Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010944.1 Kokia drynarioides strain JFW-HI SEQ_125912, 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: 113454
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Warning! 158 characters in sequence are not A, C, G, or T
Found at i:288 original size:15 final size:15
Alignment explanation
Indices: 270--314 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
260 AAAGAGAGAG
*
270 AGAAAAAGAAAGGAA
1 AGAAAAAGAAAAGAA
285 AGAAAAAGAAAAGAA
1 AGAAAAAGAAAAGAA
300 A-AAAAA-AAGAAGAA
1 AGAAAAAGAA-AAGAA
314 A
1 A
315 AAGGAAAGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAAAGAA
Found at i:302 original size:26 final size:25
Alignment explanation
Indices: 270--322 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
260 AAAGAGAGAG
* *
270 AGAAAAAGAAAGGAAAGAAAAAGAAA
1 AGAAAAAAAAAAG-AAGAAAAAGAAA
*
296 AGAAAAAAAAAAGAAGAAAAAGGAA
1 AGAAAAAAAAAAGAAGAAAAAGAAA
321 AG
1 AG
323 GGCGAGGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (25 bp):
AGAAAAAAAAAAGAAGAAAAAGAAA
Found at i:1405 original size:98 final size:98
Alignment explanation
Indices: 1235--3001 Score: 1515
Period size: 98 Copynumber: 18.1 Consensus size: 98
1225 TCTACAGGTT
* * *
1235 TGAAGGGAAAGATTGAAGCCGCAACGGA-AAATC-TGATACCCTAGAGATATGGAGGGAAAGGTT
1 TGAAGGGAAAGATTGAAGCCGCAAC-GACGAATCTTG-TACCATGGAGATATGGAGGGAAAGGTT
* * * *
1298 GACGCCGCAACGACAAACCTTGTACCTTAGAGACG
64 GAAGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* ** * **
1333 TGAAGGGAAAGATTGAAGCCGCAACGACAAATCTAATACCCTAAAGATATGGAGGGAAAGGTTGA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
* * *
1398 AGTCGCAACGGCAAACCTTGTACCTTAGAGACG
66 AGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* *** ** * * *
1431 TGAAGGGAAAGATTGAAGCCGCAAAGGTAAATCTAATATCATAGAGATATGGAGGGAAATGTTGA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
* *** *
1496 AGCTGCAACGATAAACCTTGTACCTTAGAGACG
66 AGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* * * * * * *
1529 TGATGAGAAAGATTGAAACCGCAACGGCGAATCTTGTACCATGGAGATATGAAGGGAAAGATTAA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
* * * * *
1594 AGTCGTAATGGCGAACCTTATACCTTAGAGACG
66 AGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* * * * ** * * * *
1627 TGATGAGAAATATTGAAGTCGCAACGGTGAATATTGTACCATTGAGATGTGGAGGGAAAGGTCGA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
*
1692 AGCCGCAATGGCGAACCTTGTACCTTAGAGATG
66 AGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* * * * * * ** * *
1725 TGATGGGAAAAATTAAAGTCACAACGACAAATCTAATACCCTAGAGATATGGAGGGAAAGGTTGA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
*** **
1790 AGCCGCAACGAAAAACCTTGTACCTTAGAGACA
66 AGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* * ** * * *
1823 TGAAGGGAAAGATTGAAGCTGCAACGACAAATCTAATACCCTAGAGATGTGGAGGGAAAGGTTGA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
* * *
1888 AGCCGCAACAG-TATACCTTGTACCTCAGAGATG
66 AGCCGCAACGGCGA-ACCTTGTACCTTAGAGATG
* * * * *
1921 TGATGGAAAATATTGAAGCCGTAAC-A-GCATATCTTGTACCATGGAGATATGGTGGGAAAGGTT
1 TGAAGGGAAAGATTGAAGCCGCAACGACG-A-ATCTTGTACCATGGAGATATGGAGGGAAAGGTT
* * *
1984 GAAGCCGCAATGGTGAACCTTGTACCTTAGAGATA
64 GAAGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* * * * * *
2019 TGATGAGAAGGACTGAAGCCGCAATGGCGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
* * * *
2084 AGCCGCAATGGCAAACCTTATACCTTAAAGATG
66 AGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* * *
2117 TGATA-GGAAAGATTGAAGCCGCGACGATGAATCTTGTACCATGGAGATATGGAGGGGAAGGTTG
1 TGA-AGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTG
* ** *
2181 AAGTCATAACGGCGAACCTTATACCTTAGAGATG
65 AAGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* * * * * *
2215 TGATGGGAAAGATTGAAGCCGCAACAACAAATCTTGTACCATGGGGATATGGAGGGAAAAGTTAA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
* * **
2280 AGCTGTAACAACGAACCTTGTACCTTTA-AGATG
66 AGCCGCAACGGCGAACCTTGTACC-TTAGAGATG
* * * * * ** * *
2313 TGATA-GGAAAGATTAAAGCCACAATGGA-GAATCTTATACCCTAAAGATGTGGAAGGAAAGGTT
1 TGA-AGGGAAAGATTGAAGCCGCAA-CGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTT
** * *
2376 GAAGCCGCAA---C-AA-C--AAACCTT-GTGACG
64 GAAGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* * * ** * * *
2403 TGAAGGGAAAGATTGTAGTCGCAACGACAAATCTAATACCCTAGAGATATGGAGGTAAAGGTTGA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
** * **
2468 AGTTGTAACGGTAAACCTTGTACCTTAGAGATG
66 AGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* * * * *
2501 TGATGGGAAAGATTAAAGCCACAACGGCGAATCTTGTACCATGGAGATATAGAGGGAAAGGTTGA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
** * * * * **
2566 AGCTACAATGGCGAACCTTTTACCTAATAGACA
66 AGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* * * * * *
2599 TGACGGGAAATATTGAAGCCGCAACGATGAATCTTGTACCATGGAGATATGAAGGGAAATGTTAA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
* * *
2664 AGCCACAATGGTGAACCTTGTACCTTAGAGATG
66 AGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* * * * * * **
2697 TGATGGGAAAGATTAAAGTCGCAATGACGAATTTTGTACCATGGGGATATAAAGGGAAAGGTTGA
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
*
2762 AGCCGCAACGGTGAACCTTGTACCTTAGAGATG
66 AGCCGCAACGGCGAACCTTGTACCTTAGAGATG
* * ** ** *
2795 TGATGGGAAAGATTAAAGTTGCAACGGTGAATCTTGTACTATGTG-GATATGGAGGGAAAGGTTG
1 TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATG-GAGATATGGAGGGAAAGGTTG
*** * * *
2859 AAGCCGTTTCGGTGGACCTCGTACCTT-GAAGATG
65 AAGCCGCAACGGCGAACCTTGTACCTTAG-AGATG
* * * ** * * ** * *
2893 TGATA-AGAAAGATTGAATCCACAACGGTGAATCTTATACCCTAAAGA-AGTAGAGGGAAAAGTT
1 TGA-AGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATA-TGGAGGGAAAGGTT
*
2956 GAAGCCGCAACGGCGAACCTTATACCTTAGAGATG
64 GAAGCCGCAACGGCGAACCTTGTACCTTAGAGATG
2991 TGAAGGGAAAG
1 TGAAGGGAAAG
3002 GTTAAGGCCG
Statistics
Matches: 1361, Mismatches: 277, Indels: 62
0.80 0.16 0.04
Matches are distributed among these distances:
89 3 0.00
90 59 0.04
91 3 0.00
93 1 0.00
94 4 0.00
95 2 0.00
97 13 0.01
98 1267 0.93
99 8 0.01
100 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (98 bp):
TGAAGGGAAAGATTGAAGCCGCAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTGA
AGCCGCAACGGCGAACCTTGTACCTTAGAGATG
Found at i:2819 original size:49 final size:49
Alignment explanation
Indices: 1239--3001 Score: 892
Period size: 49 Copynumber: 36.1 Consensus size: 49
1229 CAGGTTTGAA
** * *
1239 GGGAAAGATTGAAGCCGCAACGGAAAATC-TGATACCCTAGAGATATGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTG-TACCTTAGAGATGT-GAT
* * * * * * *
1288 GGGAAAGGTTGACGCCGCAACGACAAACCTTGTACCTTAGAGACGTGAA
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * ** * * *
1337 GGGAAAGATTGAAGCCGCAACGACAAATCTAATACCCTAAAGATATGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT-GAT
* * * * * *
1386 GGGAAAGGTTGAAGTCGCAACGGCAAACCTTGTACCTTAGAGACGTGAA
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* ** ** * * *
1435 GGGAAAGATTGAAGCCGCAAAGGTAAATCTAATATCATAGAGATATGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT-GAT
* *** * *
1484 GGGAAATG-TTGAAGCTGCAACGATAAACCTTGTACCTTAGAGACGTGAT
1 GGGAAA-GATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * * * * *
1533 GAGAAAGATTGAAACCGCAACGGCGAATCTTGTACCATGGAGATATGAA
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * * * * * *
1582 GGGAAAGATTAAAGTCGTAATGGCGAACCTTATACCTTAGAGACGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * * * *
1631 GAGAAATATTGAAGTCGCAACGGTGAATATTGTACCATT-GAGATGTGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACC-TTAGAGATGT-GAT
* * * *
1680 GGGAAAGGTCGAAGCCGCAATGGCGAACCTTGTACCTTAGAGATGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * * * * * ** * *
1729 GGGAAAAATTAAAGTCACAACGACAAATCTAATACCCTAGAGATATGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT-GAT
* *** * ** *
1778 GGGAAAGGTTGAAGCCGCAACGAAAAACCTTGTACCTTAGAGACATGAA
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * * ** *
1827 GGGAAAGATTGAAGCTGCAACGACAAATCTAATACCCTAGAGATGTGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT-GAT
* * * * *
1876 GGGAAAGGTTGAAGCCGCAACAG-TATACCTTGTACCTCAGAGATGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCGA-ATCTTGTACCTTAGAGATGTGAT
* * * * * * * *
1925 GGAAAATATTGAAGCCGTAACAGC-ATATCTTGTACCATGGAGATATGGT
1 GGGAAAGATTGAAGCCGCAACGGCGA-ATCTTGTACCTTAGAGATGTGAT
* * * * *
1974 GGGAAAGGTTGAAGCCGCAATGGTGAACCTTGTACCTTAGAGATATGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * * * * * *
2023 GAGAAGGACTGAAGCCGCAATGGCGAATCTTGTACCATGGAGATATGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT-GAT
* * * * * *
2072 GGGAAAGGTTGAAGCCGCAATGGCAAACCTTATACCTTAAAGATGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * ** * * *
2121 AGGAAAGATTGAAGCCGCGACGATGAATCTTGTACCATGGAGATATGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT-GAT
* * * ** * *
2170 GGGGAAGGTTGAAGTCATAACGGCGAACCTTATACCTTAGAGATGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
** * * * * *
2219 GGGAAAGATTGAAGCCGCAACAACAAATCTTGTACCATGGGGATATGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT-GAT
* * * ** *
2268 GGGAAA-AGTTAAAGCTGTAACAACGAACCTTGTACCTTTA-AGATGTGAT
1 GGGAAAGA-TTGAAGCCGCAACGGCGAATCTTGTACC-TTAGAGATGTGAT
* * * * * * * *
2317 AGGAAAGATTAAAGCCACAATGGAGAATCTTATACCCTAAAGATGTGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT-GAT
* * ** * * *
2366 AGGAAAGGTTGAAGCCGCAA---C-AA-C--AAACCTT-GTGACGTGAA
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * * * ** * *
2407 GGGAAAGATTGTAGTCGCAACGACAAATCTAATACCCTAGAGATATGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT-GAT
* * ** * ** *
2456 GGTAAAGGTTGAAGTTGTAACGGTAAACCTTGTACCTTAGAGATGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * * * *
2505 GGGAAAGATTAAAGCCACAACGGCGAATCTTGTACCATGGAGATATAGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT-GAT
* ** * * * * * ** *
2554 GGGAAAGGTTGAAGCTACAATGGCGAACCTTTTACCTAATAGACATGAC
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* ** * * * *
2603 GGGAAATATTGAAGCCGCAACGATGAATCTTGTACCATGGAGATATGAA
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * * * *
2652 GGGAAATG-TTAAAGCCACAATGGTGAACCTTGTACCTTAGAGATGTGAT
1 GGGAAA-GATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * * * * * * * * * *
2701 GGGAAAGATTAAAGTCGCAATGACGAATTTTGTACCATGGGGATATAAA
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* * *
2750 GGGAAAGGTTGAAGCCGCAACGGTGAACCTTGTACCTTAGAGATGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
* ** * * * *
2799 GGGAAAGATTAAAGTTGCAACGGTGAATCTTGTACTATGTGGATATG-GA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTAC-CT-TAGAGATGTGAT
* *** * * * *
2848 GGGAAAGGTTGAAGCCGTTTCGGTGGACCTCGTACCTT-GAAGATGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAG-AGATGTGAT
** * * * * * * *
2897 AAGAAAGATTGAATCCACAACGGTGAATCTTATACCCTAAAGAAGTAGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGT-GAT
* * *
2946 GGGAAA-AGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGTGAA
1 GGGAAAGA-TTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
2995 GGGAAAG
1 GGGAAAG
3002 GTTAAGGCCG
Statistics
Matches: 1273, Mismatches: 386, Indels: 109
0.72 0.22 0.06
Matches are distributed among these distances:
40 2 0.00
41 20 0.02
42 5 0.00
44 2 0.00
45 4 0.00
46 2 0.00
47 5 0.00
48 41 0.03
49 1151 0.90
50 35 0.03
51 6 0.00
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.21
Consensus pattern (49 bp):
GGGAAAGATTGAAGCCGCAACGGCGAATCTTGTACCTTAGAGATGTGAT
Found at i:3349 original size:38 final size:36
Alignment explanation
Indices: 3295--3584 Score: 152
Period size: 38 Copynumber: 7.5 Consensus size: 36
3285 GAGAAGCTAC
**
3295 CATCCAATCTCATACCCAGATCATAGGACAGATTGAAG
1 CATCCAATCTTTTACCCA-ATCATAGG-CAGATTGAAG
* * * *
3333 CATCCAATTTTTTACCCTAATTAAAGGGCAGATTAAAG
1 CATCCAATCTTTTACCC-AATCATA-GGCAGATTGAAG
*
3371 -ATACACCAATCTCTTACCCCAATCATGAGGCAGATTGAAG
1 CAT---CCAATCTTTTA-CCCAATCAT-AGGCAGATTGAAG
* * *
3411 CATACAATCTTTTACCCTAATCAAAGGGCATATTGAAG
1 CATCCAATCTTTTACCC-AATCATA-GGCAGATTGAAG
** * *
3449 ACA-CACTAATCTCTTCCCCCAATCATAGGGTAAATTGAAG
1 -CATC-C-AATCT-TTTACCCAATCATA-GGCAGATTGAAG
* * *
3489 CATCCGATCTTTTACCCTAATCAGAGAGTAGATTGAAG
1 CATCCAATCTTTTACCC-AATCATAG-GCAGATTGAAG
* * * * *
3527 ACACACCAATCTCTTACCCCGACCATAGGGCTGATTGAAG
1 -CA-TCCAATCTTTTA-CCCAATCATA-GGCAGATTGAAG
*
3567 TCATCCAATCTCTTACCC
1 -CATCCAATCTTTTACCC
3585 CGATCATGGG
Statistics
Matches: 195, Mismatches: 36, Indels: 42
0.71 0.13 0.15
Matches are distributed among these distances:
37 12 0.06
38 75 0.38
39 22 0.11
40 71 0.36
41 15 0.08
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (36 bp):
CATCCAATCTTTTACCCAATCATAGGCAGATTGAAG
Found at i:3388 original size:40 final size:40
Alignment explanation
Indices: 3344--3584 Score: 131
Period size: 40 Copynumber: 6.2 Consensus size: 40
3334 ATCCAATTTT
*
3344 TTACCCTAATTAAAGGGCAGATTAAAGATACACCAATCTC
1 TTACCCTAATTAAAGGGCAGATTGAAGATACACCAATCTC
* * * *
3384 TTACCCCAA-TCATGAGGCAGATTGAAGCAT--A-CAATCTT
1 TTACCCTAATTAAAG-GGCAGATTGAAG-ATACACCAATCTC
* * * *
3422 TTACCCTAATCAAAGGGCATATTGAAGACACACTAATCTC
1 TTACCCTAATTAAAGGGCAGATTGAAGATACACCAATCTC
* * * * * * * *
3462 TTCCCCCAATCATAGGGTAAATTGAAG---CATCCGATCTT
1 TTACCCTAATTAAAGGGCAGATTGAAGATACA-CCAATCTC
* * * * *
3500 TTACCCTAATCAGAGAGTAGATTGAAGACACACCAATCTC
1 TTACCCTAATTAAAGGGCAGATTGAAGATACACCAATCTC
** ** * *
3540 TTACCCCGACCATAGGGCTGATTGAAG-T-CATCCAATCTC
1 TTACCCTAATTAAAGGGCAGATTGAAGATACA-CCAATCTC
3579 TTACCC
1 TTACCC
3585 CGATCATGGG
Statistics
Matches: 154, Mismatches: 36, Indels: 23
0.72 0.17 0.11
Matches are distributed among these distances:
37 3 0.02
38 54 0.35
39 21 0.14
40 72 0.47
41 4 0.03
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (40 bp):
TTACCCTAATTAAAGGGCAGATTGAAGATACACCAATCTC
Found at i:3427 original size:78 final size:81
Alignment explanation
Indices: 3295--3866 Score: 448
Period size: 78 Copynumber: 7.2 Consensus size: 81
3285 GAGAAGCTAC
* * * * *
3295 CATCCAATCTCATACCCAGATCAT-AGGACAGATTGAAG-CATCCAATTTTTTACCCTAATTAAA
1 CATCCAATCTCTTACCCCGATCATGAGG-CAGATTGAAGTCATCCAATCTCTTACCCTAATCAAA
*
3358 GGGCAGATTAAAGATA-
65 GGGCAGATTAAAGACAT
* * *
3374 CA-CCAATCTCTTACCCCAATCATGAGGCAGATTGAAG-CATACAATCTTTTACCCTAATCAAAG
1 CATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGTCATCCAATCTCTTACCCTAATCAAAG
* *
3437 GGCATATTGAAGACA-
66 GGCAGATTAAAGACAT
* * * * * * * *
3452 CA-CTAATCTCTTCCCCCAATCAT-AGGGTAAATTGAAG-CATCCGATCTTTTACCCTAATCAGA
1 CATCCAATCTCTTACCCCGATCATGA-GGCAGATTGAAGTCATCCAATCTCTTACCCTAATCAAA
* * *
3514 GAGTAGATTGAAGACA-
65 GGGCAGATTAAAGACAT
* * ** **
3530 CA-CCAATCTCTTACCCCGACCAT-AGGGCTGATTGAAGTCATCCAATCTCTTACCCCGATCATG
1 CATCCAATCTCTTACCCCGATCATGA-GGCAGATTGAAGTCATCCAATCTCTTACCCTAATCAAA
* *
3593 GGGTAAATTAAAGACAT
65 GGGCAGATTAAAGACAT
* ** *
3610 CATCCAATCTCTTACCCCGA-C--GA--TAGATTGAAGTCATCCAATCTCTTACCCCGATC-ATG
1 CATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGTCATCCAATCTCTTACCCTAATCAAAG
* *
3669 GAGCAGATTGAAGATAT
66 G-GCAGATTAAAGACAT
* * * * *
3686 CATCCAATCTCTTACTCCGACCATGAGGCAGATTAAAGCCATCCAATCACTTACCAC-AAT-AAT
1 CATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGTCATCCAATCTCTTACC-CTAATCAA-
3749 AGGGCAGATTGAAA-ACAT
64 AGGGCAGATT-AAAGACAT
* * **
3767 CATCCAATCTCTTACTCCGATCATGAGGCAGACTGAAGACATCATCCAATCTCTTACCCCGATCA
1 CATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG---TCATCCAATCTCTTACCCTAATCA
** * * *
3832 TGGGGCAGATTGAAGCCAC
63 AAGGGCAGATTAAAGACAT
*
3851 CATCCAATCTTTTACC
1 CATCCAATCTCTTACC
3867 TCTAAGTCAA
Statistics
Matches: 406, Mismatches: 65, Indels: 39
0.80 0.13 0.08
Matches are distributed among these distances:
75 2 0.00
76 61 0.15
77 2 0.00
78 159 0.39
79 40 0.10
80 3 0.01
81 88 0.22
82 5 0.01
83 3 0.01
84 42 0.10
85 1 0.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (81 bp):
CATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAGTCATCCAATCTCTTACCCTAATCAAAG
GGCAGATTAAAGACAT
Found at i:3625 original size:42 final size:42
Alignment explanation
Indices: 3358--3866 Score: 376
Period size: 42 Copynumber: 12.8 Consensus size: 42
3348 CCTAATTAAA
* * *
3358 GGGCAGATTAAAGATA-CA-CCAATCTCTTACCCCAATCATG
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
* * ** **
3398 AGGCAGATTGAAG-CAT-A--CAATCTTTTACCCTAATCAAA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
* * * * *
3436 GGGCATATTGAAGACA-CA-CTAATCTCTTCCCCCAATCATA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
* * * * **
3476 GGGTAAATTGAAG----CATCCGATCTTTTACCCTAATCA-G
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
* * * *
3513 AGAGTAGATTGAAGACA-CA-CCAATCTCTTACCCCGACCATA
1 -GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
*
3554 GGGCTGATTGAAG---TCATCCAATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
* * *
3593 GGGTAAATTAAAGACATCATCCAATCTCTTACCCCGA-CGAT-
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATC-ATG
3634 ----AGATTGAAG---TCATCCAATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
* * * *
3669 GAGCAGATTGAAGATATCATCCAATCTCTTACTCCGACCATG
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
* * * * * * *
3711 AGGCAGATTAAAG-C--CATCCAATCACTTACCACAATAATA
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
* *
3750 GGGCAGATTGAAAACATCATCCAATCTCTTACTCCGATCATG
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
* *
3792 AGGCAGACTGAAGACATCATCCAATCTCTTACCCCGATCATG
1 GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
* * *
3834 GGGCAGATTGAAGCCACCATCCAATCTTTTACC
1 GGGCAGATTGAAGACATCATCCAATCTCTTACC
3867 TCTAAGTCAA
Statistics
Matches: 369, Mismatches: 72, Indels: 54
0.75 0.15 0.11
Matches are distributed among these distances:
34 23 0.06
35 1 0.00
37 9 0.02
38 56 0.15
39 71 0.19
40 64 0.17
41 3 0.01
42 142 0.38
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
GGGCAGATTGAAGACATCATCCAATCTCTTACCCCGATCATG
Found at i:12749 original size:89 final size:90
Alignment explanation
Indices: 12566--12762 Score: 217
Period size: 90 Copynumber: 2.2 Consensus size: 90
12556 AGCAATTAAA
* * * * *
12566 TTTTTTTT-CATTCAATTGAATACTTGAATTTTTAAAATACATTAAAAAAACCTTCAAACTTTTT
1 TTTTTTTTACATTCAATTGAATACTTGAACTATCAAAACACATTAAAAAAACCATCAAACTTTTT
** *
12630 TTAAAAAATAAATAAATCTCTATTT
66 CAAAAAAATAAATAAATCTCTATCT
* *
12655 TTTTTTTTACATTCAATTGGATATTTGAACTATCAAAACACA-TAAAAAAGACTCAT-AAACTTT
1 TTTTTTTTACATTCAATTGAATACTTGAACTATCAAAACACATTAAAAAA-AC-CATCAAACTTT
12718 TTCAAAAAAATACAATTAAA-C-CT-TCT
64 TTCAAAAAAATA-AA-TAAATCTCTATCT
*
12744 TTTTTTTTACACTCAATTG
1 TTTTTTTTACATTCAATTG
12763 TCAAAATGCA
Statistics
Matches: 92, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
89 35 0.38
90 48 0.52
91 5 0.05
92 4 0.04
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.42
Consensus pattern (90 bp):
TTTTTTTTACATTCAATTGAATACTTGAACTATCAAAACACATTAAAAAAACCATCAAACTTTTT
CAAAAAAATAAATAAATCTCTATCT
Found at i:12946 original size:30 final size:31
Alignment explanation
Indices: 12910--12967 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
12900 AAAGTTTTTG
12910 AACTTTAAT-AAAATTATAAAAAA-ATATTTA
1 AACTTTAATAAAAATT-TAAAAAATATATTTA
*
12940 AACTTTACTAAAAATTTAAAAAATATAT
1 AACTTTAATAAAAATTTAAAAAATATAT
12968 AAAAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (31 bp):
AACTTTAATAAAAATTTAAAAAATATATTTA
Found at i:12970 original size:29 final size:30
Alignment explanation
Indices: 12910--12970 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
12900 AAAGTTTTTG
*
12910 AACTTTAATAAAATTATAAAAAAATATTTA
1 AACTTTAATAAAATTATAAAAAAATATATA
*
12940 AACTTTACTAAAAATT-T-AAAAAATATATA
1 AACTTTAAT-AAAATTATAAAAAAATATATA
12969 AA
1 AA
12971 AATTATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 13 0.46
30 9 0.32
31 6 0.21
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (30 bp):
AACTTTAATAAAATTATAAAAAAATATATA
Found at i:12987 original size:19 final size:19
Alignment explanation
Indices: 12888--12999 Score: 59
Period size: 19 Copynumber: 5.8 Consensus size: 19
12878 ATAAAGATCA
12888 ATAAAAATTATAAAAGTTTT
1 ATAAAAATTATAAAA-TTTT
* ** *
12908 -TGAACTTTAATAAAATTAT
1 ATAAAAATT-ATAAAATTTT
* * *
12927 A-AAAAAATATTTAAACTTT
1 ATAAAAATTA-TAAAATTTT
* *
12946 ACTAAAAATT-TAAAAAATAT
1 A-TAAAAATTAT-AAAATTTT
12966 ATAAAAATTATAAAATTTT
1 ATAAAAATTATAAAATTTT
* *
12985 ATAAGAATCATAAAA
1 ATAAAAATTATAAAA
13000 AATAGAAAAT
Statistics
Matches: 66, Mismatches: 19, Indels: 15
0.66 0.19 0.15
Matches are distributed among these distances:
18 1 0.02
19 46 0.70
20 13 0.20
21 6 0.09
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.36
Consensus pattern (19 bp):
ATAAAAATTATAAAATTTT
Found at i:13300 original size:10 final size:9
Alignment explanation
Indices: 13196--13308 Score: 52
Period size: 9 Copynumber: 11.9 Consensus size: 9
13186 TTATGATAAC
13196 TTTTATAATT
1 TTTTAT-ATT
13206 CTTTTATGAATT
1 -TTTTAT--ATT
*
13218 TTATATATT
1 TTTTATATT
*
13227 TTTTACA-T
1 TTTTATATT
13235 TTTTATCATT
1 TTTTAT-ATT
*
13245 TTCTTATGAAT
1 TT-TTAT-ATT
* **
13256 TTATA-AAA
1 TTTTATATT
*
13264 TTTCATATT
1 TTTTATATT
13273 TTTTATATT
1 TTTTATATT
*
13282 TTATA-ATT
1 TTTTATATT
13290 TTTTACTATT
1 TTTTA-TATT
13300 TTTATATAT
1 TTT-TATAT
13309 ATATTTTTCT
Statistics
Matches: 79, Mismatches: 15, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
8 18 0.23
9 22 0.28
10 14 0.18
11 21 0.27
12 4 0.05
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTATATT
Found at i:14540 original size:2 final size:2
Alignment explanation
Indices: 14533--14581 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
14523 TTCCTTAAAA
14533 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14575 TC TC TC T
1 TC TC TC T
14582 TTAAGGAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:17706 original size:8 final size:8
Alignment explanation
Indices: 17695--17729 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
17685 TAATTAATTG
17695 ATTATTTT
1 ATTATTTT
17703 ATTATTTT
1 ATTATTTT
* *
17711 ATTATATA
1 ATTATTTT
17719 ATTATTTT
1 ATTATTTT
17727 ATT
1 ATT
17730 GAGTTATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
ATTATTTT
Found at i:21160 original size:31 final size:30
Alignment explanation
Indices: 21099--21176 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 30
21089 CATTTAACAC
21099 AACAGTCACTCAAC-TTTGAAAATGTGACAA
1 AACAGTCACT-AACATTTGAAAATGTGACAA
21129 AACAGTCACTAACATTATCGAAAA-GTGACAA
1 AACAGTCACTAACATT-T-GAAAATGTGACAA
21160 AACAGTCACTAACATTT
1 AACAGTCACTAACATTT
21177 CCCAATCGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
29 3 0.07
30 13 0.29
31 24 0.53
32 5 0.11
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.23
Consensus pattern (30 bp):
AACAGTCACTAACATTTGAAAATGTGACAA
Found at i:28560 original size:12 final size:13
Alignment explanation
Indices: 28535--28563 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
28525 CGTGTTGTAC
28535 CCGTATTACGTGT
1 CCGTATTACGTGT
28548 CCGTATT-CGTGT
1 CCGTATTACGTGT
28560 CCGT
1 CCGT
28564 GCTTCATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.10, C:0.28, G:0.24, T:0.38
Consensus pattern (13 bp):
CCGTATTACGTGT
Found at i:29453 original size:57 final size:56
Alignment explanation
Indices: 29349--29455 Score: 137
Period size: 57 Copynumber: 1.9 Consensus size: 56
29339 TTTGACTCAA
* * **
29349 TTTGGTATTTAAATTTGACACTTTTCCTAATTTAGTACTTGAACTTTTTTACCCAT
1 TTTGATATCTAAATTTGACACTTTTCCTAATTTAGTACTCCAACTTTTTTACCCAT
29405 TTTGATATCTAAACTTT-ACACGTTTTCCTAATTTAGTAC-CCAAGCTTTTTT
1 TTTGATATCTAAA-TTTGACAC-TTTTCCTAATTTAGTACTCCAA-CTTTTTT
29456 TTAAGATTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
56 17 0.39
57 27 0.61
ACGTcount: A:0.25, C:0.18, G:0.08, T:0.49
Consensus pattern (56 bp):
TTTGATATCTAAATTTGACACTTTTCCTAATTTAGTACTCCAACTTTTTTACCCAT
Found at i:29735 original size:31 final size:30
Alignment explanation
Indices: 29696--29757 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
29686 AAGTACTAGC
* *
29696 TTAAAAAAAGTGTGAAGTTTAGGTACCAAA
1 TTAAAAAAAATGTCAAGTTTAGGTACCAAA
*
29726 TTAAGAAAAAATGTCAAGTTTAGGTATCAAA
1 TTAA-AAAAAATGTCAAGTTTAGGTACCAAA
29757 T
1 T
29758 GTTATATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (30 bp):
TTAAAAAAAATGTCAAGTTTAGGTACCAAA
Found at i:30780 original size:23 final size:23
Alignment explanation
Indices: 30748--30791 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
30738 TAAATGTGAG
* *
30748 AGTTATTAATATTTATTTATAAT
1 AGTTACTAATATTTAATTATAAT
*
30771 AGTTACTAATGTTTAATTATA
1 AGTTACTAATATTTAATTATA
30792 TTTAAATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (23 bp):
AGTTACTAATATTTAATTATAAT
Found at i:36997 original size:42 final size:42
Alignment explanation
Indices: 36938--37022 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
36928 AATGACATTA
36938 ATAATGCAGGGACAATTATACTACAGCTACATGATATGCATG
1 ATAATGCAGGGACAATTATACTACAGCTACATGATATGCATG
* *
36980 ATAATGCAGGGACAATTATACTACAGTTACGTGATATGCATG
1 ATAATGCAGGGACAATTATACTACAGCTACATGATATGCATG
37022 A
1 A
37023 AAACTAAACT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (42 bp):
ATAATGCAGGGACAATTATACTACAGCTACATGATATGCATG
Found at i:45306 original size:156 final size:159
Alignment explanation
Indices: 45017--45332 Score: 489
Period size: 156 Copynumber: 2.0 Consensus size: 159
45007 ATCAATGATG
*
45017 AAGGTTCACACTTCGATTATCGTTACATCAAAGATGCATTAACAAGGTATGGGATAAGTCATAAA
1 AAGGTTCACACTTCGATTATCGTTACATCAAAGATGCATTAACAA-G-ATGGGATAAATCATAAA
45082 ATTACGACCGCATATCATCCCCAAACGAATGGACAAGCGGAGATATCAAACAGAGAGATTAAATC
64 ATTACGACCGCATATCATCCCCAAACGAATGGACAAGCGGAGATATCAAACAGAGAGATTAAATC
45147 AATTTTAGAAAAGGTTGTTGATCCTACACGT
129 AATTTTAGAAAAGGTTGTTGATCCTACACGT
* *
45178 AAGGTTCACACGTT-GATTGTCGTTACATCGAAGATGCATTAAC-A-A-GGGATAAATCATAAAA
1 AAGGTTCACAC-TTCGATTATCGTTACATCAAAGATGCATTAACAAGATGGGATAAATCATAAAA
* * * *
45239 TTGCGACTGCATATCAT-CCCAAGACGAATGGACAAGTGGAGATATCAAATAGAGAGATTAAATC
65 TTACGACCGCATATCATCCCCAA-ACGAATGGACAAGCGGAGATATCAAACAGAGAGATTAAATC
*
45303 AATTTTAGAAAAGGTTGTTGATCTTACACG
129 AATTTTAGAAAAGGTTGTTGATCCTACACG
45333 CATGGATTGG
Statistics
Matches: 145, Mismatches: 8, Indels: 9
0.90 0.05 0.06
Matches are distributed among these distances:
155 5 0.03
156 98 0.68
157 1 0.01
160 1 0.01
161 38 0.26
162 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (159 bp):
AAGGTTCACACTTCGATTATCGTTACATCAAAGATGCATTAACAAGATGGGATAAATCATAAAAT
TACGACCGCATATCATCCCCAAACGAATGGACAAGCGGAGATATCAAACAGAGAGATTAAATCAA
TTTTAGAAAAGGTTGTTGATCCTACACGT
Found at i:47207 original size:12 final size:12
Alignment explanation
Indices: 47190--47215 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47180 TCATATAATA
47190 GAATGATGCGCC
1 GAATGATGCGCC
47202 GAATGATGCGCC
1 GAATGATGCGCC
47214 GA
1 GA
47216 TAATTTACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.35, T:0.15
Consensus pattern (12 bp):
GAATGATGCGCC
Found at i:52514 original size:21 final size:21
Alignment explanation
Indices: 52488--52535 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
52478 TGAGTCCTCA
52488 ATCATATCTC-AGAATATCGCC
1 ATCATATC-CGAGAATATCGCC
52509 ATCATATCCGAGAATATCGCC
1 ATCATATCCGAGAATATCGCC
52530 ATCATA
1 ATCATA
52536 CACCTTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (21 bp):
ATCATATCCGAGAATATCGCC
Found at i:55957 original size:17 final size:20
Alignment explanation
Indices: 55929--55971 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
55919 AATTAAAATC
55929 TAAAAAAGAAAACA-ATTAG
1 TAAAAAAGAAAACAGATTAG
*
55948 -AAAAAA-AAAATAGATTAG
1 TAAAAAAGAAAACAGATTAG
55966 TAAAAA
1 TAAAAA
55972 TTAAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.16
Consensus pattern (20 bp):
TAAAAAAGAAAACAGATTAG
Found at i:57477 original size:30 final size:30
Alignment explanation
Indices: 57442--57500 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
57432 GTACAAAAGA
57442 GACAATTTAAATACTAAATTGAGAAGAAAT
1 GACAATTTAAATACTAAATTGAGAAGAAAT
57472 GACAATTTAAATACTAAATTGAGAAGAAA
1 GACAATTTAAATACTAAATTGAGAAGAAA
57501 ATCTATGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (30 bp):
GACAATTTAAATACTAAATTGAGAAGAAAT
Found at i:58207 original size:29 final size:28
Alignment explanation
Indices: 58156--58241 Score: 154
Period size: 28 Copynumber: 3.0 Consensus size: 28
58146 TGTTTCTTTA
58156 TTTGTAAGGTCATTTTTCTTTGAAAGTG
1 TTTGTAAGGTCATTTTTCTTTGAAAGTG
58184 TTTGTAAGGTTCATTTTTCTTTGAAAGTG
1 TTTGTAAGG-TCATTTTTCTTTGAAAGTG
*
58213 TTTGTAATGTCATTTTTCTTTGAAAGTG
1 TTTGTAAGGTCATTTTTCTTTGAAAGTG
58241 T
1 T
58242 ATGTTTCCTC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
28 29 0.52
29 27 0.48
ACGTcount: A:0.21, C:0.07, G:0.20, T:0.52
Consensus pattern (28 bp):
TTTGTAAGGTCATTTTTCTTTGAAAGTG
Found at i:60288 original size:25 final size:25
Alignment explanation
Indices: 60203--60281 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
60193 CGAAGTACTT
** * *
60203 AACAGAAGTGCATAAGTGATGGGGA
1 AACAGAAGCACATAAGTGCTAGGGA
*
60228 AACAGAAGCACATAAGTGCTAGAGA
1 AACAGAAGCACATAAGTGCTAGGGA
*
60253 AACAGAAGCACGTAAGTGC-AGGGA
1 AACAGAAGCACATAAGTGCTAGGGA
60277 AACAG
1 AACAG
60282 TAGGCACACA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 9 0.19
25 38 0.81
ACGTcount: A:0.44, C:0.14, G:0.30, T:0.11
Consensus pattern (25 bp):
AACAGAAGCACATAAGTGCTAGGGA
Found at i:60311 original size:22 final size:22
Alignment explanation
Indices: 60285--60374 Score: 153
Period size: 22 Copynumber: 4.1 Consensus size: 22
60275 GAAACAGTAG
60285 GCACACACAGTGCTGAACAGAA
1 GCACACACAGTGCTGAACAGAA
*
60307 GCACACACAGTGCTGATCAGAA
1 GCACACACAGTGCTGAACAGAA
*
60329 GCACACACAGTGCTGATCAGAA
1 GCACACACAGTGCTGAACAGAA
*
60351 GCACACATAGTGCTGAACAGAA
1 GCACACACAGTGCTGAACAGAA
60373 GC
1 GC
60375 GTGCTAGTGT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 65 1.00
ACGTcount: A:0.38, C:0.27, G:0.23, T:0.12
Consensus pattern (22 bp):
GCACACACAGTGCTGAACAGAA
Found at i:66455 original size:25 final size:25
Alignment explanation
Indices: 66420--66494 Score: 100
Period size: 25 Copynumber: 3.0 Consensus size: 25
66410 AGTACTTAAT
*
66420 AGAAGCGCATAAGTGCTAGGGAAAC
1 AGAAGCACATAAGTGCTAGGGAAAC
66445 AGAAGCACATAAGTGCT-GGAGAAAC
1 AGAAGCACATAAGTGCTAGG-GAAAC
* *
66470 AAAAGAACATAAGTGCTA-GGAAAC
1 AGAAGCACATAAGTGCTAGGGAAAC
66494 A
1 A
66495 ATAGGCACAC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
24 8 0.18
25 37 0.82
ACGTcount: A:0.47, C:0.15, G:0.27, T:0.12
Consensus pattern (25 bp):
AGAAGCACATAAGTGCTAGGGAAAC
Found at i:66524 original size:22 final size:22
Alignment explanation
Indices: 66499--66543 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
66489 GAAACAATAG
*
66499 GCACACACAGTGCTGAACAGAA
1 GCACACACAGTACTGAACAGAA
66521 GCACACACAGTACTGAACAGAA
1 GCACACACAGTACTGAACAGAA
66543 G
1 G
66544 AGCGCTAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.27, G:0.22, T:0.09
Consensus pattern (22 bp):
GCACACACAGTACTGAACAGAA
Found at i:67558 original size:19 final size:19
Alignment explanation
Indices: 67536--67580 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
67526 TTATATTTGG
67536 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
67555 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
67574 ATTTAAT
1 ATTTAAT
67581 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:69207 original size:17 final size:17
Alignment explanation
Indices: 69167--69212 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
69157 TATTAGTGCT
69167 TAAAAAGAAACAAAAATG
1 TAAAAAGAAA-AAAAATG
* *
69185 TTAAAAGAAAAAAATTG
1 TAAAAAGAAAAAAAATG
69202 TAAAAAGAAAA
1 TAAAAAGAAAA
69213 TTATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (17 bp):
TAAAAAGAAAAAAAATG
Found at i:70926 original size:43 final size:43
Alignment explanation
Indices: 70865--70956 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
70855 ATCCTTACTT
70865 AGTCATTCTAAGATATTTTGTAGAAGCAGATATTTGCTAAGAC
1 AGTCATTCTAAGATATTTTGTAGAAGCAGATATTTGCTAAGAC
70908 AGTCATTCTAAGATATTTTGTAGAAGCAGATATTTGCTAAGAC
1 AGTCATTCTAAGATATTTTGTAGAAGCAGATATTTGCTAAGAC
*
70951 ATTCAT
1 AGTCAT
70957 AGATATAGAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (43 bp):
AGTCATTCTAAGATATTTTGTAGAAGCAGATATTTGCTAAGAC
Found at i:72676 original size:21 final size:21
Alignment explanation
Indices: 72650--72700 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
72640 TTCAACTATG
72650 ATTAAACTTAATAATTT-T-AAT
1 ATTAAA-TTAAT-ATTTATAAAT
72671 ATTAAATTAATATTTATAAAT
1 ATTAAATTAATATTTATAAAT
*
72692 ATTATATTA
1 ATTAAATTA
72701 GTTTAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 4 0.15
20 6 0.22
21 17 0.63
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAAATTAATATTTATAAAT
Found at i:75218 original size:12 final size:11
Alignment explanation
Indices: 75193--75254 Score: 54
Period size: 11 Copynumber: 5.3 Consensus size: 11
75183 ATTAAATTGA
*
75193 TAAAATACTAT
1 TAAAATAATAT
75204 TAAAATAAGTAT
1 TAAAATAA-TAT
*
75216 TAAATTAA-AT
1 TAAAATAATAT
75226 TAAATATTAAATTAT
1 TAAA-A-T-AA-TAT
75241 TAAAATAATAT
1 TAAAATAATAT
75252 TAA
1 TAA
75255 TTTTGGAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
10 6 0.14
11 13 0.31
12 13 0.31
13 3 0.07
14 1 0.02
15 6 0.14
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (11 bp):
TAAAATAATAT
Found at i:75224 original size:17 final size:17
Alignment explanation
Indices: 75202--75239 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
75192 ATAAAATACT
*
75202 ATTAAAATAAGTATTAA
1 ATTAAAATAAATATTAA
*
75219 ATTAAATTAAATATTAA
1 ATTAAAATAAATATTAA
75236 ATTA
1 ATTA
75240 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATTAAAATAAATATTAA
Found at i:75369 original size:19 final size:19
Alignment explanation
Indices: 75336--75375 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
75326 AAAGTATCAT
*
75336 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTACTTG
75355 ATTAA-TTTAATTTTACTTG
1 ATTAATTTTAA-TTTACTTG
75374 AT
1 AT
75376 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTACTTG
Found at i:77393 original size:43 final size:43
Alignment explanation
Indices: 77323--77413 Score: 155
Period size: 43 Copynumber: 2.1 Consensus size: 43
77313 CAAAACATCG
* * *
77323 CATACATAAGGCTTCCAACTGTTGAAGCATACGGAACCTTACT
1 CATATATAAGGCTTCCAACTGTCGAAGCATACGAAACCTTACT
77366 CATATATAAGGCTTCCAACTGTCGAAGCATACGAAACCTTACT
1 CATATATAAGGCTTCCAACTGTCGAAGCATACGAAACCTTACT
77409 CATAT
1 CATAT
77414 GCTCTCTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.26
Consensus pattern (43 bp):
CATATATAAGGCTTCCAACTGTCGAAGCATACGAAACCTTACT
Found at i:77853 original size:2 final size:2
Alignment explanation
Indices: 77848--77877 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
77838 GATTTTTTAA
77848 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
77878 TAAATAGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89946 original size:34 final size:34
Alignment explanation
Indices: 89903--89974 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
89893 CGAGGATTCA
89903 TCTGACTGAGCATGTCTACGTGGGTAGCACCTAT
1 TCTGACTGAGCATGTCTACGTGGGTAGCACCTAT
*
89937 TCTGACTGAGCATGTCTGCGTGGGTAGCACCTAT
1 TCTGACTGAGCATGTCTACGTGGGTAGCACCTAT
89971 TCTG
1 TCTG
89975 TTTGTCAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.31
Consensus pattern (34 bp):
TCTGACTGAGCATGTCTACGTGGGTAGCACCTAT
Found at i:90509 original size:244 final size:244
Alignment explanation
Indices: 90080--90809 Score: 1424
Period size: 244 Copynumber: 3.0 Consensus size: 244
90070 TGACTTGTTC
* *
90080 GATCAGTTCTACGGAGCTTCACTATTTTTGAAGATCGAACTTCGTTCTGGTTACCATCAGCTAAA
1 GATCAGTTCTACGGAGCTTCACTATTTTTGAAGACCAAACTTCGTTCTGGTTACCATCAGCTAAA
90145 AGTCAAAGATGCTGATGTGTTCAAAATCACCTTTAGGATGCGTTACAAGTATTACGAGTTCCTGG
66 AGTCAAAGATGCTGATGTGTTCAAAATCACCTTTAGGATGCGTTACAAGTATTACGAGTTCCTGG
90210 TTATGCCATTCGGCTTAACGAATGCCCCGGTTGCGTTCATGGATATAATAAATTGGGTATTTCAG
131 TTATGCCATTCGGCTTAACGAATGCCCCGGTTGCGTTCATGGATATAATAAATTGGGTATTTCAG
90275 TCATACCTAGATTAGTTGGTAGTGATCTTTATCGACGACATTCTGATTT
196 TCATACCTAGATTAGTTGGTAGTGATCTTTATCGACGACATTCTGATTT
90324 GATCAGTTCTACGGAGCTTCACTATTTTTGAAGACCAAACTTCGTTCTGGTTACCATCAGCTAAA
1 GATCAGTTCTACGGAGCTTCACTATTTTTGAAGACCAAACTTCGTTCTGGTTACCATCAGCTAAA
90389 AGTCAAAGATGCTGATGTGTTCAAAATCACCTTTAGGATGCGTTACAAGTATTACGAGTTCCTGG
66 AGTCAAAGATGCTGATGTGTTCAAAATCACCTTTAGGATGCGTTACAAGTATTACGAGTTCCTGG
90454 TTATGCCATTCGGCTTAACGAATGCCCCGGTTGCGTTCATGGATATAATAAATTGGGTATTTCAG
131 TTATGCCATTCGGCTTAACGAATGCCCCGGTTGCGTTCATGGATATAATAAATTGGGTATTTCAG
90519 TCATACCTAGATTAGTTGGTAGTGATCTTTATCGACGACATTCTGATTT
196 TCATACCTAGATTAGTTGGTAGTGATCTTTATCGACGACATTCTGATTT
90568 GATCAGTTCTACGGAGCTTCACTATTTTTGAAGACCAAACTTCGTTCTGGTTACCATCAGCTAAA
1 GATCAGTTCTACGGAGCTTCACTATTTTTGAAGACCAAACTTCGTTCTGGTTACCATCAGCTAAA
90633 AGTCAAAGATGCTGATGTGTTCAAAATCACCTTTAGGATGCGTTACAAGTATTACGAGTTCCTGG
66 AGTCAAAGATGCTGATGTGTTCAAAATCACCTTTAGGATGCGTTACAAGTATTACGAGTTCCTGG
*
90698 TTATGCCATTCAGCTTAACGAATGCCCCGGTTGCGTTCATGGATATAATAAATTGGGTATTTCAG
131 TTATGCCATTCGGCTTAACGAATGCCCCGGTTGCGTTCATGGATATAATAAATTGGGTATTTCAG
*
90763 TCATACCTAGATTAGTTGGTAGTGATCTTTATCGATGACATTCTGAT
196 TCATACCTAGATTAGTTGGTAGTGATCTTTATCGACGACATTCTGAT
90810 CTATTCCAAG
Statistics
Matches: 482, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
244 482 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (244 bp):
GATCAGTTCTACGGAGCTTCACTATTTTTGAAGACCAAACTTCGTTCTGGTTACCATCAGCTAAA
AGTCAAAGATGCTGATGTGTTCAAAATCACCTTTAGGATGCGTTACAAGTATTACGAGTTCCTGG
TTATGCCATTCGGCTTAACGAATGCCCCGGTTGCGTTCATGGATATAATAAATTGGGTATTTCAG
TCATACCTAGATTAGTTGGTAGTGATCTTTATCGACGACATTCTGATTT
Found at i:93196 original size:59 final size:59
Alignment explanation
Indices: 93104--93222 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
93094 AGGGGGAGAG
93104 AGTTGTAACTCCCCATAATTTGTAACTTTTATATGTGAGTTGTGTCAGCGAATCTGTCT
1 AGTTGTAACTCCCCATAATTTGTAACTTTTATATGTGAGTTGTGTCAGCGAATCTGTCT
93163 AGTTGTAACTCCCCATAATTTGTAACTTTTATATGTGAGTTGTGTCAGCGAATCTGTCT
1 AGTTGTAACTCCCCATAATTTGTAACTTTTATATGTGAGTTGTGTCAGCGAATCTGTCT
93222 A
1 A
93223 TCTCTGTGGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.40
Consensus pattern (59 bp):
AGTTGTAACTCCCCATAATTTGTAACTTTTATATGTGAGTTGTGTCAGCGAATCTGTCT
Found at i:105050 original size:23 final size:24
Alignment explanation
Indices: 105023--105077 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
105013 TGTATGGATA
*
105023 TCTTCTTGTTTTTCATTT-TTTTT
1 TCTTCTTGTTTTTCATTTCCTTTT
*
105046 TCTTCTTGTTTTTTATTTCCTTTT
1 TCTTCTTGTTTTTCATTTCCTTTT
*
105070 TCCTCTTG
1 TCTTCTTG
105078 AGAACTCTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 17 0.61
24 11 0.39
ACGTcount: A:0.04, C:0.18, G:0.05, T:0.73
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTCCTTTT
Found at i:108361 original size:24 final size:23
Alignment explanation
Indices: 108329--108383 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
108319 TGTATGGATA
108329 TCTTCTTGTTTTTCATTTTT-TTTT
1 TCTTCTTGTTTTT--TTTTTCTTTT
108353 TCTTCTTGTTTTTTTTTTCTTTT
1 TCTTCTTGTTTTTTTTTTCTTTT
*
108376 TCCTCTTG
1 TCTTCTTG
108384 AGAACTCTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 5 0.17
23 11 0.38
24 13 0.45
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.76
Consensus pattern (23 bp):
TCTTCTTGTTTTTTTTTTCTTTT
Found at i:110284 original size:18 final size:17
Alignment explanation
Indices: 110263--110303 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
110253 TTTTTTTATT
110263 TTTTTATTTTTCTCGTAA
1 TTTTTATTTTTCTCG-AA
*
110281 TTTTCTTTTTTTCTCGAA
1 TTTT-TATTTTTCTCGAA
110299 TTTTT
1 TTTTT
110304 GATCACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 10 0.48
19 10 0.48
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.71
Consensus pattern (17 bp):
TTTTTATTTTTCTCGAA
Found at i:110303 original size:19 final size:20
Alignment explanation
Indices: 110260--110303 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
110250 TATTTTTTTT
110260 ATTTTTTTATTTTTCTCGTA
1 ATTTTTTTATTTTTCTCGTA
*
110280 ATTTTCTT-TTTTTCTCG-A
1 ATTTTTTTATTTTTCTCGTA
110298 ATTTTT
1 ATTTTT
110304 GATCACTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 9 0.41
20 7 0.32
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (20 bp):
ATTTTTTTATTTTTCTCGTA
Found at i:112281 original size:23 final size:23
Alignment explanation
Indices: 112255--112305 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
112245 CTTATGGATA
*
112255 TCTTCTTGTTTTTCATTTTT-TTT
1 TCTTCTTCTTTTTC-TTTTTCTTT
112278 TCTTCTTCTTTTTCTTTTTCTTT
1 TCTTCTTCTTTTTCTTTTTCTTT
112301 T-TTCT
1 TCTTCT
112306 CTTGAGAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (23 bp):
TCTTCTTCTTTTTCTTTTTCTTT
Found at i:112286 original size:6 final size:6
Alignment explanation
Indices: 112263--112302 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
112253 TATCTTCTTG
* *
112263 TTTTTC ATTTT- TTTTTC TTCTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
112303 TCTCTTGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:112289 original size:12 final size:12
Alignment explanation
Indices: 112255--112302 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
112245 CTTATGGATA
*
112255 TCTTCTTGTTTT
1 TCTTCTTCTTTT
112267 TCATT-TT-TTTT
1 TC-TTCTTCTTTT
112278 TCTTCTTCTTTT
1 TCTTCTTCTTTT
*
112290 TCTTTTTCTTTT
1 TCTTCTTCTTTT
112302 T
1 T
112303 TCTCTTGAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 2 0.06
11 8 0.25
12 20 0.62
13 2 0.06
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (12 bp):
TCTTCTTCTTTT
Done.