GAAATGAATA
*
16082509 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
16082528 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
16082547 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:16085468 original size:19 final size:19
Alignment explanation
Indices: 16085366--16085470 Score: 58
Period size: 19 Copynumber: 5.3 Consensus size: 19
16085356 TAATATAATA
16085366 TTTAAATTTATTATTATATT
1 TTTAAATTTATTA-TATATT
*
16085386 CTTTGAAA-TTATTTATGTATT
1 -TTT-AAATTTA-TTATATATT
*
16085407 TTTATA-TTA-TATAT-TT
1 TTTAAATTTATTATATATT
* *
16085423 TTTCAATAATCATT-TTTTATTTT
1 TTT--A-AAT--TTATTATATATT
16085446 TTTAAATTTATTATATATT
1 TTTAAATTTATTATATATT
16085465 TTTAAA
1 TTTAAA
16085471 AATATTTATG
Statistics
Matches: 66, Mismatches: 7, Indels: 24
0.68 0.07 0.25
Matches are distributed among these distances:
16 5 0.08
17 4 0.06
18 3 0.05
19 19 0.29
20 6 0.09
21 12 0.18
22 12 0.18
23 5 0.08
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAAATTTATTATATATT
Found at i:16085485 original size:41 final size:41
Alignment explanation
Indices: 16085366--16085487 Score: 121
Period size: 41 Copynumber: 3.0 Consensus size: 41
16085356 TAATATAATA
* *
16085366 TTTAAATTTATTATTATATTCTTTGAAATTATTTATGTA--TT
1 TTTAAATTTATTA-TATATT-TTTAAAAATATTTATGTATTTT
* * *
16085407 TTTATA-TTA-TATAT-TTTTTCAATAATCATTT-TTTATTTT
1 TTTAAATTTATTATATATTTTT-AAAAAT-ATTTATGTATTTT
16085446 TTTAAATTTATTATATATTTTTAAAAATATTTATGTATTTT
1 TTTAAATTTATTATATATTTTTAAAAATATTTATGTATTTT
16085487 T
1 T
16085488 ATATATTTCT
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
36 3 0.05
37 8 0.12
38 7 0.11
39 9 0.14
40 10 0.15
41 23 0.35
42 5 0.08
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (41 bp):
TTTAAATTTATTATATATTTTTAAAAATATTTATGTATTTT
Found at i:16085504 original size:32 final size:32
Alignment explanation
Indices: 16085451--16085511 Score: 90
Period size: 30 Copynumber: 1.9 Consensus size: 32
16085441 ATTTTTTTAA
16085451 ATTTATTATATATTTTTAAAAAT-ATTTATGT
1 ATTTATTATATATTTTTAAAAATAATTTATGT
16085482 ATTT-TTATATATTTCTTAAAAAATAATTTA
1 ATTTATTATATATTT-TT-AAAAATAATTTA
16085512 GAATTAGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 10 0.37
31 6 0.22
32 6 0.22
33 5 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (32 bp):
ATTTATTATATATTTTTAAAAATAATTTATGT
Found at i:16093338 original size:17 final size:18
Alignment explanation
Indices: 16093308--16093341 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
16093298 AATGAAAATG
16093308 AAAATAAGTAATATATAT
1 AAAATAAGTAATATATAT
16093326 AAAATAA-TAATATATA
1 AAAATAAGTAATATATA
16093342 AATGAGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAATAAGTAATATATAT
Found at i:16093584 original size:26 final size:25
Alignment explanation
Indices: 16093500--16093617 Score: 105
Period size: 26 Copynumber: 4.6 Consensus size: 25
16093490 GCAAATGATA
* *
16093500 AAACAATTTAAAATGGATAATACATG
1 AAACAATTTAAAAT-AATAATATATG
* * *
16093526 AAACAAGTTTTAAAAAAAAACAATATATA
1 AAACAA--TTT--AAAATAATAATATATG
*
16093555 AAACAATTTAAAATATATAATGTATG
1 AAACAATTTAAAATA-ATAATATATG
*
16093581 AAACAATTTAAAATAAT-ATATCT-
1 AAACAATTTAAAATAATAATATATG
16093604 AAACAATTTAAAAT
1 AAACAATTTAAAAT
16093618 CGTTTAATAC
Statistics
Matches: 76, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
23 14 0.18
24 4 0.05
25 7 0.09
26 28 0.37
27 3 0.04
28 3 0.04
29 13 0.17
30 4 0.05
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (25 bp):
AAACAATTTAAAATAATAATATATG
Found at i:16095395 original size:45 final size:44
Alignment explanation
Indices: 16095315--16095857 Score: 261
Period size: 45 Copynumber: 11.9 Consensus size: 44
16095305 ATTTATTTAG
* ** * *
16095315 CTTCAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTTGCTAT
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG-TAA
* * * *
16095360 CTTTAGTTTGCTCCACTACAACTTCAGGGAGATAAGACTT-TAA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAA
* * * * **
16095403 CTTCAACCTGTTCCACTGCAACTTCAGGGAGATAAGGTTTAGTGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTT-GTAA
16095448 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGGTAA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTT-GTAA
* * * * * * * * *
16095493 TTTCAACCTACTCCATTGCAACTTCATGGTGATAAGGTTTGTTA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAA
* * * * * * *
16095537 --T-GATCTGCTCTATTGCAACTTCAGAGAGATAACATCTATTTATTTA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGAT-T-TGTA---A
* * * * * * *
16095583 GCTTCAATCTGTTCCACTGCAACTTTAGGGAAACAAGATTTACTAT
1 -CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTT-GTAA
* * *
16095629 CTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGGTTTAGTGGA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTT-GT-AA
* * * *
16095675 -TTCAATTTGCTCTACTGCAACTTCAGGGAGATAAGATTTTCCATAATTTGTAG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAG----------ATTTGTAA
* * * * *
16095728 CTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTATA
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG-TA-A
* ** ** ** * **
16095774 -TTCAGTCTGCTCCGTTGGAACTTCAGGGAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAA
* * *
16095817 CTTCAATCTTCTTCACTGCAACTTCAGGGAGATAAGATTTG
1 CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG
16095858 CCATCTTTAG
Statistics
Matches: 368, Mismatches: 103, Indels: 55
0.70 0.20 0.10
Matches are distributed among these distances:
41 25 0.07
42 2 0.01
43 36 0.10
44 40 0.11
45 200 0.54
46 1 0.00
48 1 0.00
49 4 0.01
50 25 0.07
54 31 0.08
55 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAA
Found at i:16095588 original size:269 final size:269
Alignment explanation
Indices: 16095178--16095664 Score: 794
Period size: 269 Copynumber: 1.8 Consensus size: 269
16095168 TACATTTATA
* * * *
16095178 GCTTCGATCTACTCCGCTAGAACTTCAAGGAGGTAAGAATTGGTAATTTCAACCTACTCCATTGC
1 GCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGAATTGGTAATTTCAACCTACTCCATTGC
* * *
16095243 AACTTCAAGGAGATAAGGTTTGCTATGGTCTGCTCTACTGCAACTTCAGAGAGTTAAGATCTATT
66 AACTTCAAGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAGATAACATCTATT
* * * * *
16095308 TATTTAGCTTCAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTTAGTTTGCTC
131 TATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAACAAGATTTACTATCTTCAGTCTGCTC
16095373 CACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGTTCCACTGCAACTTCAGGGAGATAA
196 CACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGTTCCACTGCAACTTCAGGGAGATAA
16095438 GGTTTAGTG
261 GGTTTAGTG
* * *
16095447 GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGGTAATTTCAACCTACTCCATTGC
1 GCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGAATTGGTAATTTCAACCTACTCCATTGC
* * * *
16095512 AACTTCATGGTGATAAGGTTTGTTATGATCTGCTCTATTGCAACTTCAGAGAGATAACATCTATT
66 AACTTCAAGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAGATAACATCTATT
*
16095577 TATTTAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAACAAGATTTACTATCTTCAGTCTGCTC
131 TATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAACAAGATTTACTATCTTCAGTCTGCTC
16095642 CACTACAACTTCAGGGAGATAAG
196 CACTACAACTTCAGGGAGATAAG
16095665 GTTTAGTGGA
Statistics
Matches: 198, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
269 198 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (269 bp):
GCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGAATTGGTAATTTCAACCTACTCCATTGC
AACTTCAAGGAGATAAGGTTTGCTATGATCTGCTCTACTGCAACTTCAGAGAGATAACATCTATT
TATTTAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAACAAGATTTACTATCTTCAGTCTGCTC
CACTACAACTTCAGGGAGATAAGACTTTAACTTCAACCTGTTCCACTGCAACTTCAGGGAGATAA
GGTTTAGTG
Found at i:16095798 original size:144 final size:143
Alignment explanation
Indices: 16095581--16095861 Score: 413
Period size: 144 Copynumber: 2.0 Consensus size: 143
16095571 TCTATTTATT
*
16095581 TAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAACAAGATTTACTATCTTCAGTCTGCTCCACT
1 TAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAACAAGATTTACTATATTCAGTCTGCTCCACT
*
16095646 ACAACTTCAGGGAGATAAGGTTTAGTGGATTCAAT-TTGC-TCTACTGCAACTTCAGGGAGATAA
66 ACAACTTCAGGGAGATAAGG-CTAGTGGATTCAATCTT-CTTC-ACTGCAACTTCAGGGAGATAA
*
16095709 GATTTTCCATAATTTG
128 GATTTGCCATAATTTG
* * * **
16095725 TAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTATATTCAGTCTGCTCCGTT
1 TAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAACAAGATTTACTATATTCAGTCTGCTCCACT
** * *
16095790 GGAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTTCTTCACTGCAACTTCAGGGAGATAAGAT
66 ACAACTTCAGGGAGATAAGGCTAGTGGATTCAATCTTCTTCACTGCAACTTCAGGGAGATAAGAT
16095855 TTGCCAT
131 TTGCCAT
16095862 CTTTAGTCTG
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
143 42 0.34
144 81 0.66
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (143 bp):
TAGCTTCAATCTGTTCCACTGCAACTTTAGGGAAACAAGATTTACTATATTCAGTCTGCTCCACT
ACAACTTCAGGGAGATAAGGCTAGTGGATTCAATCTTCTTCACTGCAACTTCAGGGAGATAAGAT
TTGCCATAATTTG
Found at i:16095952 original size:18 final size:20
Alignment explanation
Indices: 16095929--16095974 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
16095919 CCAGACAAAT
*
16095929 AAAACAATAACAAA-A-CCC
1 AAAACAATAAAAAAGAGCCC
16095947 AAAACAATAAAAAAGAGCCC
1 AAAACAATAAAAAAGAGCCC
16095967 AAAA-AATA
1 AAAACAATA
16095975 GCCCACTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 13 0.52
19 5 0.20
20 7 0.28
ACGTcount: A:0.70, C:0.20, G:0.04, T:0.07
Consensus pattern (20 bp):
AAAACAATAAAAAAGAGCCC
Found at i:16097600 original size:27 final size:26
Alignment explanation
Indices: 16097541--16097620 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
16097531 ATTTGCTTTG
** * *
16097541 TGTATTATAGATTTTAAAATGCTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
** *
16097567 TACATTATTTATTTTAAACTTGTTTTA
1 TGTATTATTCATTTTAAA-TTGTTTTA
16097594 TGTATTATTCATTTTAAATTGTTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
16097620 T
1 T
16097621 TGTTTACTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 23 0.52
27 21 0.48
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (26 bp):
TGTATTATTCATTTTAAATTGTTTTA
Found at i:16099388 original size:45 final size:46
Alignment explanation
Indices: 16099310--16099455 Score: 206
Period size: 46 Copynumber: 3.2 Consensus size: 46
16099300 GGTTTTTTCC
* * * * *
16099310 ATCCATCCCACTGTAACTCAAAGGTAT-GAGATTTATATCATCTTCA
1 ATCCATCCCACTGCAGCTCAAGGGTATAG-GATTTGTATCTTCTTCA
*
16099356 ATCTATCCCACTGCAGCTC-AGGGTATAGGATTTGTATCTTCTTCA
1 ATCCATCCCACTGCAGCTCAAGGGTATAGGATTTGTATCTTCTTCA
*
16099401 ATCCATCCCACTGCAGCTCAAGGGTATATGATTTGTATCTTCTTCA
1 ATCCATCCCACTGCAGCTCAAGGGTATAGGATTTGTATCTTCTTCA
16099447 ATCCATCCC
1 ATCCATCCC
16099456 TCTGTAATTC
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 39 0.43
46 51 0.57
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.34
Consensus pattern (46 bp):
ATCCATCCCACTGCAGCTCAAGGGTATAGGATTTGTATCTTCTTCA
Found at i:16099468 original size:91 final size:92
Alignment explanation
Indices: 16099310--16099495 Score: 216
Period size: 91 Copynumber: 2.0 Consensus size: 92
16099300 GGTTTTTTCC
* * *
16099310 ATCCATCCCACTGTAACTCAAAGGTATGAGATTTATATCATCTTCAATCTATCCCACTGCAGCTC
1 ATCCATCCCACTGCAACTCAAAGGTATGAGATTTATATCATCTTCAATCCATCCCACTGCAACTC
* *
16099375 AGGG-TATAGG-ATTTGTATCTTCTTCA
66 AGGGATAT-GGAACTTGTAGCTTCTTCA
* * * * * * *
16099401 ATCCATCCCACTGCAGCTCAAGGGTAT-ATGATTTGTATCTTCTTCAATCCATCCCTCTGTAATT
1 ATCCATCCCACTGCAACTCAAAGGTATGA-GATTTATATCATCTTCAATCCATCCCACTGCAACT
*
16099465 CAGGGATATGGAACTTGTGGCTTCTTCA
65 CAGGGATATGGAACTTGTAGCTTCTTCA
16099493 ATC
1 ATC
16099496 ACTTGATCTG
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
90 1 0.01
91 59 0.75
92 19 0.24
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (92 bp):
ATCCATCCCACTGCAACTCAAAGGTATGAGATTTATATCATCTTCAATCCATCCCACTGCAACTC
AGGGATATGGAACTTGTAGCTTCTTCA
Found at i:16100278 original size:3 final size:3
Alignment explanation
Indices: 16100270--16100294 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16100260 CCTCTCATTT
16100270 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
16100295 CTTTTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:16100311 original size:12 final size:12
Alignment explanation
Indices: 16100296--16100351 Score: 62
Period size: 12 Copynumber: 4.5 Consensus size: 12
16100286 TCTTCTTCTC
16100296 TTTTTTTGATTA
1 TTTTTTTGATTA
16100308 TTTTTTTGATTA
1 TTTTTTTGATTA
16100320 TTTTTGATT-ATTTA
1 TTTTT--TTGA-TTA
16100334 TTATTTTTGATT-
1 TT-TTTTTGATTA
16100346 TTTTTT
1 TTTTTT
16100352 AGTCTCAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
11 4 0.10
12 19 0.49
13 5 0.13
14 8 0.21
15 3 0.08
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTTTTGATTA
Found at i:16100323 original size:10 final size:10
Alignment explanation
Indices: 16100298--16100350 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
16100288 TTCTTCTCTT
16100298 TTTTTGATTA
1 TTTTTGATTA
16100308 TTTTTTTGATTA
1 --TTTTTGATTA
16100320 TTTTTGATTA
1 TTTTTGATTA
16100330 --TTT-ATTA
1 TTTTTGATTA
16100337 TTTTTGATT-
1 TTTTTGATTA
16100346 TTTTT
1 TTTTT
16100351 TAGTCTCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
7 4 0.11
8 3 0.08
9 8 0.21
10 13 0.34
12 10 0.26
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (10 bp):
TTTTTGATTA
Found at i:16101845 original size:19 final size:19
Alignment explanation
Indices: 16101823--16101859 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16101813 AAAGAGATTC
*
16101823 TAAAGAACCAAAGAATATA
1 TAAAGAACAAAAGAATATA
*
16101842 TAAAGAATAAAAGAATAT
1 TAAAGAACAAAAGAATAT
16101860 TTGCTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.05, G:0.11, T:0.19
Consensus pattern (19 bp):
TAAAGAACAAAAGAATATA
Found at i:16106001 original size:15 final size:16
Alignment explanation
Indices: 16105935--16105998 Score: 67
Period size: 17 Copynumber: 3.9 Consensus size: 16
16105925 TGTAAGTTTG
16105935 AAATAAATAATATATGA
1 AAAT-AATAATATATGA
* *
16105952 AAAAAATAA-AAATGA
1 AAATAATAATATATGA
*
16105967 AAATAAGTAATATATATA
1 AAATAA-TAATATAT-GA
16105985 AAATAATAATATAT
1 AAATAATAATATAT
16105999 AAATGAGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 10 0.26
16 8 0.21
17 14 0.36
18 7 0.18
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (16 bp):
AAATAATAATATATGA
Found at i:16110462 original size:24 final size:24
Alignment explanation
Indices: 16110435--16110481 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
16110425 TTCAATTCAA
* *
16110435 AAGTTGAGAGATGTTGGATGAGAT
1 AAGTGGAGAGATGATGGATGAGAT
16110459 AAGTGGAGAGATGATGGATGAGA
1 AAGTGGAGAGATGATGGATGAGA
16110482 AGAATTGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.23
Consensus pattern (24 bp):
AAGTGGAGAGATGATGGATGAGAT
Found at i:16111460 original size:19 final size:19
Alignment explanation
Indices: 16111436--16111525 Score: 127
Period size: 19 Copynumber: 4.9 Consensus size: 19
16111426 ATAATCTTCA
16111436 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
16111455 ATGATATGCAATCTTAGACT
1 ATGATATGCAATCTTAGA-T
16111475 A--ATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
16111490 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
16111508 TTGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
16111526 AGATATGATT
Statistics
Matches: 64, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
15 2 0.03
16 10 0.16
17 2 0.03
18 18 0.28
19 30 0.47
20 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:16111837 original size:18 final size:17
Alignment explanation
Indices: 16111814--16111847 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16111804 TTTCCCTGAT
*
16111814 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
16111832 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
16111848 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:16114843 original size:12 final size:12
Alignment explanation
Indices: 16114828--16114858 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16114818 TTCTCTTTTA
16114828 TTTTTCTTTCAC
1 TTTTTCTTTCAC
*
16114840 TTTTTCTTTCTC
1 TTTTTCTTTCAC
16114852 TTTTTCT
1 TTTTTCT
16114859 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCAC
Found at i:16114959 original size:16 final size:16
Alignment explanation
Indices: 16114938--16114968 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16114928 TTTATTATTT
16114938 TATTAACATAATATAA
1 TATTAACATAATATAA
*
16114954 TATTAATATAATATA
1 TATTAACATAATATA
16114969 TTAAAATATC
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:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:16116053 original size:23 final size:24
Alignment explanation
Indices: 16116023--16116070 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
16116013 AGATAGTGTC
16116023 ACCGAA-GGATATACGTCAGAGTT
1 ACCGAAGGGATATACGTCAGAGTT
16116046 ACCGAAGGGATATACGTCAGAGTT
1 ACCGAAGGGATATACGTCAGAGTT
16116070 A
1 A
16116071 TGGGACTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (24 bp):
ACCGAAGGGATATACGTCAGAGTT
Found at i:16117376 original size:25 final size:26
Alignment explanation
Indices: 16117329--16117386 Score: 91
Period size: 25 Copynumber: 2.2 Consensus size: 26
16117319 GGATTGAGAA
16117329 ACTCGAAGAGGAAAAAATGTGCTTAAG
1 ACTCGAAGAGG-AAAAATGTGCTTAAG
16117356 ACTCGAAGAGG-AAAATGTGCTTAAG
1 ACTCGAAGAGGAAAAATGTGCTTAAG
*
16117381 TCTCGA
1 ACTCGA
16117387 CGTCGATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 19 0.63
27 11 0.37
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.21
Consensus pattern (26 bp):
ACTCGAAGAGGAAAAATGTGCTTAAG
Found at i:16122673 original size:220 final size:220
Alignment explanation
Indices: 16122290--16122879 Score: 966
Period size: 220 Copynumber: 2.7 Consensus size: 220
16122280 CAGGCTAAAG
* * * * * *
16122290 CATAGCAGATTTGACCTTCAGGTGTTTACACTGAAGCGGATCCAAGATGATTTAACATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
*
16122355 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGATGGAGAGCAGATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* * *
16122420 ACATAGCAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTTCGAATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGAATCCTT
*
16122485 GCGTTGACAAGGAGCAGATCGAAGA
196 GCATTGACAAGGAGCAGATCGAAGA
16122510 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
**
16122575 TTGTCAGAGAACAAATCGAAGAAACA-ATTTTGGCATCTCCATATTCGACAAAGAGCAGATCGAA
66 TTGTCAGAGAACAAATCGAAGAAACAGA-TTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
* *
16122639 GACATAGCAGATCTAACCTTTGAATGTCTTCACATTGAAGTAGATCCAAGATGATTTGGAATCCT
130 GACATAGCAGATCTAACCTTCGAATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGAATCCT
16122704 TGCATTGACAAGGAGCAGATCGAAGA
195 TGCATTGACAAGGAGCAGATCGAAGA
* **
16122730 CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
* *
16122795 CTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* *
16122860 ACATAGCAAATCTGACCTTC
131 ACATAGCAGATCTAACCTTC
16122880 ATTGAAGCAG
Statistics
Matches: 343, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
219 1 0.00
220 341 0.99
221 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (220 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTAACATCTCTGTA
TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTCGAATGTCTTCACATCGAAGTAGATCCAAGATGATTTGGAATCCTT
GCATTGACAAGGAGCAGATCGAAGA
Found at i:16122933 original size:78 final size:78
Alignment explanation
Indices: 16122821--16123115 Score: 439
Period size: 78 Copynumber: 3.8 Consensus size: 78
16122811 CGAAGAAACA
* * * * *
16122821 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAAATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
16122886 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
16122899 GATTTGGCATCTCTATATTATACGGGGAGTAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
16122964 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
16122977 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
16123041 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * * *
16123055 GATTTGACACCTCTGTATTAGACGGGGAGCAGATTGAAGACATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
16123116 GTGTTTACAT
Statistics
Matches: 196, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 194 0.99
79 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:16123256 original size:44 final size:45
Alignment explanation
Indices: 16123129--16123328 Score: 258
Period size: 45 Copynumber: 4.5 Consensus size: 45
16123119 TTTACATCGA
* * *
16123129 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* * * *
16123174 AGCAAATCGGAGATAACAGATTTGGCATCTTTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* * * * *
16123219 ACCAGATTGAAGA-AGCAAATTTGACGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
*
16123263 AGTAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
* *
16123308 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAACAGAT
16123329 ATCGCCTTCC
Statistics
Matches: 131, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 36 0.27
45 95 0.73
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.24
Consensus pattern (45 bp):
AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGG
Found at i:16124061 original size:18 final size:17
Alignment explanation
Indices: 16124038--16124071 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16124028 TTTCCCTAAT
*
16124038 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
16124056 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
16124072 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:16124907 original size:2 final size:2
Alignment explanation
Indices: 16124900--16124928 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16124890 CAAATCATTC
16124900 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16124929 GTCATGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16138268 original size:48 final size:48
Alignment explanation
Indices: 16138118--16138300 Score: 157
Period size: 48 Copynumber: 3.9 Consensus size: 48
16138108 TAAGGATATG
* *
16138118 TGTGATCCCATGTAAGGCCATGTCTGGGACATGGCATTGGCATCAATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * *
16138166 TGAGA-CATCGTGTAAGACCATAG-CT-----AT-GCTATCGGCTTCGATA
1 TGTGATC-CCATGTAAGACCAT-GTCTGGGACATGGC-ATTGGCATCGATA
* *
16138209 TGCATGATCCCATGTAAGGCCATGTCTGGGACATGGCATTGACATCGATA
1 TG--TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * *
16138259 TGTGATCCCATGTAAGACCATATCTAGGATATGGCATTGGCA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16138301 GCCTATTATG
Statistics
Matches: 103, Mismatches: 19, Indels: 26
0.70 0.13 0.18
Matches are distributed among these distances:
42 2 0.02
43 14 0.14
44 1 0.01
45 15 0.15
46 1 0.01
47 1 0.01
48 52 0.50
49 1 0.01
50 14 0.14
51 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:16139631 original size:31 final size:31
Alignment explanation
Indices: 16139586--16139661 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
16139576 TGTCCCAAGA
* *
16139586 CACACAGGCATGTGTGATCACACAGCCTACC
1 CACACGGGCGTGTGTGATCACACAGCCTACC
* *
16139617 CACACGGGCGTGTGTGATCACACGGCCTATC
1 CACACGGGCGTGTGTGATCACACAGCCTACC
*
16139648 CATACGGGCGTGTG
1 CACACGGGCGTGTG
16139662 ACTCTCCAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.18
Consensus pattern (31 bp):
CACACGGGCGTGTGTGATCACACAGCCTACC
Found at i:16143765 original size:14 final size:14
Alignment explanation
Indices: 16143742--16143771 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16143732 TTGAAAATAT
16143742 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
16143756 GTTGATTTGGATTG
1 GTTGAATTGGATTG
16143770 GT
1 GT
16143772 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:16149554 original size:64 final size:64
Alignment explanation
Indices: 16149470--16149646 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
16149460 ATATATATTT
*
16149470 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
16149534 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
16149598 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
16149647 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:16150004 original size:123 final size:124
Alignment explanation
Indices: 16149765--16150046 Score: 417
Period size: 123 Copynumber: 2.3 Consensus size: 124
16149755 TATATGAGAT
16149765 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGC
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGC
* * * * *
16149830 TTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG-GATTA
66 TTGATGCCGGTGAATTATTTCAGACTTAATGCCTAGCAGGCTTGATACCGGTGAAATGA
16149888 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGC
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGC
* * *
16149953 TTGATGCCGGTGAATTATTTTAGACTTTATGTCTAGCAGGCTTTG-TACCGGTGAAATGA
66 TTGATGCCGGTGAATTATTTCAGACTTAATGCCTAGCAGGC-TTGATACCGGTGAAATGA
* * ** *
16150012 -ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTG
16150047 TTTTATATAG
Statistics
Matches: 144, Mismatches: 13, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
123 138 0.96
124 6 0.04
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.33
Consensus pattern (124 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTATTTCAGGCTTAATGCCTAGCAGGC
TTGATGCCGGTGAATTATTTCAGACTTAATGCCTAGCAGGCTTGATACCGGTGAAATGA
Found at i:16150060 original size:41 final size:41
Alignment explanation
Indices: 16149765--16149995 Score: 417
Period size: 41 Copynumber: 5.6 Consensus size: 41
16149755 TATATGAGAT
16149765 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
16149806 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
16149847 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
16149888 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
*
16149929 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTA
1 TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
* * * *
16149970 TTTTAGACTTTATGTCTAGCAGGCTT
1 TTTCAGGCTTAATGCCTAGCAGGCTT
16149996 TGTACCGGTG
Statistics
Matches: 185, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 185 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (41 bp):
TTTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGGATTA
Found at i:16151511 original size:22 final size:22
Alignment explanation
Indices: 16151486--16151549 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
16151476 TTGTATGGGT
*
16151486 TTAGCACTTCGGTGCTCTTTGC
1 TTAGCACTTCGATGCTCTTTGC
* * *
16151508 TTAGCACTTAGATGCTATTTGT
1 TTAGCACTTCGATGCTCTTTGC
16151530 TTAGCA-TTCGATGCTCTTTG
1 TTAGCACTTCGATGCTCTTTG
16151550 GTGCGGTGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 12 0.33
22 24 0.67
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (22 bp):
TTAGCACTTCGATGCTCTTTGC
Found at i:16152146 original size:9 final size:9
Alignment explanation
Indices: 16152132--16152166 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
16152122 TTTTATATAA
16152132 AGAGAGTTT
1 AGAGAGTTT
16152141 AGAGAGTTT
1 AGAGAGTTT
*
16152150 AGAAAGTTT
1 AGAGAGTTT
16152159 AGAGAGTT
1 AGAGAGTT
16152167 CAACTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.31, T:0.31
Consensus pattern (9 bp):
AGAGAGTTT
Found at i:16152236 original size:24 final size:26
Alignment explanation
Indices: 16152189--16152250 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
16152179 TAAATTAATA
16152189 TAATATT--TATTAAGATAAATA-TT
1 TAATATTAATATTAAGATAAATATTT
16152212 TAAT-TTAATATTAAGAT-AATCATTT
1 TAATATTAATATTAAGATAAAT-ATTT
16152237 TAATATTAA-ATTAA
1 TAATATTAATATTAA
16152251 ATTTAATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
22 2 0.06
23 7 0.21
24 10 0.29
25 11 0.32
26 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (26 bp):
TAATATTAATATTAAGATAAATATTT
Found at i:16152263 original size:37 final size:37
Alignment explanation
Indices: 16152213--16152287 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
16152203 ATAAATATTT
*
16152213 AATTTAATATTAAGATAATCATTTTAATATTAAATTA
1 AATTTAATATTAAGATAATCACTTTAATATTAAATTA
16152250 AATTTAATATTAAGATAATCACTTTAATATTAAATTA
1 AATTTAATATTAAGATAATCACTTTAATATTAAATTA
16152287 A
1 A
16152288 TAAAATACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (37 bp):
AATTTAATATTAAGATAATCACTTTAATATTAAATTA
Found at i:16152288 original size:20 final size:19
Alignment explanation
Indices: 16152214--16152282 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 19
16152204 TAAATATTTA
16152214 ATTTAATATTAAGATAATC
1 ATTTAATATTAAGATAATC
16152233 ATTTTAATATTAA-ATTAA--
1 A-TTTAATATTAAGA-TAATC
16152251 ATTTAATATTAAGATAATC
1 ATTTAATATTAAGATAATC
16152270 ACTTTAATATTAA
1 A-TTTAATATTAA
16152283 ATTAATAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
17 14 0.32
18 2 0.05
19 3 0.07
20 25 0.57
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTTAATATTAAGATAATC
Found at i:16152335 original size:25 final size:25
Alignment explanation
Indices: 16152307--16152355 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16152297 TCAAGATATG
*
16152307 TATTAAATTAA-ATTTAATATCGAAT
1 TATTAAAATAATA-TTAATATCGAAT
*
16152332 TATTAAAATAATATTAATTTCGAA
1 TATTAAAATAATATTAATATCGAA
16152356 ATAATTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (25 bp):
TATTAAAATAATATTAATATCGAAT
Found at i:16154515 original size:9 final size:9
Alignment explanation
Indices: 16154501--16154525 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16154491 TCAATTTGAT
16154501 TAAAATTAA
1 TAAAATTAA
16154510 TAAAATTAA
1 TAAAATTAA
16154519 TAAAATT
1 TAAAATT
16154526 GAGTTCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TAAAATTAA
Found at i:16155141 original size:15 final size:15
Alignment explanation
Indices: 16155118--16155156 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
16155108 GGCGCCGAAA
16155118 GCCGAGAAGAAGCCC
1 GCCGAGAAGAAGCCC
* *
16155133 GCTGAGAAGAAGCCT
1 GCCGAGAAGAAGCCC
16155148 GCCGAGAAG
1 GCCGAGAAG
16155157 CCAACGGAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.26, G:0.36, T:0.05
Consensus pattern (15 bp):
GCCGAGAAGAAGCCC
Found at i:16163586 original size:13 final size:13
Alignment explanation
Indices: 16163554--16163599 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
16163544 TATGAGTGGT
*
16163554 TAAGTCTGTTAGC
1 TAAGTTTGTTAGC
16163567 -AAGTTTGTTAGC
1 TAAGTTTGTTAGC
*
16163579 TCAGTTTGTTAGC
1 TAAGTTTGTTAGC
16163592 TAAGTTTG
1 TAAGTTTG
16163600 CTAAGTCTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.43
Consensus pattern (13 bp):
TAAGTTTGTTAGC
Found at i:16166282 original size:21 final size:21
Alignment explanation
Indices: 16166258--16166305 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
16166248 TATACGAAAG
*
16166258 AATTTAAAATCAATTCAATAC
1 AATTCAAAATCAATTCAATAC
* * *
16166279 AATTCACATTCAATTCAATCC
1 AATTCAAAATCAATTCAATAC
16166300 AATTCA
1 AATTCA
16166306 CATCTTAGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (21 bp):
AATTCAAAATCAATTCAATAC
Found at i:16166294 original size:5 final size:5
Alignment explanation
Indices: 16166267--16166305 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
16166257 GAATTTAAAA
* *
16166267 TCAAT TCAAT ACAAT TCACAT TCAAT TCAAT CCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
16166306 CATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (5 bp):
TCAAT
Found at i:16166306 original size:21 final size:21
Alignment explanation
Indices: 16166267--16166308 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
16166257 GAATTTAAAA
16166267 TCAATTCAATACAATTCACAT
1 TCAATTCAATACAATTCACAT
*
16166288 TCAATTCAATCCAATTCACAT
1 TCAATTCAATACAATTCACAT
16166309 CTTAGGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.33
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Found at i:16168777 original size:18 final size:18
Alignment explanation
Indices: 16168750--16168788 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16168740 CTTGATTATT
* *
16168750 AAAAATTAAAAATTAAAA
1 AAAAACTAAAAACTAAAA
*
16168768 AAAAACTAAAACCTAAAA
1 AAAAACTAAAAACTAAAA
16168786 AAA
1 AAA
16168789 TTTAAAAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAACTAAAAACTAAAA
Found at i:16175570 original size:3 final size:3
Alignment explanation
Indices: 16175562--16175594 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
16175552 TCCGAAAACG
16175562 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16175595 TACAAAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16180817 original size:18 final size:18
Alignment explanation
Indices: 16180796--16181078 Score: 126
Period size: 18 Copynumber: 15.3 Consensus size: 18
16180786 GAACAATTAT
16180796 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
16180814 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
16180832 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
16180850 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
16180876 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
16180894 TTATTCAGTAA-AATTAG
1 TTATTCAGTAACAGTCAG
* * *
16180911 ATATTCAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
* *
16180930 TTATTCCGCAACAGTCA-
1 TTATTCAGTAACAGTCAG
* *
16180947 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
16180966 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* * *
16180984 TTATTCAGTAATATTCAA
1 TTATTCAGTAACAGTCAG
16181002 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* *
16181020 ATATCCAGTAACAGTCAAG
1 TTATTCAGTAACAGTC-AG
* * * *
16181039 -TATCCGGTAACAGCCAA
1 TTATTCAGTAACAGTCAG
* *
16181056 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
16181074 TTATT
1 TTATT
16181079 TTATACCTTT
Statistics
Matches: 196, Mismatches: 52, Indels: 34
0.70 0.18 0.12
Matches are distributed among these distances:
17 16 0.08
18 147 0.75
19 17 0.09
21 2 0.01
22 1 0.01
23 2 0.01
26 11 0.06
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:16180836 original size:36 final size:36
Alignment explanation
Indices: 16180787--16181078 Score: 162
Period size: 36 Copynumber: 7.9 Consensus size: 36
16180777 TAACAATTAG
* * * *
16180787 AACAATTATTTATTCAGTAACAGTCAGTTATTCGGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * *
16180823 AACAATCAATTATTCAATAATAACCAGTTATTCAGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * * *
16180859 ATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTATTCAGT
1 AACAATCAATT-A-----T-T-CAGTAACAATCAGTTATTCAGT
* * * *
16180903 AA-AATTAGA-TATTCAGTAACAATTAAGTTATTCCGC
1 AACAATCA-ATTATTCAGTAACAA-TCAGTTATTCAGT
* *
16180939 AACAGTC-ATTCATTCAGTGACAATCAGTTATTCAGT
1 AACAATCAATT-ATTCAGTAACAATCAGTTATTCAGT
** * * *
16180975 AATGATCAATTATTCAGTAATATTCAATTATTCAGT
1 AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
* * * * *
16181011 AACAGTCTAA-TATCCAGTAACAGTCAAG-TATCCGGT
1 AACAATC-AATTATTCAGTAACAATC-AGTTATTCAGT
** *
16181047 AACAGCCAATTATTCAGTAATAATCAGTTATT
1 AACAATCAATTATTCAGTAACAATCAGTTATT
16181079 TTATACCTTT
Statistics
Matches: 189, Mismatches: 49, Indels: 36
0.69 0.18 0.13
Matches are distributed among these distances:
35 13 0.07
36 129 0.68
37 21 0.11
42 2 0.01
43 5 0.03
44 19 0.10
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (36 bp):
AACAATCAATTATTCAGTAACAATCAGTTATTCAGT
Found at i:16180943 original size:54 final size:54
Alignment explanation
Indices: 16180875--16181066 Score: 162
Period size: 54 Copynumber: 3.6 Consensus size: 54
16180865 CAATTGATCG
*
16180875 GTTA-TCCAGTAACAGTCAATTATTCAGTAAAATTAGATATTCAGTAACAATTAA
1 GTTATTCC-GTAACAGTCAATTATTCAGTAAAATTAGATATTCAGTAACAATCAA
* * * * **
16180929 GTTATTCCGCAACAGTC-ATTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 GTTATTCCGTAACAGTCAATT-ATTCAGT-AAAATTAGATATTCAGTAACAATCAA
* * * * * *
16180984 -TTATTCAGTAATATTCAATTATTCAGTAACAGTCTA-ATATCCAGTAACAGTCAA
1 GTTATTCCGTAACAGTCAATTATTCAGTAA-AAT-TAGATATTCAGTAACAATCAA
*
16181038 G-TA-TCCGGTAACAGCCAATTATTCAGTAA
1 GTTATTCC-GTAACAGTCAATTATTCAGTAA
16181067 TAATCAGTTA
Statistics
Matches: 107, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
53 6 0.06
54 74 0.69
55 27 0.25
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (54 bp):
GTTATTCCGTAACAGTCAATTATTCAGTAAAATTAGATATTCAGTAACAATCAA
Found at i:16181250 original size:53 final size:53
Alignment explanation
Indices: 16181189--16181366 Score: 284
Period size: 53 Copynumber: 3.4 Consensus size: 53
16181179 CCGAAACAGT
* *
16181189 AACAGTAACAGTAGCAGTACGGTACACAGAGTACCTCATCGGAACAAATTCGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
*
16181242 AACAGTAACAGTAACAGTACGGTACACAGAGTGCCTCATCGGAACAAATCCGA
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
* * * *
16181295 AACAGTAACAGTAATATTACGGTACACAGAGTACTTCATCGGAACAAATCCGG
1 AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
*
16181348 AACAGTAATAGTAACAGTA
1 AACAGTAACAGTAACAGTA
16181367 ACAGTAACAA
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 114 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:16190584 original size:13 final size:13
Alignment explanation
Indices: 16190566--16190590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16190556 TATTTTAATA
16190566 TTATTTTGTGTGT
1 TTATTTTGTGTGT
16190579 TTATTTTGTGTG
1 TTATTTTGTGTG
16190591 CATTCGATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:16192331 original size:41 final size:41
Alignment explanation
Indices: 16192124--16192320 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
16192114 TTTATCGTTA
* * * *
16192124 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16192165 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16192206 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16192247 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
16192288 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
16192321 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:16192592 original size:32 final size:31
Alignment explanation
Indices: 16192537--16192600 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
16192527 AGATATGTAT
16192537 ATATATATATATGTTGCATTCGGCATAGGTG
1 ATATATATATATGTTGCATTCGGCATAGGTG
* *
16192568 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
16192600 A
1 A
16192601 AAATAAGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.39
Consensus pattern (31 bp):
ATATATATATATGTTGCATTCGGCATAGGTG
Found at i:16198512 original size:13 final size:13
Alignment explanation
Indices: 16198496--16198525 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16198486 ATAAAATGAT
*
16198496 ATAATATATTAAA
1 ATAATAAATTAAA
16198509 ATAATAAATTAAA
1 ATAATAAATTAAA
16198522 ATAA
1 ATAA
16198526 AAAAAAAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATAAATTAAA
Found at i:16199990 original size:41 final size:41
Alignment explanation
Indices: 16199783--16199979 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
16199773 TTTATCGTTA
* * * *
16199783 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16199824 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16199865 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
16199906 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
16199947 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
16199980 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:16200254 original size:33 final size:32
Alignment explanation
Indices: 16200198--16200261 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
16200188 ATATGTATAT
16200198 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
16200230 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
16200262 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:16200278 original size:33 final size:33
Alignment explanation
Indices: 16200205--16200278 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
16200195 TATATATATA
* * **
16200205 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
16200237 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
16200270 TGTATGTAT
1 TATATGTAT
16200279 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:16209990 original size:25 final size:24
Alignment explanation
Indices: 16209962--16210019 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
16209952 ATCATGAATT
* *
16209962 ATTAAATTTAGAGTA-GATTAATATA
1 ATTAAATGTAGAATATG-TTAA-ATA
*
16209987 ATTATATGTAGAATATGTTAAATA
1 ATTAAATGTAGAATATGTTAAATA
16210011 ATTAAATGT
1 ATTAAATGT
16210020 TTGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 11 0.39
25 16 0.57
26 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (24 bp):
ATTAAATGTAGAATATGTTAAATA
Found at i:16215111 original size:6 final size:7
Alignment explanation
Indices: 16215091--16215116 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16215081 TGGAGTTTGG
16215091 AATAAAA
1 AATAAAA
16215098 AATAAAA
1 AATAAAA
16215105 AATAAAA
1 AATAAAA
16215112 AATAA
1 AATAA
16215117 GAAGTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AATAAAA
Found at i:16216087 original size:23 final size:23
Alignment explanation
Indices: 16216061--16216114 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
16216051 GGGGTTAAAA
*
16216061 GCCATTGCTACATACCATATCGT
1 GCCATTACTACATACCATATCGT
16216084 GCCATTACTACATACCATATCGT
1 GCCATTACTACATACCATATCGT
16216107 GCCATTAC
1 GCCATTAC
16216115 GGCACATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (23 bp):
GCCATTACTACATACCATATCGT
Found at i:16220700 original size:20 final size:21
Alignment explanation
Indices: 16220657--16220702 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
16220647 ACTGTTTTGT
16220657 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
16220677 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
16220696 TATGGGC
1 TATGGGC
16220703 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:16220802 original size:60 final size:62
Alignment explanation
Indices: 16220738--16220866 Score: 158
Period size: 60 Copynumber: 2.1 Consensus size: 62
16220728 ATAGGGCCAC
* * * *
16220738 GGCCCAGATTGATACTGACATGGGCT-AGGCCCAG-TATACTCTGATA-CTGTA-AGGGGTTA
1 GGCCCAGATTAATACTGACATGGGCTAAGACCCAGTTA-ACTCTGATATCTGAATAGGGCTTA
* *
16220797 TGGCCCAGATTAATATTGATATGGGCTAAGACCCAGTTAACTCTGATATCTGAATAGGGCTTA
1 -GGCCCAGATTAATACTGACATGGGCTAAGACCCAGTTAACTCTGATATCTGAATAGGGCTTA
16220860 GGCCCAG
1 GGCCCAG
16220867 TAAAGCTTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
60 23 0.39
61 16 0.27
62 13 0.22
63 7 0.12
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (62 bp):
GGCCCAGATTAATACTGACATGGGCTAAGACCCAGTTAACTCTGATATCTGAATAGGGCTTA
Found at i:16221646 original size:48 final size:48
Alignment explanation
Indices: 16221570--16221798 Score: 173
Period size: 48 Copynumber: 4.9 Consensus size: 48
16221560 TGGAGTGTTA
* * * *
16221570 CAATGTCAATACCATGTCCCAAATATGGTCTTACATGGGACCACATAT
1 CAATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAT
* * * * ** *
16221618 CAATGCCAATGCCATATCCCAGACATGGTCTTACATAGAATCGTAGAT
1 CAATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAT
* *
16221666 CGATGCCAATGACATGTCCCAAACATGGTCTTACATGGGATCACATAT
1 CAATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAT
* * * * ** *
16221714 CGATGTCAAT---A-G-CCC-AGCTATGGTCTTACACGAAATTACATAT
1 CAATGCCAATGCCATGTCCCAAAC-ATGGTCTTACATGGGATCACATAT
** * * * *
16221757 TGATGCCAAAGTCATGTCCCAGACATGGTCTTACATAGGATC
1 CAATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATC
16221799 GCACATAACC
Statistics
Matches: 138, Mismatches: 36, Indels: 14
0.73 0.19 0.07
Matches are distributed among these distances:
42 2 0.01
43 30 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 101 0.73
49 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (48 bp):
CAATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAT
Found at i:16224398 original size:23 final size:23
Alignment explanation
Indices: 16224368--16224413 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
16224358 CACTTTGAAT
16224368 TAGAAAAATGCATGTGAAATCTA
1 TAGAAAAATGCATGTGAAATCTA
16224391 TAGAAAAATGCATGTGAAATCTA
1 TAGAAAAATGCATGTGAAATCTA
16224414 AGTTTTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (23 bp):
TAGAAAAATGCATGTGAAATCTA
Found at i:16229545 original size:6 final size:6
Alignment explanation
Indices: 16229534--16229560 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16229524 GAAAGAGATA
16229534 GGGAAG GGGAAG GGGAAG GGGAAG GGG
1 GGGAAG GGGAAG GGGAAG GGGAAG GGG
16229561 GGCTTTAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:16235043 original size:47 final size:47
Alignment explanation
Indices: 16234989--16235095 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 47
16234979 TTCAGCTACG
*
16234989 TATTGGCACTTCGTATGC-ATTAATCGAGATAGCTTCGGCTATATATA
1 TATTGGCACTTCGGATGCAATT-ATCGAGATAGCTTCGGCTATATATA
* * * * *
16235036 TATTGGCACTTCGGGTGCAAGATTATTGAGATAGCTTTGGCTATATTTT
1 TATTGGCACTTCGGATGC-A-ATTATCGAGATAGCTTCGGCTATATATA
16235085 TATTGGCACTT
1 TATTGGCACTT
16235096 ATTGTACGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
47 16 0.31
49 32 0.63
50 3 0.06
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.39
Consensus pattern (47 bp):
TATTGGCACTTCGGATGCAATTATCGAGATAGCTTCGGCTATATATA
Found at i:16240785 original size:17 final size:19
Alignment explanation
Indices: 16240751--16240785 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16240741 ATATGTTACA
16240751 ACAAAAATACATGAATTTC
1 ACAAAAATACATGAATTTC
16240770 ACAAAAAT-CA-GAATTT
1 ACAAAAATACATGAATTT
16240786 TTCCATGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (19 bp):
ACAAAAATACATGAATTTC
Found at i:16250623 original size:17 final size:17
Alignment explanation
Indices: 16250601--16250634 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16250591 ATTTTTATTA
16250601 AATTTTTAATTAAATTT
1 AATTTTTAATTAAATTT
16250618 AATTTTTAATTAAATTT
1 AATTTTTAATTAAATTT
16250635 TACCACTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTTAATTAAATTT
Found at i:16250635 original size:28 final size:27
Alignment explanation
Indices: 16250571--16250654 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 27
16250561 AAATTATGTG
* *
16250571 ATTAAATTTT-ACTAACTTTGATTTTT
1 ATTAAATTTTAACTAAATTTAATTTTT
*
16250597 ATTAAATTTTTAATTAAATTTAATTTTT
1 ATTAAA-TTTTAACTAAATTTAATTTTT
*
16250625 AATTAAATTTTACCACTCAATATTAATTTT
1 -ATTAAATTTTA--ACTAAAT-TTAATTTT
16250655 AATGCTTTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.13
27 4 0.09
28 18 0.38
29 6 0.13
30 5 0.11
31 8 0.17
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (27 bp):
ATTAAATTTTAACTAAATTTAATTTTT
Found at i:16252647 original size:35 final size:35
Alignment explanation
Indices: 16252604--16252673 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
16252594 CGGTCGGGGA
16252604 GGGGGAGAGAGAAGGGGGTGGGGAGATTTTTATTT
1 GGGGGAGAGAGAAGGGGGTGGGGAGATTTTTATTT
16252639 GGGGGAGAGAGAAGGGGGTGGGGAGATTTTTATTT
1 GGGGGAGAGAGAAGGGGGTGGGGAGATTTTTATTT
16252674 TACTTAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.00, G:0.51, T:0.26
Consensus pattern (35 bp):
GGGGGAGAGAGAAGGGGGTGGGGAGATTTTTATTT
Found at i:16252758 original size:22 final size:22
Alignment explanation
Indices: 16252733--16252785 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
16252723 AATTTATTAA
*
16252733 AAAATTTTATTTTATATATTTT
1 AAAATTTTATTATATATATTTT
16252755 AAAA--TTATTATATATATTTT
1 AAAATTTTATTATATATATTTT
16252775 AAAATATTTAT
1 AAAAT-TTTAT
16252786 GTATTTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 19 0.70
22 4 0.15
23 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AAAATTTTATTATATATATTTT
Done.