Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01002319.1 Kokia drynarioides strain JFW-HI SEQ_114364, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24569
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Found at i:4559 original size:30 final size:29
Alignment explanation
Indices: 4525--4707 Score: 109
Period size: 30 Copynumber: 6.2 Consensus size: 29
4515 CGTTTTATTT
*
4525 AAAAATTACATTTTCACCGTTAAACTATCC
1 AAAAATTACATTTTCACCCTTAAACT-TCC
** * *
4555 AAAAATTATGTTTTGACCCTTGAACTTTCC
1 AAAAATTACATTTTCACCCTTAAAC-TTCC
** *
4585 AAAAATTTGAATTTCACCCCTTAAACTTCC
1 AAAAATTACATTTTCA-CCCTTAAACTTCC
* * * *
4615 AAAAATTTAGA-TTTGACCCCTGAACTTCCC
1 AAAAA-TTACATTTTCACCCTTAAACTT-CC
** * * *
4645 AAAAATTTGAATTTGACCCTTGAACTTCC
1 AAAAATTACATTTTCACCCTTAAACTTCC
* * * *
4674 AAAAATT-CAGATTTGACCCTCAAACTTTC
1 AAAAATTACA-TTTTCACCCTTAAACTTCC
4703 AAAAA
1 AAAAA
4708 AATTGGATTT
Statistics
Matches: 126, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.01
29 43 0.34
30 69 0.55
31 13 0.10
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (29 bp):
AAAAATTACATTTTCACCCTTAAACTTCC
Found at i:4618 original size:60 final size:59
Alignment explanation
Indices: 4536--4752 Score: 222
Period size: 60 Copynumber: 3.6 Consensus size: 59
4526 AAAATTACAT
* *
4536 TTTCACCGTTAAACTATCCAAAAATTATGTTTTGACCCTTGAACTTTCCAAAAATTTGAA
1 TTTCACCCTTAAACT-TCCAAAAATTATGATTTGACCCTTGAACTTTCCAAAAATTTGAA
* *
4596 TTTCACCCCTTAAACTTCCAAAAATT-TAGATTTGACCCCTGAACTTCCCAAAAATTTGAA
1 TTTCA-CCCTTAAACTTCCAAAAATTAT-GATTTGACCCTTGAACTTTCCAAAAATTTGAA
* * ** * * *
4656 TTTGACCCTTGAACTTCCAAAAATTCA-GATTTGACCCTCAAACTTTCAAAAAAATTGGA
1 TTTCACCCTTAAACTTCCAAAAATT-ATGATTTGACCCTTGAACTTTCCAAAAATTTGAA
* * ** * *
4715 TTTGACCCTCGAATTTTCCAAAAATAAAGATTTGACCC
1 TTTCACCCT-TAAACTTCCAAAAATTATGATTTGACCC
4753 CAAAACTTCC
Statistics
Matches: 133, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
59 55 0.41
60 69 0.52
61 9 0.07
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (59 bp):
TTTCACCCTTAAACTTCCAAAAATTATGATTTGACCCTTGAACTTTCCAAAAATTTGAA
Found at i:4717 original size:30 final size:30
Alignment explanation
Indices: 4547--4797 Score: 181
Period size: 30 Copynumber: 8.4 Consensus size: 30
4537 TTCACCGTTA
* * *
4547 AACTATCCAAAAATTAT-GTTTTGACCCTTG
1 AACTTTCCAAAAATT-TGGATTTGACCCTCG
* * **
4577 AACTTTCCAAAAATTTGAATTTCACCCCTTA
1 AACTTTCCAAAAATTTGGATTTGA-CCCTCG
*
4608 AAC-TTCCAAAAATTTAGATTTGACCC-CTG
1 AACTTTCCAAAAATTTGGATTTGACCCTC-G
* * *
4637 AACTTCCCAAAAATTTGAATTTGACCCTTG
1 AACTTTCCAAAAATTTGGATTTGACCCTCG
** *
4667 AAC-TTCCAAAAATTCAGATTTGACCCTCA
1 AACTTTCCAAAAATTTGGATTTGACCCTCG
* *
4696 AACTTTCAAAAAAATTGGATTTGACCCTCG
1 AACTTTCCAAAAATTTGGATTTGACCCTCG
* *** *
4726 AATTTTCCAAAAATAAAGATTTGACCC-CAA
1 AACTTTCCAAAAATTTGGATTTGACCCTC-G
* * * * *
4756 AAC-TTCCTAATAATTTGAATTTGGCCCCCA
1 AACTTTCC-AAAAATTTGGATTTGACCCTCG
4786 AACTTTCCAAAA
1 AACTTTCCAAAA
4798 TTTCATTTTT
Statistics
Matches: 171, Mismatches: 40, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
29 35 0.20
30 123 0.72
31 13 0.08
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (30 bp):
AACTTTCCAAAAATTTGGATTTGACCCTCG
Found at i:4778 original size:60 final size:58
Alignment explanation
Indices: 4552--4797 Score: 206
Period size: 60 Copynumber: 4.1 Consensus size: 58
4542 CGTTAAACTA
* * ** * ** *
4552 TCCAAAAATTATGTTTTGACCCTTGAACTTTCC-AAAAATTTGAATTTCACCCCTTAAACT
1 TCCAAAAATTAAGATTTGACCC-CAAAC-TTCCAAAAAATTTGAATTTGA-CCCTCGAATT
* * * * *
4612 TCCAAAAATTTAGATTTGACCCCTGAACTTCCCAAAAATTTGAATTTGACCCTTGAACT
1 TCCAAAAATTAAGATTTGACCCC-AAACTTCCAAAAAATTTGAATTTGACCCTCGAATT
* * * *
4671 TCCAAAAATTCAGATTTGACCCTCAAACTTTCAAAAAAATTGGATTTGACCCTCGAATTT
1 TCCAAAAATTAAGATTTGACCC-CAAACTTCCAAAAAATTTGAATTTGACCCTCGAA-TT
* * * * * *
4731 TCCAAAAATAAAGATTTGACCCCAAAACTTCCTAATAATTTGAATTTGGCCCCCAAACTT
1 TCCAAAAATTAAGATTTGACCCC-AAACTTCCAAAAAATTTGAATTTGACCCTCGAA-TT
4791 TCCAAAA
1 TCCAAAA
4798 TTTCATTTTT
Statistics
Matches: 156, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
59 62 0.40
60 94 0.60
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.32
Consensus pattern (58 bp):
TCCAAAAATTAAGATTTGACCCCAAACTTCCAAAAAATTTGAATTTGACCCTCGAATT
Found at i:11790 original size:99 final size:99
Alignment explanation
Indices: 11632--11829 Score: 243
Period size: 99 Copynumber: 2.0 Consensus size: 99
11622 GAAGCTGATG
* * * * *
11632 CCTTAGAAGATGTGATGGGAAATATTGTGGTCACAATGACTAATCCAATACCATAAAGATATGAA
1 CCTTAAAAGATGTGATGGGAAAGATTGAGGTCACAACGACGAATCCAATACCATAAAGATATGAA
* * * *
11697 GGGAAATGTTGAGGTTGAAACGGTGAACCTTGTA
66 GGGAAAGGTTAAGGCTGAAACGGCGAACCTTGTA
* * *** *
11731 CCTTAAAAGATGTGATGGGAAGGATTGAGGTCACAACGGCGAATCTGGTACCATGAAGATATGAA
1 CCTTAAAAGATGTGATGGGAAAGATTGAGGTCACAACGACGAATCCAATACCATAAAGATATGAA
* *
11796 GGGAAAGGTTAAGGCTGCAATGGCGAACCTTGTA
66 GGGAAAGGTTAAGGCTGAAACGGCGAACCTTGTA
11830 AGATATGGTG
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
99 82 1.00
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (99 bp):
CCTTAAAAGATGTGATGGGAAAGATTGAGGTCACAACGACGAATCCAATACCATAAAGATATGAA
GGGAAAGGTTAAGGCTGAAACGGCGAACCTTGTA
Found at i:11821 original size:49 final size:49
Alignment explanation
Indices: 11679--12707 Score: 478
Period size: 50 Copynumber: 20.8 Consensus size: 49
11669 GACTAATCCA
* * ** * * *
11679 ATACCATAAAGATATGAAGGGAAATGTTGAGGTTGAAACGGTGAACCTTG
1 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATC-TG
* * * * * *
11729 -TACCTTAAAAGATGTGATGGG-AAGGATTGAGGTCACAACGGCGAATCTG
1 ATACCAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAATCTG
* * * * *
11778 GTACCATGAAGATATGAAGGGAAAGGTTAAGGCTGCAATGGCGAACCT-
1 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCTG
* ** * *
11826 -T---GT-AAGATATGGTGGGAAAGGTTGAGGCCACAACGACGAA-CTCG
1 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCT-G
** * * * * * * *
11870 ATACGTTAGAAGATGTGATGGG-AAGGATTTAGGCTGTAATGGTGAATCTG
1 ATACCAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAATCTG
* * ** * *
11920 ATACCATGAAGATATGAAGGGAAAGGTTGAGACCACAACAACGAACCCG
1 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCTG
* * * * * * *
11969 ATACCTTAAAAGATGTGATGGG-AAGGATTTAGGCCGCAACGACAAATCTG
1 ATACCAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAATCTG
* * * * ** * * *
12019 GTACCATGAAGATATGAACGGAAAGGTTGAGACCGTAATAGCAAACCCG
1 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCTG
* * * * * * **
12068 ATACCTTAGAAGATGTGATGGG-AAGGATTGAGGTCGCAATGACGAATCCA
1 ATACCAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAATCTG
* * * * *
12118 ATACCATGAAGATATGAATGGATAGGTTGAGGCTGCAACGGTGAACCTTG
1 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATC-TG
* * * *
12168 -TACCTTAGAAGATGTG-ATGGAAAGGATTGAGGCCGCAACGGCGAATCAG
1 ATACCAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAATCTG
* * *
12217 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCTGTAACGACGAGA-CTTG
1 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGA-ATC-TG
** * * * * *
12267 -TAAGATATGATAGGAATATGATGGGAAAGGTTAAGGCCGCAACGACGTACCTG
1 AT-A-CCATGA-A-G-ATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCTG
* * * * * * * * *
12320 ATATCTTAGAAGATGTGATGGG-AAGGATTTAGGCCGTAACGACAAATCCG
1 ATACCAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAATCTG
* * * * *
12370 ATACCATGAAGATATGAAGGGAAAGGTTGAGACCGGAACAGCGAACCCG
1 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCTG
* * * * **
12419 ATACCTTAGAAGATGTGATGGG-AAGGATTGAGGCCGTAACGGCGAATCCA
1 ATACCAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAATCTG
* ** * ** *
12469 ATACCATGATGATATGAAATGAATGGTTGAGGCCGCAACAACGAACCTG
1 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCTG
** * * * * * * * *
12518 GCACCTTAAAAAATGTGATGGG-AAGGATTGAGGCCACAACGGTGAATCCG
1 ATACCAT-GAAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAATCTG
* * * * *
12568 ATACCATGAAGATATAAAGGAAAAGGTTGAGGCTGTAATGGCGAA-CTCG
1 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCT-G
* * * * * *** *
12617 GTACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGTGTCAGCGAATCTG
1 ATACCAT-GAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCTG
12667 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGG
1 ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGG
12708 TAAACCTGAT
Statistics
Matches: 713, Mismatches: 219, Indels: 95
0.69 0.21 0.09
Matches are distributed among these distances:
42 2 0.00
43 30 0.04
44 1 0.00
45 1 0.00
47 1 0.00
48 2 0.00
49 304 0.43
50 323 0.45
51 9 0.01
52 3 0.00
53 7 0.01
54 30 0.04
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (49 bp):
ATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCTG
Found at i:12248 original size:99 final size:99
Alignment explanation
Indices: 11829--12260 Score: 483
Period size: 99 Copynumber: 4.4 Consensus size: 99
11819 CGAACCTTGT
** * * *
11829 AAGATATGGTGGGAAAGGTTGAGGCCACAACGACGAACTCGATACGTTAGAAGATGTGATGGGAA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTGATGGGAA
* * * * ** *
11894 GGATTTAGGCTGTAATGGTGAATCTGATACCATG
66 GGATTGAGGCCGCAACGACGAATCAGATACCATG
* * * *
11928 AAGATATGAAGGGAAAGGTTGAGACCACAACAACGAACCCGATACCTTAAAAGATGTGATGGGAA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTGATGGGAA
* * * *
11993 GGATTTAGGCCGCAACGACAAATCTGGTACCATG
66 GGATTGAGGCCGCAACGACGAATCAGATACCATG
* * * * *
12027 AAGATATGAACGGAAAGGTTGAGACCGTAA-TAGCAAACCCGATACCTTAGAAGATGTGATGGGA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGA-CGAACCCGATACCTTAGAAGATGTGATGGGA
* *
12091 AGGATTGAGGTCGCAATGACGAATCCA-ATACCATG
65 AGGATTGAGGCCGCAACGACGAAT-CAGATACCATG
* * * ** * *
12126 AAGATATGAATGGATAGGTTGAGGCTGCAACGGTGAACCTTG-TACCTTAGAAGATGTGATGGAA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACC-CGATACCTTAGAAGATGTGATGGGA
*
12190 AGGATTGAGGCCGCAACGGCGAATCAGATACCATG
65 AGGATTGAGGCCGCAACGACGAATCAGATACCATG
* *
12225 AAGATATGAAGGGAAAGGTTGAGGCTGTAACGACGA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGA
12261 GACTTGTAAG
Statistics
Matches: 283, Mismatches: 45, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
98 3 0.01
99 278 0.98
100 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (99 bp):
AAGATATGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTAGAAGATGTGATGGGAA
GGATTGAGGCCGCAACGACGAATCAGATACCATG
Found at i:12401 original size:351 final size:345
Alignment explanation
Indices: 11729--12605 Score: 1040
Period size: 351 Copynumber: 2.5 Consensus size: 345
11719 GTGAACCTTG
* * ***
11729 TACCTTAAAAGATGTGATGGGAAGGATTGAGGTCACAACGGCGAATCTGGTACCATGAAGATATG
1 TACCTTAGAAGATGTGATGGGAAGGATTGAGGTCGCAACGGCGAATCCAATACCATGAAGATATG
* * * * *
11794 AAGGGAAAGGTTAAGGCTGCAATGGCGAACCTTGTA----AG-ATATG-G-TGGGAAAGG-TTGA
66 AATGGATAGGTTGAGGCTGCAACGGCGAACCTTGTACCTTAGAAAATGTGAT-GGAAAGGATTGA
* ** * * * * *
11851 GGCCACAACGACGAACTCGATACGTTAGAAGATGTGATGGG-AAGGATTTAGGCTGTAATGGTGA
130 GGCCACAACGGCGAA-TCGATACCAT-GAAGATATGAAGGGAAAGG-TTGAGGCTGTAACGGAGA
* *
11915 ATCTGATACCATGAAGATATGAAGGGAAAGGTTGAGACCACAACAACGAACCCGATACCTTAAAA
192 ATCTGATAACATGAAGATATGAAGGGAAAGGTTAAGACCACAACAACGAACCCGATACCTTAAAA
* *
11980 GATGTGATGGGAAGGATTTAGGCCGCAACGACAAATCTGGTACCATGAAGATATGAACGGAAAGG
257 GATGTGATGGGAAGGATTTAGGCCGCAACGACAAATCCGATACCATGAAGATATGAACGGAAAGG
* *
12045 TTGAGACCGTAATAGCAAACCCGA
322 TTGAGACCGGAACAGCAAACCCGA
* *
12069 TACCTTAGAAGATGTGATGGGAAGGATTGAGGTCGCAATGACGAATCCAATACCATGAAGATATG
1 TACCTTAGAAGATGTGATGGGAAGGATTGAGGTCGCAACGGCGAATCCAATACCATGAAGATATG
* *
12134 AATGGATAGGTTGAGGCTGCAACGGTGAACCTTGTACCTTAGAAGATGTGATGGAAAGGATTGAG
66 AATGGATAGGTTGAGGCTGCAACGGCGAACCTTGTACCTTAGAAAATGTGATGGAAAGGATTGAG
* *
12199 GCCGCAACGGCGAATCAGATACCATGAAGATATGAAGGGAAAGGTTGAGGCTGTAACGACGAGAC
131 GCCACAACGGCGAATC-GATACCATGAAGATATGAAGGGAAAGGTTGAGGCTGTAACG--GAGAA
* * * * * * * *
12264 T-TG-TAAGATATGATAGGAATATGATGGGAAAGGTTAAGGCCGCAACGACGTACCTGATATCTT
193 TCTGAT-A-ACATGA-A-G-ATATGAAGGGAAAGGTTAAGACCACAACAACGAACCCGATACCTT
* * *
12327 AGAAGATGTGATGGGAAGGATTTAGGCCGTAACGACAAATCCGATACCATGAAGATATGAAGGGA
253 AAAAGATGTGATGGGAAGGATTTAGGCCGCAACGACAAATCCGATACCATGAAGATATGAACGGA
*
12392 AAGGTTGAGACCGGAACAGCGAACCCGA
318 AAGGTTGAGACCGGAACAGCAAACCCGA
* * *
12420 TACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAACGGCGAATCCAATACCATGATGATATG
1 TACCTTAGAAGATGTGATGGGAAGGATTGAGGTCGCAACGGCGAATCCAATACCATGAAGATATG
* * ** * * * *
12485 AAATGAAT-GGTTGAGGCCGCAACAACGAACCTGGCACCTTAAAAAATGTGATGGGAAGGATTGA
66 -AATGGATAGGTTGAGGCTGCAACGGCGAACCTTGTACCTTAGAAAATGTGATGGAAAGGATTGA
* * *
12549 GGCCACAACGGTGAATCCGATACCATGAAGATATAAAGGAAAAGGTTGAGGCTGTAA
130 GGCCACAACGGCGAAT-CGATACCATGAAGATATGAAGGGAAAGGTTGAGGCTGTAA
12606 TGGCGAACTC
Statistics
Matches: 458, Mismatches: 60, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
340 89 0.19
344 2 0.00
345 4 0.01
346 35 0.08
347 31 0.07
348 8 0.02
349 1 0.00
350 1 0.00
351 280 0.61
352 7 0.02
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (345 bp):
TACCTTAGAAGATGTGATGGGAAGGATTGAGGTCGCAACGGCGAATCCAATACCATGAAGATATG
AATGGATAGGTTGAGGCTGCAACGGCGAACCTTGTACCTTAGAAAATGTGATGGAAAGGATTGAG
GCCACAACGGCGAATCGATACCATGAAGATATGAAGGGAAAGGTTGAGGCTGTAACGGAGAATCT
GATAACATGAAGATATGAAGGGAAAGGTTAAGACCACAACAACGAACCCGATACCTTAAAAGATG
TGATGGGAAGGATTTAGGCCGCAACGACAAATCCGATACCATGAAGATATGAACGGAAAGGTTGA
GACCGGAACAGCAAACCCGA
Found at i:12427 original size:99 final size:99
Alignment explanation
Indices: 12282--12726 Score: 500
Period size: 99 Copynumber: 4.5 Consensus size: 99
12272 TATGATAGGA
* * * *
12282 ATATGATGGGAAAGGTTAAGGCCGCAAC-GACGTACCTGATATCTTAGAAGATGTGATGGGAAGG
1 ATATGAAGGGAAAGGTTGAGGCCGCAACAG-CGAACCTGATACCTTAGAAGATGTGATGGGAAGG
* *
12346 ATTTAGGCCGTAACGACAAATCCGATACCATGAAG
65 ATTGAGGCCGTAACGACGAATCCGATACCATGAAG
* * *
12381 ATATGAAGGGAAAGGTTGAGACCGGAACAGCGAACCCGATACCTTAGAAGATGTGATGGGAAGGA
1 ATATGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCTGATACCTTAGAAGATGTGATGGGAAGGA
* * *
12446 TTGAGGCCGTAACGGCGAATCCAATACCATGATG
66 TTGAGGCCGTAACGACGAATCCGATACCATGAAG
** * * ** * *
12480 ATATGAAATGAATGGTTGAGGCCGCAACAACGAACCTGGCACCTTAAAAAATGTGATGGGAAGGA
1 ATATGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCTGATACCTTAGAAGATGTGATGGGAAGGA
** **
12545 TTGAGGCCACAACGGTGAATCCGATACCATGAAG
66 TTGAGGCCGTAACGACGAATCCGATACCATGAAG
* * * * ** * *
12579 ATATAAAGGAAAAGGTTGAGGCTGTAATGGCGAA-CTCGGTACCTTAGAAGATGTGATGGGAAAG
1 ATATGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCT-GATACCTTAGAAGATGTGATGGGAAGG
** *
12643 ATTGAGGCCGTGTC-AGCGAATCTGATACCATGAAG
65 ATTGAGGCCGTAACGA-CGAATCCGATACCATGAAG
* **
12678 ATATGAAGGGAAAGGTTGAGGCCGCAACGGTAAACCTGATACCTTAGAA
1 ATATGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCTGATACCTTAGAA
12727 AGATTGAAGA
Statistics
Matches: 285, Mismatches: 57, Indels: 8
0.81 0.16 0.02
Matches are distributed among these distances:
98 2 0.01
99 280 0.98
100 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (99 bp):
ATATGAAGGGAAAGGTTGAGGCCGCAACAGCGAACCTGATACCTTAGAAGATGTGATGGGAAGGA
TTGAGGCCGTAACGACGAATCCGATACCATGAAG
Found at i:12536 original size:450 final size:439
Alignment explanation
Indices: 11632--12706 Score: 1325
Period size: 450 Copynumber: 2.4 Consensus size: 439
11622 GAAGCTGATG
** * * *
11632 CCTTAGAAGATGTGATGGGAAATATTGTGGTCACAATGACTAATCCAATACCATAAAGATATGAA
1 CCTTAGAAGATGTGATGGGAAGGATTGAGGTCACAATGACGAATCCAATACCATGAAGATATGAA
* * * * * *
11697 GGGAAATGTTGAGGTTGAAACGGTGAACCTTGTACCTTAAAAGATGTGATGGGAAGGATTGAGGT
66 AGGAAAGGTTGAGGCTGAAACGGTGAACCTTGTACCTTAGAAGATGTGATGGAAAGGATTGAGGC
* * * * *
11762 CACAACGGCGAATCTGGTACCATGAAGATATGAAGGGAAAGGTTAAGGCTGCAATGGCGAACCTT
131 CGCAACGGCGAATCTGATACCATGAAGATATGAAGGGAAAGGTTGAGGCTGCAACGACGAACCTT
*
11827 GTAAGATATGGTGGGAAAGGTTGAGGCCACAACGACGAACTCGATACGTTAGAAGATGTGATGGG
196 GTAAGATATGGTGGGAAAGGTTAAGGCCACAACGACGAACTCGATACGTTAGAAGATGTGATGGG
* * *** *
11892 AAGGATTTAGGCTGTAATGGTGAATCTGATACCATGAAGATATGAAGGGAAAGGTTGAGACCACA
261 AAGGATTTAGGCCGTAACGACAAATCCGATACCATGAAGATATGAAGGGAAAGGTTGAGACCACA
* ***
11957 ACAACGAACCCGATACCTTAAAAGATGTGATGGGAAGGATTTAGGCCGCAACGACAAATCTGGTA
326 ACAACGAACCCGATACCTTAAAAGATGTGATGGGAAGGATTGAGGCCGCAACGACAAATCCAATA
* * * * *
12022 CCATGAAGATATGAACGGAAAGGTTGAGACCGTAATAGCAAACCCGATA
391 CCATGAAGATATGAAAGGAAAGGTTGAGACCGCAACAACAAACCCGACA
*
12071 CCTTAGAAGATGTGATGGGAAGGATTGAGGTCGCAATGACGAATCCAATACCATGAAGATATGAA
1 CCTTAGAAGATGTGATGGGAAGGATTGAGGTCACAATGACGAATCCAATACCATGAAGATATGAA
* * *
12136 TGGATAGGTTGAGGCTGCAACGGTGAACCTTGTACCTTAGAAGATGTGATGGAAAGGATTGAGGC
66 AGGAAAGGTTGAGGCTGAAACGGTGAACCTTGTACCTTAGAAGATGTGATGGAAAGGATTGAGGC
* *
12201 CGCAACGGCGAATCAGATACCATGAAGATATGAAGGGAAAGGTTGAGGCTGTAACGACGAGA-CT
131 CGCAACGGCGAATCTGATACCATGAAGATATGAAGGGAAAGGTTGAGGCTGCAACGACGA-ACCT
* *
12265 TGTAAGATATGATAGGAATATGATGGGAAAGGTTAAGGCCGCAACGACGTAC-CTGATATC-TTA
195 TGTAAG--AT-AT--G-----G-TGGGAAAGGTTAAGGCCACAACGACGAACTC-GATA-CGTTA
12328 GAAGATGTGATGGGAAGGATTTAGGCCGTAACGACAAATCCGATACCATGAAGATATGAAGGGAA
247 GAAGATGTGATGGGAAGGATTTAGGCCGTAACGACAAATCCGATACCATGAAGATATGAAGGGAA
** * * *
12393 AGGTTGAGACCGGAACAGCGAACCCGATACCTTAGAAGATGTGATGGGAAGGATTGAGGCCGTAA
312 AGGTTGAGACCACAACAACGAACCCGATACCTTAAAAGATGTGATGGGAAGGATTGAGGCCGCAA
* * * * * * * * *
12458 CGGCGAATCCAATACCATGATGATATGAAATGAATGGTTGAGGCCGCAACAACGAACCTGGCA
377 CGACAAATCCAATACCATGAAGATATGAAAGGAAAGGTTGAGACCGCAACAACAAACCCGACA
* * * * ** *
12521 CCTTAAAAAATGTGATGGGAAGGATTGAGGCCACAACGGTGAATCCGATACCATGAAGATAT-AA
1 CCTTAGAAGATGTGATGGGAAGGATTGAGGTCACAATGACGAATCCAATACCATGAAGATATGAA
* * * *
12585 AGGAAAAGGTTGAGGCTGTAATGGCGAA-CTCGGTACCTTAGAAGATGTGATGGGAAA-GATTGA
66 AGG-AAAGGTTGAGGCTGAAACGGTGAACCT-TGTACCTTAGAAGATGTGAT-GGAAAGGATTGA
*** * *
12648 GGCCGTGTCAGCGAATCTGATACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAACG
128 GGCCGCAACGGCGAATCTGATACCATGAAGATATGAAGGGAAAGGTTGAGGCTGCAACG
12707 GTAAACCTGA
Statistics
Matches: 545, Mismatches: 74, Indels: 23
0.85 0.12 0.04
Matches are distributed among these distances:
439 177 0.32
440 1 0.00
441 2 0.00
442 2 0.00
444 1 0.00
449 8 0.01
450 348 0.64
451 6 0.01
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.21
Consensus pattern (439 bp):
CCTTAGAAGATGTGATGGGAAGGATTGAGGTCACAATGACGAATCCAATACCATGAAGATATGAA
AGGAAAGGTTGAGGCTGAAACGGTGAACCTTGTACCTTAGAAGATGTGATGGAAAGGATTGAGGC
CGCAACGGCGAATCTGATACCATGAAGATATGAAGGGAAAGGTTGAGGCTGCAACGACGAACCTT
GTAAGATATGGTGGGAAAGGTTAAGGCCACAACGACGAACTCGATACGTTAGAAGATGTGATGGG
AAGGATTTAGGCCGTAACGACAAATCCGATACCATGAAGATATGAAGGGAAAGGTTGAGACCACA
ACAACGAACCCGATACCTTAAAAGATGTGATGGGAAGGATTGAGGCCGCAACGACAAATCCAATA
CCATGAAGATATGAAAGGAAAGGTTGAGACCGCAACAACAAACCCGACA
Found at i:12662 original size:50 final size:49
Alignment explanation
Indices: 12561--12701 Score: 135
Period size: 49 Copynumber: 2.9 Consensus size: 49
12551 CCACAACGGT
* * * * *
12561 GAATCCGATACCATGAAGATATAAAGGAAAAGGTTGAGG-C-TGTAATGGC
1 GAATCTGATACCATGAAGATATGAAGGGAAAGATTGAGGCCGTGTCA--GC
* * * *
12610 GAA-CTCGGTACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGTGTCAGC
1 GAATCT-GATACCAT-GAAGATATGAAGGGAAAGATTGAGGCCGTGTCAGC
*
12660 GAATCTGATACCATGAAGATATGAAGGGAAAGGTTGAGGCCG
1 GAATCTGATACCATGAAGATATGAAGGGAAAGATTGAGGCCG
12702 CAACGGTAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 10
0.75 0.14 0.10
Matches are distributed among these distances:
48 1 0.01
49 34 0.47
50 31 0.42
51 3 0.04
52 4 0.05
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (49 bp):
GAATCTGATACCATGAAGATATGAAGGGAAAGATTGAGGCCGTGTCAGC
Found at i:13139 original size:85 final size:85
Alignment explanation
Indices: 12996--13155 Score: 214
Period size: 85 Copynumber: 1.9 Consensus size: 85
12986 CATCTTTTTT
* * *** *
12996 ATGAGATTTAGAGAAGTTGGTCAAAGCAATAAAGTGGTCATCTTCTTGATGAGATACAGAGAAGT
1 ATGAGATATAGAGAAGTTGGTCAAAGCAATAAAGCGGTCATCTTCCAAATGAGATACAGAAAAGT
*
13061 GGACCAAATCCTCCTTCTTG
66 AGACCAAATCCTCCTTCTTG
* * *
13081 ATGAGATATAGAGAAG-TGGATTAAATCAATGAAGCGGTCATCTTCCAAATGAGATACAGAAAAG
1 ATGAGATATAGAGAAGTTGG-TCAAAGCAATAAAGCGGTCATCTTCCAAATGAGATACAGAAAAG
13145 TAGACCAAATC
65 TAGACCAAATC
13156 AATGAAGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
84 3 0.05
85 61 0.95
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (85 bp):
ATGAGATATAGAGAAGTTGGTCAAAGCAATAAAGCGGTCATCTTCCAAATGAGATACAGAAAAGT
AGACCAAATCCTCCTTCTTG
Found at i:13259 original size:209 final size:209
Alignment explanation
Indices: 12895--13902 Score: 1186
Period size: 209 Copynumber: 4.8 Consensus size: 209
12885 TGAAACGTCA
* * * * * ** * *
12895 AAAT-AATGAAGCAGTCACCTTCTTAATGAGATACAGAGAAGTGGATTAGATCAATAAAGCAAAG
1 AAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAG
* ** * * ** *
12959 CCCAATGTGGGCAAAACTTCAAACCCCCATCTTTTTTATGAGATTTAGAGAAGTTGGTCAAAGCA
66 CCCAATGTGAGTGAAACTTCAAACCCCCATCTTTCTGATGAGATACAGAGAAGTGGGTCAAAGCA
* * * *
13024 ATAAAGTGGTCATCTTCTTGATGAGATACAGAGAAGTGGACCAAA-TCCTCCTTCTTGATGAGAT
131 ATAAAGAGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCCT-CTTCCTGATGAGAT
*
13088 ATAGAGAAGTGGATT
195 ACAGAGAAGTGGATT
** *
13103 AAATCAATGAAGCGGTCATCTTCCAAATGAGATACAGAAAAGTAGACCAAATCAATGAAGCAAAG
1 AAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAG
* ** * **
13168 TCCAATGTGAGCAAAACTTCAAACCCCCATCTTTCTGATGAGATACAAAGAAGTGGGTCAAATTA
66 CCCAATGTGAGTGAAACTTCAAACCCCCATCTTTCTGATGAGATACAGAGAAGTGGGTCAAAGCA
* * * * * * *
13233 ATAAAGCGGTTATATTCTTGATGAGATACAGAGAAGTGGAACAAATTCGTCTTCCTGATGAGATA
131 ATAAAGAGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCCTCTTCCTGATGAGATA
*
13298 CAAAGAAGTGGATT
196 CAGAGAAGTGGATT
* * * * * *
13312 AAATCAATGAAGCGGTCATCGTCCTGATGAGATATAGAGAAGTAGGCCGAATAAATGAAGCGAA-
1 AAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAG
* * *
13376 CCTCAATATGAGTGAAACTTCAAACCCCCATC-TTCTTGACGAGATATAGAGAAGTGGGTCAAAG
66 CC-CAATGTGAGTGAAACTTCAAACCCCCATCTTTC-TGATGAGATACAGAGAAGTGGGTCAAAG
* *
13440 CAATAAAGAGGT-ATCTTCCTGATAAGATACA-AGGATGTAGACCAAA-TCCGTCTTCCTGATGA
129 CAATAAAGAGGTCATCTTCCTGATGAGATACAGA-GAAGTAGACCAAATTCC-TCTTCCTGATGA
*
13502 GATACAGAGAAGTAGATT
192 GATACAGAGAAGTGGATT
* * * * * * *
13520 AAATCAGTGAGGCGATCATCTTCTTGATGAGATACAGAGAAGTAGACTAAATTAATGAAGTAAAG
1 AAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAG
* * * * * *
13585 CTCAACGTGAGTGAAACTTCAAACACCCATCTTCCTGATGAGATACAGAGAAGTGGGCCAAAGAA
66 CCCAATGTGAGTGAAACTTCAAACCCCCATCTTTCTGATGAGATACAGAGAAGTGGGTCAAAGCA
* *
13650 ATAAAGAGGTCATTTTCCTGATGAGATACAGAGAAGTAGACCAAATTCGTCTTCCTGATGAGATA
131 ATAAAGAGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCCTCTTCCTGATGAGATA
*
13715 CAGAGAAGTGGATCA
196 CAGAGAAGTGGAT-T
* * * *
13730 AAAT-AATGAAGCGATCATCTTCCTGATGAGATATAGAGAAGTAGAACAAATCAATGAAGCGAAG
1 AAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAG
** * * * * *
13794 TTCAATGCGAGTGAAACTTAAAACCCCTATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCA
66 CCCAATGTGAGTGAAACTTCAAACCCCCATCTTTCTGATGAGATACAGAGAAGTGGGTCAAAGCA
* *
13859 ATAAAGCGGTCATCTTCCTGATGAGATACAGAGAGGTAGACCAA
131 ATAAAGAGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAA
13903 GAGATGAAGC
Statistics
Matches: 684, Mismatches: 104, Indels: 23
0.84 0.13 0.03
Matches are distributed among these distances:
207 3 0.00
208 176 0.26
209 495 0.72
210 10 0.01
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (209 bp):
AAATCAATGAAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAATGAAGCAAAG
CCCAATGTGAGTGAAACTTCAAACCCCCATCTTTCTGATGAGATACAGAGAAGTGGGTCAAAGCA
ATAAAGAGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAATTCCTCTTCCTGATGAGATA
CAGAGAAGTGGATT
Found at i:13345 original size:85 final size:85
Alignment explanation
Indices: 13197--13354 Score: 226
Period size: 85 Copynumber: 1.9 Consensus size: 85
13187 CAAACCCCCA
* * * * * *
13197 TCTTTCTGATGAGATACAAAGAAGTGGGTCAAATTAATAAAGCGGTTATATTCTTGATGAGATAC
1 TCTTCCTGATGAGATACAAAGAAGTGGATCAAATCAATAAAGCGGTCATAGTCCTGATGAGATAC
13262 AGAGAAGTGGAACAAATTCG
66 AGAGAAGTGGAACAAATTCG
* * * *
13282 TCTTCCTGATGAGATACAAAGAAGTGGATTAAATCAATGAAGCGGTCATCGTCCTGATGAGATAT
1 TCTTCCTGATGAGATACAAAGAAGTGGATCAAATCAATAAAGCGGTCATAGTCCTGATGAGATAC
13347 AGAGAAGT
66 AGAGAAGT
13355 AGGCCGAATA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAAAGAAGTGGATCAAATCAATAAAGCGGTCATAGTCCTGATGAGATAC
AGAGAAGTGGAACAAATTCG
Found at i:13674 original size:417 final size:418
Alignment explanation
Indices: 12972--13902 Score: 1278
Period size: 417 Copynumber: 2.2 Consensus size: 418
12962 AATGTGGGCA
* * * * *
12972 AAACTTCAAACCCCCATCTTTTTTATGAGATTTAGAGAAGTTGGTCAAAGCAATAAAGTGGTCAT
1 AAACTTCAAACCCCCATCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCAT
* * * * *
13037 CTTCTTGATGAGATACAGAGAAGTGGACCAAATCCTCCTTCTTGATGAGATATAGAGAAGTGGAT
66 CTTCCTGATGAGATACAGAGAAGTAGACCAAATCCTCCTTCCTGATGAGATACAGAGAAGTAGAT
*
13102 TAAATCAATGAAGCGGTCATCTTCCAAATGAGATACAGAAAAGTAGACCAAATCAATGAAGCAAA
131 TAAATCAATGAAGCGATCATCTTCCAAATGAGATACAGAAAAGTAGACCAAATCAATGAAGCAAA
* * * * **
13167 GTCCAATGTGAGCAAAACTTCAAACCCCCATCTTTCTGATGAGATACAAAGAAGTGGGTCAAATT
196 GTCCAACGTGAGCAAAACTTCAAACACCCATCTTCCTGATGAGATACAAAGAAGTGGGCCAAAGA
* * * *
13232 AATAAAGCGGTTATATTCTTGATGAGATACAGAGAAGTGGAACAAATTCGTCTTCCTGATGAGAT
261 AATAAAGAGGTCATATTCCTGATGAGATACAGAGAAGTAGAACAAATTCGTCTTCCTGATGAGAT
* * ** *
13297 ACAAAGAAGTGGAT-TAAATCAATGAAGCGGTCATCGTCCTGATGAGATATAGAGAAGTAGGCCG
326 ACAAAGAAGTGGATCAAAAT-AATGAAGCGATCATCGTCCTGATGAGATATAGAGAAGTAGAACA
*
13361 AATAAATGAAGCGAACCTCAATATGAGTG
390 AATAAATGAAGCGAACCTCAATACGAGTG
*
13390 AAACTTCAAACCCCCATCTTCTTGACGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGT-AT
1 AAACTTCAAACCCCCATCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCAT
* *
13454 CTTCCTGATAAGATACA-AGGATGTAGACCAAATCCGT-CTTCCTGATGAGATACAGAGAAGTAG
66 CTTCCTGATGAGATACAGA-GAAGTAGACCAAATCC-TCCTTCCTGATGAGATACAGAGAAGTAG
* * *** * * * *
13517 ATTAAATCAGTGAGGCGATCATCTTCTTGATGAGATACAGAGAAGTAGACTAAATTAATGAAGTA
129 ATTAAATCAATGAAGCGATCATCTTCCAAATGAGATACAGAAAAGTAGACCAAATCAATGAAGCA
** *
13582 AAG-CTCAACGTGAGTGAAACTTCAAACACCCATCTTCCTGATGAGATACAGAGAAGTGGGCCAA
194 AAGTC-CAACGTGAGCAAAACTTCAAACACCCATCTTCCTGATGAGATACAAAGAAGTGGGCCAA
* *
13646 AGAAATAAAGAGGTCATTTTCCTGATGAGATACAGAGAAGTAGACCAAATTCGTCTTCCTGATGA
258 AGAAATAAAGAGGTCATATTCCTGATGAGATACAGAGAAGTAGAACAAATTCGTCTTCCTGATGA
* *
13711 GATACAGAGAAGTGGATCAAAATAATGAAGCGATCATCTTCCTGATGAGATATAGAGAAGTAGAA
323 GATACAAAGAAGTGGATCAAAATAATGAAGCGATCATCGTCCTGATGAGATATAGAGAAGTAGAA
* ** *
13776 CAAATCAATGAAGCGAAGTTCAATGCGAGTG
388 CAAATAAATGAAGCGAACCTCAATACGAGTG
* * * * * *
13807 AAACTTAAAACCCCTATCTTCCTGATGAGATACAGAGAAGTGGGTCGAAGCAATAAAGCGGTCAT
1 AAACTTCAAACCCCCATCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCAT
*
13872 CTTCCTGATGAGATACAGAGAGGTAGACCAA
66 CTTCCTGATGAGATACAGAGAAGTAGACCAA
13903 GAGATGAAGC
Statistics
Matches: 448, Mismatches: 59, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
416 2 0.00
417 355 0.79
418 90 0.20
419 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.24
Consensus pattern (418 bp):
AAACTTCAAACCCCCATCTTCTTGATGAGATATAGAGAAGTGGGTCAAAGCAATAAAGAGGTCAT
CTTCCTGATGAGATACAGAGAAGTAGACCAAATCCTCCTTCCTGATGAGATACAGAGAAGTAGAT
TAAATCAATGAAGCGATCATCTTCCAAATGAGATACAGAAAAGTAGACCAAATCAATGAAGCAAA
GTCCAACGTGAGCAAAACTTCAAACACCCATCTTCCTGATGAGATACAAAGAAGTGGGCCAAAGA
AATAAAGAGGTCATATTCCTGATGAGATACAGAGAAGTAGAACAAATTCGTCTTCCTGATGAGAT
ACAAAGAAGTGGATCAAAATAATGAAGCGATCATCGTCCTGATGAGATATAGAGAAGTAGAACAA
ATAAATGAAGCGAACCTCAATACGAGTG
Found at i:13757 original size:85 final size:85
Alignment explanation
Indices: 13614--13780 Score: 246
Period size: 85 Copynumber: 2.0 Consensus size: 85
13604 CAAACACCCA
* * *
13614 TCTTCCTGATGAGATACAGAGAAGTGGGCCAAAGAAATAAAGAGGTCATTTTCCTGATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGTGGACCAAAGAAATAAAGAGATCATCTTCCTGATGAGATAC
*
13679 AGAGAAGTAGACCAAATTCG
66 AGAGAAGTAGAACAAATTCG
* * *
13699 TCTTCCTGATGAGATACAGAGAAGTGGATCAAA-ATAATGAAGCGATCATCTTCCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGGACCAAAGA-AATAAAGAGATCATCTTCCTGATGAGATA
*
13763 TAGAGAAGTAGAACAAAT
65 CAGAGAAGTAGAACAAAT
13781 CAATGAAGCG
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 1 0.01
85 72 0.99
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (85 bp):
TCTTCCTGATGAGATACAGAGAAGTGGACCAAAGAAATAAAGAGATCATCTTCCTGATGAGATAC
AGAGAAGTAGAACAAATTCG
Found at i:13770 original size:48 final size:48
Alignment explanation
Indices: 13699--13791 Score: 143
Period size: 48 Copynumber: 1.9 Consensus size: 48
13689 ACCAAATTCG
* *
13699 TCTTCCTGATGAGATACAGAGAAGTGGATCAAAAT-AATGAAGCGATCA
1 TCTTCCTGATGAGATACAGAGAAGTAGAAC-AAATCAATGAAGCGATCA
*
13747 TCTTCCTGATGAGATATAGAGAAGTAGAACAAATCAATGAAGCGA
1 TCTTCCTGATGAGATACAGAGAAGTAGAACAAATCAATGAAGCGA
13792 AGTTCAATGC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 4 0.10
48 37 0.90
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (48 bp):
TCTTCCTGATGAGATACAGAGAAGTAGAACAAATCAATGAAGCGATCA
Found at i:15575 original size:30 final size:28
Alignment explanation
Indices: 15541--15678 Score: 125
Period size: 30 Copynumber: 4.7 Consensus size: 28
15531 CCCTTTAACT
* *
15541 TTCCAAAAATTTAAATTTGACCCTCAAAAC
1 TTCCAAAAATTTAGATTTGACCC-C-GAAC
*
15571 TTCC-AAAATTTAGATTTGACCCCCGAGC
1 TTCCAAAAATTTAGATTTGA-CCCCGAAC
* *
15599 TTCCCAAAATTTTAGATTTGACCCTCGAAT
1 TT-CCAAAAATTTAGATTTGACCC-CGAAC
* *
15629 TTCTCAAAAAATTGGATTTGACCCCTGAAC
1 TTC-CAAAAATTTAGATTTGACCCC-GAAC
*
15659 TTCCCAAAAATTTAAATTTG
1 TT-CCAAAAATTTAGATTTG
15679 GTCGCCAAAC
Statistics
Matches: 88, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
28 4 0.05
29 22 0.25
30 61 0.69
31 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (28 bp):
TTCCAAAAATTTAGATTTGACCCCGAAC
Found at i:15582 original size:29 final size:29
Alignment explanation
Indices: 15541--15624 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 29
15531 CCCTTTAACT
*
15541 TTCCAAAAATTTAAATTTGACCCTCAAAAC
1 TTCC-AAAATTTAGATTTGACCCTCAAAAC
** *
15571 TTCCAAAATTTAGATTTGACCC-CCGAGC
1 TTCCAAAATTTAGATTTGACCCTCAAAAC
15599 TTCCCAAAATTTTAGATTTGACCCTC
1 TT-CCAAAA-TTTAGATTTGACCCTC
15625 GAATTTCTCA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 5 0.11
29 23 0.49
30 18 0.38
31 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.32
Consensus pattern (29 bp):
TTCCAAAATTTAGATTTGACCCTCAAAAC
Found at i:15666 original size:60 final size:59
Alignment explanation
Indices: 15537--15678 Score: 178
Period size: 60 Copynumber: 2.4 Consensus size: 59
15527 TTGTCCCTTT
* *
15537 AACTTTCCAAAAATTTAAATTTGACCCTCAAAACTTCCAAAATTTAGATTTGACCCCCG
1 AACTTCCCAAAAATTTAAATTTGACCCTCAAAACTTCCAAAAATTAGATTTGACCCCCG
* * * * * * *
15596 AGCTTCCCAAAATTTTAGATTTGACCCTC-GAATTTCTCAAAAAATTGGATTTGACCCCTG
1 AACTTCCCAAAAATTTAAATTTGACCCTCAAAACTTC-C-AAAAATTAGATTTGACCCCCG
15656 AACTTCCCAAAAATTTAAATTTG
1 AACTTCCCAAAAATTTAAATTTG
15679 GTCGCCAAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
58 5 0.07
59 26 0.38
60 38 0.55
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.32
Consensus pattern (59 bp):
AACTTCCCAAAAATTTAAATTTGACCCTCAAAACTTCCAAAAATTAGATTTGACCCCCG
Found at i:18995 original size:12 final size:12
Alignment explanation
Indices: 18961--18999 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
18951 TGCCTCGACA
18961 TCTTTTCCTTCC
1 TCTTTTCCTTCC
*
18973 T-TTGTTTCTTCC
1 TCTT-TTCCTTCC
18985 TCTTTTCCTTCC
1 TCTTTTCCTTCC
18997 TCT
1 TCT
19000 GTCTCCACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.00, C:0.36, G:0.03, T:0.62
Consensus pattern (12 bp):
TCTTTTCCTTCC
Done.