Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009782.1 Kokia drynarioides strain JFW-HI SEQ_124503, 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: 166799
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 8 characters in sequence are not A, C, G, or T
Found at i:4723 original size:84 final size:83
Alignment explanation
Indices: 4587--4797 Score: 242
Period size: 84 Copynumber: 2.5 Consensus size: 83
4577 CAGGAGCTGC
* * * * ** * * **
4587 TTCCGGGGTTTCTGTTGGCAAAGGAGAAGTTTCGGGGGCCAGATACAGTGATGGTGGGAGCGAAG
1 TTCCGGGGTTTCCGCTGGC-AGGGAGAAGTTTCGGGAGCTGGATACACTGATGGCGGGAAAGAAG
* * *
4652 GCGAGGCTTCTGGAGCCAA
65 GAGAAGCTTCCGGAGCCAA
4671 TTCCGGGGTTTCCGCTGGCATGGGAGAAGTTTCGGGAGCTGGATACACTGATGGCGGGAAAGAAG
1 TTCCGGGGTTTCCGCTGGCA-GGGAGAAGTTTCGGGAGCTGGATACACTGATGGCGGGAAAGAAG
*
4736 GAGAAGTTTCCGGAGCCAA
65 GAGAAGCTTCCGGAGCCAA
* * *
4755 TTCCGGGGTTTCGGCTGGTGAGGGAGAAGTTTCCGGAGCTGGA
1 TTCCGGGGTTTCCGCTGG-CAGGGAGAAGTTTCGGGAGCTGGA
4798 GAGGCCAAGG
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
83 1 0.01
84 106 0.98
85 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.40, T:0.22
Consensus pattern (83 bp):
TTCCGGGGTTTCCGCTGGCAGGGAGAAGTTTCGGGAGCTGGATACACTGATGGCGGGAAAGAAGG
AGAAGCTTCCGGAGCCAA
Found at i:29406 original size:80 final size:80
Alignment explanation
Indices: 29270--29424 Score: 238
Period size: 80 Copynumber: 1.9 Consensus size: 80
29260 ATGATAACAA
* * * *
29270 ACTTAAGTGAAAAAATGGAAACTTTTGGTAGTTTAGTGACCAAAACATAAAGACATTAAATAGTT
1 ACTTAAGTGAAAAAATAGAAAATTTTGGTAGTTTAGTGACCAAAACATAAACACATTAAATAATT
29335 GAGTGACTAAAGATT
66 GAGTGACTAAAGATT
* * * *
29350 ACTTATGTGACAAAATAGAAAATTTTTGTAGTTTAGTGACCAAAACATAAACACATTATATAATT
1 ACTTAAGTGAAAAAATAGAAAATTTTGGTAGTTTAGTGACCAAAACATAAACACATTAAATAATT
29415 GAGTGACTAA
66 GAGTGACTAA
29425 TGGTTGGAGG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (80 bp):
ACTTAAGTGAAAAAATAGAAAATTTTGGTAGTTTAGTGACCAAAACATAAACACATTAAATAATT
GAGTGACTAAAGATT
Found at i:30126 original size:19 final size:18
Alignment explanation
Indices: 30104--30162 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
30094 ATAATTTTTT
30104 TATAAAATCATAAGAAAAA
1 TATAAAATCATAA-AAAAA
* *
30123 TATAAAAAT-GTAAATAAA
1 TAT-AAAATCATAAAAAAA
30141 TATAAAATTCATAAAAAAA
1 TATAAAA-TCATAAAAAAA
30160 TAT
1 TAT
30163 TATCGTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.12
18 8 0.24
19 16 0.48
20 5 0.15
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (18 bp):
TATAAAATCATAAAAAAA
Found at i:30361 original size:9 final size:9
Alignment explanation
Indices: 30349--30451 Score: 68
Period size: 9 Copynumber: 10.8 Consensus size: 9
30339 TTTTTGGTGC
30349 TTTTATAATTT
1 TTTTATAA--T
*
30360 TTTTATGATT
1 TTTTAT-AAT
30370 TTTTATAAAT
1 TTTTAT-AAT
30380 TTTTACT-AT
1 TTTTA-TAAT
30389 TTTTATAAAAT
1 TTTTAT--AAT
*
30400 TTTTATGA-
1 TTTTATAAT
30408 TTTTATAAT
1 TTTTATAAT
*
30417 TTTTAAAAT
1 TTTTATAAT
*
30426 TTTTAATAAA
1 TTTT-ATAAT
30436 TTTTA-ATAT
1 TTTTATA-AT
30445 TTTTATA
1 TTTTATA
30452 TATTATTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 19
0.73 0.09 0.19
Matches are distributed among these distances:
8 9 0.12
9 27 0.36
10 22 0.30
11 15 0.20
12 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:30362 original size:10 final size:10
Alignment explanation
Indices: 30349--30453 Score: 60
Period size: 10 Copynumber: 10.7 Consensus size: 10
30339 TTTTTGGTGC
30349 TTTTATAATTT
1 TTTTATAA-TT
*
30360 TTTTATGATT
1 TTTTATAATT
*
30370 TTTTATAAAT
1 TTTTATAATT
30380 TTTTACT-A-T
1 TTTTA-TAATT
*
30389 TTTTATAAAAT
1 TTTTAT-AATT
*
30400 TTTTATGA--
1 TTTTATAATT
30408 TTTTATAA-T
1 TTTTATAATT
*
30417 TTTTAAAATT
1 TTTTATAATT
* *
30427 TTTAATAAAT
1 TTTTATAATT
*
30437 TTTAAT-ATT
1 TTTTATAATT
30446 TTTATATA
1 TTT-TATA
30454 TTATTATTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
8 8 0.11
9 18 0.24
10 34 0.45
11 15 0.20
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTATAATT
Found at i:30372 original size:20 final size:20
Alignment explanation
Indices: 30349--30460 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 20
30339 TTTTTGGTGC
*
30349 TTTTATAATTTTTTTATGATT
1 TTTTATAATATTTTTATGA-T
30370 TTTTATAA-ATTTTTACT-AT
1 TTTTATAATATTTTTA-TGAT
*
30389 TTTTATAAAATTTTTATGA-
1 TTTTATAATATTTTTATGAT
**
30408 TTTTAT-A-ATTTTTAAAAT
1 TTTTATAATATTTTTATGAT
*
30426 TTTTAATAA-ATTTTAAT-AT
1 TTTT-ATAATATTTTTATGAT
*
30445 TTTTAT-ATATTATTAT
1 TTTTATAATATTTTTAT
30461 TAATATTTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
17 9 0.12
18 13 0.17
19 24 0.31
20 22 0.29
21 9 0.12
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATATTTTTATGAT
Found at i:30470 original size:7 final size:7
Alignment explanation
Indices: 30437--30489 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
30427 TTTAATAAAT
30437 TTTAATA
1 TTTAATA
*
30444 TTTTTATA
1 -TTTAATA
*
30452 TATTATTA
1 T-TTAATA
30460 -TTAATA
1 TTTAATA
30466 TTTAATA
1 TTTAATA
30473 TTTAATA
1 TTTAATA
30480 TTTAATA
1 TTTAATA
30487 TTT
1 TTT
30490 TTTTATAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
6 5 0.13
7 24 0.62
8 10 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTTAATA
Found at i:31845 original size:23 final size:23
Alignment explanation
Indices: 31819--31987 Score: 147
Period size: 23 Copynumber: 7.6 Consensus size: 23
31809 AGTACTGGGC
*
31819 AACAGAGAGCACACATAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
31842 AACAGAGAGTACACAAAGTGCT-
1 AACAGAGAGCACACAAAGTGCTA
31864 ------GAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
31881 ATCAGAGAGCACACGAAGTGCTAA
1 AACAGAGAGCACACAAAGTGCT-A
* * *
31905 TAATAGAGAGCACGA-GACGTGCTA
1 -AACAGAGAGCAC-ACAAAGTGCTA
31929 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* * *
31952 AACGGAGAGCACATACAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
31975 ATCGGAGAGCACA
1 AACAGAGAGCACA
31988 TAGTGCTAAT
Statistics
Matches: 121, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
16 15 0.12
22 1 0.01
23 85 0.70
24 2 0.02
25 17 0.14
26 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:31868 original size:39 final size:39
Alignment explanation
Indices: 31825--31902 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
31815 GGGCAACAGA
* *
31825 GAGCACACATAGTGCTAAACAGAGAGTACACAAAGTGCT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTGCT
* *
31864 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTGCT
31903 AATAATAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.40, C:0.22, G:0.24, T:0.14
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTGCT
Found at i:31988 original size:23 final size:22
Alignment explanation
Indices: 31864--32003 Score: 120
Period size: 23 Copynumber: 6.1 Consensus size: 22
31854 ACAAAGTGCT
31864 GAGCACACAAAGTGCTAATCAGA
1 GAGCACAC-AAGTGCTAATCAGA
*
31887 GAGCACACGAAGTGCTAATAATAGA
1 GAGCACAC-AAGTGCTAAT--CAGA
* * *
31912 GAGCACGAGACGTGCTAAACAGA
1 GAGCAC-ACAAGTGCTAATCAGA
* *
31935 GAGCACACAAAGTGCTAAACGGA
1 GAGCACAC-AAGTGCTAATCAGA
* *
31958 GAGCACATACAGTGCTAATCGGA
1 GAGCACACA-AGTGCTAATCAGA
* *
31981 GAGCACA-TAGTGCTAATCGGA
1 GAGCACACAAGTGCTAATCAGA
32002 GA
1 GA
32004 ACGTGCTAAT
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
21 15 0.15
22 2 0.02
23 65 0.65
25 17 0.17
26 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (22 bp):
GAGCACACAAGTGCTAATCAGA
Found at i:39108 original size:49 final size:49
Alignment explanation
Indices: 39032--39773 Score: 408
Period size: 49 Copynumber: 15.2 Consensus size: 49
39022 GAAGATATGG
* *
39032 AGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
** * * * *
39081 AGGGAAAGATTTAAGCCATAACAGCGAATCC-AGTA-CTGC-GAGGACATGG
1 AGGGAAAGATTTAAGCCGCAACGGCGAA-CCTTGTACCT-CAGAAG-CATGA
* * *
39130 AGGGAAA-AGTTTAAGTCGCAACGGCAAACCTTGTACCTTAGAAGCATGA
1 AGGGAAAGA-TTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* * * * * *
39179 AGGGAAATATTTAAGCCGCAACGACGAATCC-AGTACCATGAGGA-CATGC
1 AGGGAAAGATTTAAGCCGCAACGGCGAA-CCTTGTACC-TCAGAAGCATGA
* * * *
39228 AGGGAATGATTTAAGTCACAACGGCGAACCTTGTACCTTAGAAGCATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* * * * ** * * * *
39277 AGGAAAAGATTTAAGCCACAACAGCTAATATAGTA-C-CACAAGGATATA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAGCAT-GA
* * * * * *
39325 GAGGGAAGGGTTTAAGTCACAACGGCGAACCTTGTACATCAGAAACATGA
1 -AGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* * * * *
39375 AAGGAAAGATTTAAGCTGCAACGGCGAATCC-AGTACCAC-GAGGACATG-
1 AGGGAAAGATTTAAGCCGCAACGGCGAA-CCTTGTACCTCAGAAG-CATGA
* * *
39423 -GGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGTATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
** * * * *
39471 AGGGAAAGATTTAAG-CGACAACGGTAAATCC-AGTACCAC-GAGGACATGG
1 AGGGAAAGATTTAAGCCG-CAACGGCGAA-CCTTGTACCTCAGAAG-CATGA
* * * * * * * *
39520 AGGGAATGGTTTAAGTCACAACGACAAACCTTGTACCTTAGAA-AATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* * ** * * * *
39568 AGGGAAATATTTAAACCGCAACGATGAATCC-AGTACCAC-GAAGATATGG
1 AGGGAAAGATTTAAGCCGCAACGGCGAA-CCTTGTACCTCAGAAG-CATGA
* * * *
39617 AGGGAAAGGTTTAAGTCGCAACGGAGAACCTTGTACCTCGGAAGCATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* * * * * * *
39666 AGAGAAAGATTTAAGTCGTAACGGCGAATCTAGTACCAC-GAAGATATGA
1 AGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAG-CATGA
* * * ** * *
39715 AGGGAAAG-GTTACGACCGCAATGGCGAACCCGGTACCTTAGAAACATGA
1 AGGGAAAGATTTAAG-CCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* *
39764 CGAGAAAGAT
1 AGGGAAAGAT
39774 CGAACCCACG
Statistics
Matches: 512, Mismatches: 144, Indels: 73
0.70 0.20 0.10
Matches are distributed among these distances:
46 2 0.00
47 41 0.08
48 66 0.13
49 368 0.72
50 29 0.06
51 6 0.01
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (49 bp):
AGGGAAAGATTTAAGCCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
Found at i:39773 original size:98 final size:98
Alignment explanation
Indices: 39016--39725 Score: 854
Period size: 98 Copynumber: 7.3 Consensus size: 98
39006 CAGGTTTCAT
*
39016 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
1 TACCACGAAGACATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
** *
39081 AGGGAAAGATTTAAGCCATAACAGCGAATCCAG
66 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
** * * * *
39114 TACTGCGAGGACATGGAGGGAAAAGTTTAAGTCGCAACGGCAAACCTTGTACCTTAGAAGCATGA
1 TACCACGAAGACATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* *
39179 AGGGAAATATTTAAGCCGCAACGACGAATCCAG
66 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * * * * *
39212 TACCATGAGGACATGCAGGGAATGATTTAAGTCACAACGGCGAACCTTGTACCTTAGAAGCATGA
1 TACCACGAAGACATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* * * * **
39277 AGGAAAAGATTTAAGCCACAACAGCTAATATAG
66 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * * * * *
39310 TACCAC-AAGGATATAGAGGGAAGGGTTTAAGTCACAACGGCGAACCTTGTACATCAGAAACATG
1 TACCACGAA-GACATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATG
* *
39374 AAAGGAAAGATTTAAGCTGCAACGGCGAATCCAG
65 AAGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* *
39408 TACCACGAGGACAT-G-GGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGTATGA
1 TACCACGAAGACATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
**
39471 AGGGAAAGATTTAAG-CGACAACGGTAAATCCAG
66 AGGGAAAGATTTAAGCCG-CAACGGCGAATCCAG
* * * * * * *
39504 TACCACGAGGACATGGAGGGAATGGTTTAAGTCACAACGACAAACCTTGTACCTTAGAA-AATGA
1 TACCACGAAGACATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* * **
39568 AGGGAAATATTTAAACCGCAACGATGAATCCAG
66 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* * *
39601 TACCACGAAGATATGGAGGGAAAGGTTTAAGTCGCAACGGAGAACCTTGTACCTCGGAAGCATGA
1 TACCACGAAGACATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
* * * *
39666 AGAGAAAGATTTAAGTCGTAACGGCGAATCTAG
66 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
* *
39699 TACCACGAAGATATGAAGGGAAAGGTT
1 TACCACGAAGACATGGAGGGAAAGGTT
39726 ACGACCGCAA
Statistics
Matches: 518, Mismatches: 87, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
95 1 0.00
96 84 0.16
97 83 0.16
98 349 0.67
99 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (98 bp):
TACCACGAAGACATGGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAAGCATGA
AGGGAAAGATTTAAGCCGCAACGGCGAATCCAG
Found at i:41862 original size:30 final size:30
Alignment explanation
Indices: 41818--42173 Score: 389
Period size: 30 Copynumber: 12.0 Consensus size: 30
41808 AGAGGTCCCC
*
41818 AAACTTTTCCAAAATTACATTTTGACCCTT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* * *
41848 AAATTTTTCTAAAATTACATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* *
41878 AAACTTTTCCAAAATTATATTTTAACCATT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* *
41908 AAACTTTTCCAAAATTATATTTT-ACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* *
41937 AAACTTTTCCAAATTTACATTTTAGCCCTT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* *
41967 AAACTTTTCCAAAATTATATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* *
41997 AAACTTTTCCTAAATTGCATTTTAACCCTT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* * *
42027 AAAC-TTTCCAAAATCATATTTTAACCCCT
1 AAACTTTTCCAAAATTACATTTTAACCCTT
*
42056 AAACTTTTTCCAAAATTACATTTTGA-CCTAT
1 AAAC-TTTTCCAAAATTACATTTTAACCCT-T
* * * * *
42087 AAAATTTTCCAACATAATATTTTGACCC--
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* * **
42115 AAACTTTTCTAAAATCACATTTTAACCCAC
1 AAACTTTTCCAAAATTACATTTTAACCCTT
* * *
42145 AAACATTTCCAAAATCACATGTTAACCCT
1 AAACTTTTCCAAAATTACATTTTAACCCT
42174 CGAGCTTTAC
Statistics
Matches: 273, Mismatches: 46, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
28 22 0.08
29 49 0.18
30 179 0.66
31 23 0.08
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (30 bp):
AAACTTTTCCAAAATTACATTTTAACCCTT
Found at i:41960 original size:59 final size:60
Alignment explanation
Indices: 41814--42159 Score: 443
Period size: 60 Copynumber: 5.8 Consensus size: 60
41804 CTTAAGAGGT
* * * *
41814 CCCC-AAACTTTTCCAAAATTACATTTTGACCCTTAAATTTTTCTAAAATTACATTTTAA
1 CCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTATATTTTAA
* *
41873 CCCCTAAACTTTTCCAAAATTATATTTTAACCATTAAACTTTTCCAAAATTATATTTT-A
1 CCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTATATTTTAA
* *
41932 CCCCTAAACTTTTCCAAATTTACATTTTAGCCCTTAAACTTTTCCAAAATTATATTTTAA
1 CCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTATATTTTAA
* * *
41992 CCCCTAAACTTTTCCTAAATTGCATTTTAACCCTTAAAC-TTTCCAAAATCATATTTTAA
1 CCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTATATTTTAA
* * * * *
42051 CCCCTAAACTTTTTCCAAAATTACATTTTGA-CCTATAAAATTTTCCAACATAATATTTTGA
1 CCCCTAAAC-TTTTCCAAAATTACATTTTAACCCT-TAAACTTTTCCAAAATTATATTTTAA
* * ** *
42112 -CCC-AAACTTTTCTAAAATCACATTTTAACCCACAAACATTTCCAAAAT
1 CCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAAT
42160 CACATGTTAA
Statistics
Matches: 251, Mismatches: 30, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
58 30 0.12
59 96 0.38
60 108 0.43
61 17 0.07
ACGTcount: A:0.36, C:0.23, G:0.01, T:0.39
Consensus pattern (60 bp):
CCCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTATATTTTAA
Found at i:41972 original size:89 final size:89
Alignment explanation
Indices: 41818--42159 Score: 397
Period size: 89 Copynumber: 3.8 Consensus size: 89
41808 AGAGGTCCCC
* * * *
41818 AAACTTTTCCAAAATTACATTTTGACCCTTAAATTTTTCTAAAATTACATTTTAACCCCTAAACT
1 AAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATCACATTTTAACCCCTAAACT
41883 TTTCCAAAATTATATTTTAACCATT
66 TTTCCAAAATTATATTTTAACC-TT
* * * * *
41908 AAACTTTTCCAAAATTATATTTT-ACCCCTAAACTTTTCCAAATTTACATTTTAGCCCTTAAACT
1 AAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATCACATTTTAACCCCTAAACT
*
41972 TTTCCAAAATTATATTTTAACCCCT
66 TTTCCAAAATTATATTTTAA-CCTT
* * * * *
41997 AAACTTTTCCTAAATTGCATTTTAACCCTTAAAC-TTTCCAAAATCATATTTTAACCCCTAAACT
1 AAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATCACATTTTAACCCCTAAAC-
* *
42061 TTTTCCAAAATTACATTTTGACCTAT
65 TTTTCCAAAATTATATTTTAACCT-T
* * * * *
42087 AAAATTTTCCAACATAATATTTTGA-CCC-AAACTTTTCTAAAATCACATTTTAACCCAC-AAAC
1 AAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATCACATTTTAACCC-CTAAAC
*
42149 ATTTCCAAAAT
65 TTTTCCAAAAT
42160 CACATGTTAA
Statistics
Matches: 215, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
88 14 0.07
89 129 0.60
90 72 0.33
ACGTcount: A:0.37, C:0.23, G:0.01, T:0.39
Consensus pattern (89 bp):
AAACTTTTCCAAAATTACATTTTGACCCCTAAACTTTTCCAAAATCACATTTTAACCCCTAAACT
TTTCCAAAATTATATTTTAACCTT
Found at i:42172 original size:119 final size:117
Alignment explanation
Indices: 41814--42172 Score: 431
Period size: 119 Copynumber: 3.0 Consensus size: 117
41804 CTTAAGAGGT
* * *
41814 CCCC-AAACTTTTCCAAAATTACATTTTGACCCTTAAATTTTTCTAAAATTACATTTTAACCCCT
1 CCCCTAAACTTTTCCAAAATTACATTTTGA-CCTTAAAATTTTCCAAAATTATATTTTAACCCCT
* * * *
41878 AAACTTTTCCAAAATTATATTTTAA-CCATTAAACTTTTCCAAAATTATATTTTA
65 AAACTTTTCTAAAATTACATTTTAACCCA-TAAAC-TTTCCAAAATCATATTTAA
* * *
41932 CCCCTAAACTTTTCCAAATTTACATTTTAGCCCTTAAACTTTTCCAAAATTATATTTTAACCCCT
1 CCCCTAAACTTTTCCAAAATTACATTTT-GACCTTAAAATTTTCCAAAATTATATTTTAACCCCT
* *
41997 AAACTTTTCCT-AAATTGCATTTTAACCCTTAAACTTTCCAAAATCATATTTTAA
65 AAACTTTT-CTAAAATTACATTTTAACCCATAAACTTTCCAAAATCATA-TTTAA
* * *
42051 CCCCTAAACTTTTTCCAAAATTACATTTTGACCTATAAAATTTTCCAACATAATATTTTGA-CCC
1 CCCCTAAAC-TTTTCCAAAATTACATTTTGACCT-TAAAATTTTCCAAAATTATATTTTAACCCC
* * *
42115 -AAACTTTTCTAAAATCACATTTTAACCCACAAACATTTCCAAAATCACATGTTAA
64 TAAACTTTTCTAAAATTACATTTTAACCCATAAAC-TTTCCAAAATCATAT-TTAA
42170 CCC
1 CCC
42173 TCGAGCTTTA
Statistics
Matches: 209, Mismatches: 22, Indels: 19
0.84 0.09 0.08
Matches are distributed among these distances:
117 2 0.01
118 45 0.22
119 118 0.56
120 44 0.21
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (117 bp):
CCCCTAAACTTTTCCAAAATTACATTTTGACCTTAAAATTTTCCAAAATTATATTTTAACCCCTA
AACTTTTCTAAAATTACATTTTAACCCATAAACTTTCCAAAATCATATTTAA
Found at i:43406 original size:24 final size:24
Alignment explanation
Indices: 43374--43445 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
43364 AATAATCTTC
43374 CAATTAAACTCTGTTTATTTGTTT
1 CAATTAAACTCTGTTTATTTGTTT
*
43398 CAATTAAACTTTGTTTATTTGTTT
1 CAATTAAACTCTGTTTATTTGTTT
* *
43422 CAATTAAATTCTGTTTAATTGTTT
1 CAATTAAACTCTGTTTATTTGTTT
43446 GAGTCAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (24 bp):
CAATTAAACTCTGTTTATTTGTTT
Found at i:45411 original size:24 final size:24
Alignment explanation
Indices: 45383--45433 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
45373 AGAAATAATC
* * *
45383 TTTCAGTTAAACTATGTTTATTTG
1 TTTCAATTAAACTATATTTAGTTG
*
45407 TTTCAATTAAACTCTATTTAGTTG
1 TTTCAATTAAACTATATTTAGTTG
45431 TTT
1 TTT
45434 GAGTCAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (24 bp):
TTTCAATTAAACTATATTTAGTTG
Found at i:51986 original size:17 final size:17
Alignment explanation
Indices: 51954--51985 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51944 TGCAATATAT
51954 TTTCTTTTTCTTTTTTC
1 TTTCTTTTTCTTTTTTC
51971 TTTCTTTTT-TTTTTT
1 TTTCTTTTTCTTTTTT
51986 TTACATTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTCTTTTTCTTTTTTC
Found at i:66570 original size:21 final size:21
Alignment explanation
Indices: 66545--66589 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
66535 AGTGGATTTA
66545 TTACATGATAATTTGATTGTC
1 TTACATGATAATTTGATTGTC
66566 TTACATGATAATTTGATTGTC
1 TTACATGATAATTTGATTGTC
66587 TTA
1 TTA
66590 AAGGTTCTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (21 bp):
TTACATGATAATTTGATTGTC
Found at i:70188 original size:13 final size:14
Alignment explanation
Indices: 70165--70193 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
70155 TACAAGAAAA
70165 ATTGTTAGGATATT
1 ATTGTTAGGATATT
70179 ATTG-TAGGATATT
1 ATTGTTAGGATATT
70192 AT
1 AT
70194 CTTTCCGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (14 bp):
ATTGTTAGGATATT
Found at i:70847 original size:59 final size:59
Alignment explanation
Indices: 70751--70865 Score: 187
Period size: 59 Copynumber: 1.9 Consensus size: 59
70741 TCTAGAGGTC
*
70751 ATAGTCAATCTTCATTGCATATTGCAATTGAAATGGATAATCACTTTGTTCGGGATATA
1 ATAGTCAATCTTCATTGCATATTGCAATTGAAATGGATAATCACTTTGTTAGGGATATA
* *
70810 ATAGTCAAT-TTGCATTGCATATTGCAATTGAAGTGGATTATCACTTTGTTAGGGAT
1 ATAGTCAATCTT-CATTGCATATTGCAATTGAAATGGATAATCACTTTGTTAGGGAT
70866 GCAATCTTGG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
58 2 0.04
59 50 0.96
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (59 bp):
ATAGTCAATCTTCATTGCATATTGCAATTGAAATGGATAATCACTTTGTTAGGGATATA
Found at i:73418 original size:97 final size:97
Alignment explanation
Indices: 73252--73511 Score: 376
Period size: 97 Copynumber: 2.7 Consensus size: 97
73242 ATACCTGATT
* * * * * * *
73252 GCTAAACCCTAAATTTGAAATAGATTCGAGAAAAATTAGTCGGTTTCTGTTTATTTAAATGCGTT
1 GCTAAATCCTGAATTTGAAACACATTCGAGAAAAATTAGTCGATTTCTGTTGATTTAAATGTGTT
* *
73317 GAAAGCCTTAATAGTTCTTCGCGTACATAATG
66 GAAAGCCTTAATAATTCTTCGCGAACATAATG
* *
73349 GCTAAATCCTGAATTTGAAACACATTCGAGAAAAATTAGTCGATTTCTGTTGCTTTAACTGTGTT
1 GCTAAATCCTGAATTTGAAACACATTCGAGAAAAATTAGTCGATTTCTGTTGATTTAAATGTGTT
*
73414 GAAAGCCTTAATAATTCTTCGCGAACTTAATG
66 GAAAGCCTTAATAATTCTTCGCGAACATAATG
* * * *
73446 GCTAAATCCTGAATTTGAAACACATTCGAGAAAAGTTGGTCGTTTTCTGTTGAATTAAATGTGTT
1 GCTAAATCCTGAATTTGAAACACATTCGAGAAAAATTAGTCGATTTCTGTTGATTTAAATGTGTT
73511 G
66 G
73512 TGATATCGAT
Statistics
Matches: 145, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
97 145 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (97 bp):
GCTAAATCCTGAATTTGAAACACATTCGAGAAAAATTAGTCGATTTCTGTTGATTTAAATGTGTT
GAAAGCCTTAATAATTCTTCGCGAACATAATG
Found at i:76148 original size:29 final size:30
Alignment explanation
Indices: 76116--76198 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 30
76106 ATAAATATAG
* *
76116 CACCGGCACAGAGTGCTTGATAATTGTAA-
1 CACCGGCACAAAGTGCTTGATAAATGTAAT
*** *
76145 CACCAATACAAAGTACTTGATAAATGTAAT
1 CACCGGCACAAAGTGCTTGATAAATGTAAT
** *
76175 CATTGGCACATAGTGCTTGATAAA
1 CACCGGCACAAAGTGCTTGATAAA
76199 CCCTAATGAA
Statistics
Matches: 40, Mismatches: 13, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
29 23 0.57
30 17 0.43
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (30 bp):
CACCGGCACAAAGTGCTTGATAAATGTAAT
Found at i:81768 original size:21 final size:22
Alignment explanation
Indices: 81737--81781 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
81727 GTAGTAACAT
*
81737 TGACTTTTCCAAATATTAGCAA
1 TGACTTTTCCAAATATTAGAAA
*
81759 TGAC-TTTCCAAATGTTAGAAA
1 TGACTTTTCCAAATATTAGAAA
81780 TG
1 TG
81782 TGAAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (22 bp):
TGACTTTTCCAAATATTAGAAA
Found at i:85534 original size:44 final size:45
Alignment explanation
Indices: 85450--85539 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 45
85440 TATCATAATT
* * * * *
85450 ATTTTTTATATAAGGTTTAAAATTATTCACGAGGTTAAAATTAAA
1 ATTTTTTATAGAAGGATTAAAATTATTCACGAAGTAAAAATAAAA
*
85495 ATTTTTTATAGAA-GATTAAAATT-TTTACGATAGTAAAAATAAAA
1 ATTTTTTATAGAAGGATTAAAATTATTCACGA-AGTAAAAATAAAA
85539 A
1 A
85540 ATTTCAAAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 6 0.16
44 20 0.53
45 12 0.32
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (45 bp):
ATTTTTTATAGAAGGATTAAAATTATTCACGAAGTAAAAATAAAA
Found at i:87032 original size:21 final size:22
Alignment explanation
Indices: 86987--87037 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
86977 ACACCACACA
* *
86987 AGAGAACACTATAGTGCTAAAT
1 AGAGAGCACTATAGAGCTAAAT
*
87009 AGAGAGCACTA-AGAGCTAAGT
1 AGAGAGCACTATAGAGCTAAAT
87030 AGAGAGCA
1 AGAGAGCA
87038 TCGAAATTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.45, C:0.14, G:0.25, T:0.16
Consensus pattern (22 bp):
AGAGAGCACTATAGAGCTAAAT
Found at i:87690 original size:18 final size:19
Alignment explanation
Indices: 87647--87690 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
87637 AATTACTATA
*
87647 AATTTCAAATTTGAGCTTC
1 AATTTCAAAATTGAGCTTC
* *
87666 GATTTCAAAATTGATC-TC
1 AATTTCAAAATTGAGCTTC
87684 AATTTCA
1 AATTTCA
87691 TCCTTCTACA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTTCAAAATTGAGCTTC
Found at i:88908 original size:13 final size:13
Alignment explanation
Indices: 88871--88917 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
88861 ATGATACATG
88871 ATAAATAATATAT
1 ATAAATAATATAT
88884 ACTTCAAA-AATATAT
1 A--T-AAATAATATAT
88899 ATAAATAATATAT
1 ATAAATAATATAT
88912 AATAAA
1 -ATAAA
88918 CACATGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 3 0.10
13 9 0.31
14 5 0.17
15 9 0.31
16 3 0.10
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAAATAATATAT
Found at i:91430 original size:213 final size:212
Alignment explanation
Indices: 90465--91503 Score: 1126
Period size: 213 Copynumber: 4.9 Consensus size: 212
90455 GGTCAAGACG
* * * *
90465 TATTC-TTTGTATGATTGTTAATATTCAAATATTTTTTTTTAATATTCCAGGAAGCTCCTCCTCA
1 TATTCTTTTGCATGATTGTTAATGTTC-AAT-TTTTTGTTT--TATTCCAGGAAGCTCCTGCTCA
** * * *
90529 GAATAAAAAACCTGTAGTTTCTAAAAGTGGCCCTGTTCCGGCTGCCAAGACAGTGAAAGCTGATA
62 GAATAAAAAACCTGTAGTAGCTAAAAGTGGCTCTGTTCCAGCTGCTAAGACAGTGAAAGCTGATA
* * *
90594 GTAGTTCTGAGTCTGGCAGTGAGGAAGATTCATCCTCTGACGAAGTGAGTATCATGCTCATGCTT
127 GTAGTTCTGAGTCTAGTAGTGAGGAAGATTCATCCTCTGACGAAGTGAGTATTATGCTCATGCTT
* * *
90659 GTAATA-TAGCATGGCTGGTTA
192 ATAATATTAGCATGGTTGG-AA
* *
90680 TATTCTTTT-CTATGATTTTTGATGTTCAATTTTTTGTTTTA-TCCAGGAAGCTCCTGCTCAGAA
1 TATTCTTTTGC-ATGATTGTTAATGTTCAATTTTTTGTTTTATTCCAGGAAGCTCCTGCTCAGAA
* * * * * * *
90743 GAAAAATCCTGTAGTTGGTAAAAAG-GGCTCTGTTCCAGCTGCCAAGACAGGGAAAGCTGATAGC
65 TAAAAAACCTGTAGTAGCT-AAAAGTGGCTCTGTTCCAGCTGCTAAGACAGTGAAAGCTGATAGT
* * * * *
90807 AGTTCT---TCAAGTAGTGAGGAAGATTCATCCTTTGATGAAGTAAGTATTATGCTCTTGCTTAG
129 AGTTCTGAGTCTAGTAGTGAGGAAGATTCATCCTCTGACGAAGTGAGTATTATGCTCATGCTTA-
* **
90869 TTAAAACATTAGCATAATTGG-A
193 -T--AATATTAGCATGGTTGGAA
* * * ** * *
90891 CATTCTTTTGTATAATTGTTAATGTTCAA--GGTT-TTTT-TT-CAGGAAGCTCCTACTCAGGAT
1 TATTCTTTTGCATGATTGTTAATGTTCAATTTTTTGTTTTATTCCAGGAAGCTCCTGCTCAGAAT
* * * * * *
90951 AAAAAACCTGTAGCT-GCAAAAACTGGCTCTATTCCGGCTGCTAAGACTGTTAAAGCTGATAGTA
66 AAAAAACCTGTAG-TAGCTAAAAGTGGCTCTGTTCCAGCTGCTAAGACAGTGAAAGCTGATAGTA
* *
91015 GTTCTGAGTCTAGTAGTGAGGAAGACTCATCCTCTGACGAAGTGAGTAATATG--CATGCTTATA
130 GTTCTGAGTCTAGTAGTGAGGAAGATTCATCCTCTGACGAAGTGAGTATTATGCTCATGCTTATA
* * * *
91078 TTTTTAGTATGGTTGGGAG
195 ATATTAGCATGGTT-GGAA
* * * ***
91097 TATTCCTTTGCATGATTGTTGATGTTCAATTTTATTGTCTTATTCCAGGAAGCTCCTGCAGGGAA
1 TATTCTTTTGCATGATTGTTAATGTTCAATTTT-TTGTTTTATTCCAGGAAGCTCCTGCTCAGAA
* * * *
91162 TAAAAAATCTGTAGTCA-CTAAAAGTGACTCTGTTCCAGTTGCTAAGACTGTGAAAGCTGATAGT
65 TAAAAAACCTGTAGT-AGCTAAAAGTGGCTCTGTTCCAGCTGCTAAGACAGTGAAAGCTGATAGT
* * * *
91226 AGTTCTGAGTCTAGTAGCGAGGAGGATTCATCCTCCGACGAAGTGAGTATTATACTCATGCTTAT
129 AGTTCTGAGTCTAGTAGTGAGGAAGATTCATCCTCTGACGAAGTGAGTATTATGCTCATGCTTAT
*
91291 AATATTAGCTTGGTTGAGAA
194 AATATTAGCATGGTTG-GAA
* *
91311 TATTCTTTTGCATGATTGTTAATGTTCAATTGTTTGTTTTATTCCAGGAAGCTCCTGCTCAGAAG
1 TATTCTTTTGCATGATTGTTAATGTTCAATTTTTTGTTTTATTCCAGGAAGCTCCTGCTCAGAAT
* * *
91376 AAAAAACCTGTAGTAGCTAAAAGTGGCTCTATACCAGCTGCTAAGACAGTGAAAGTTGATAGTAG
66 AAAAAACCTGTAGTAGCTAAAAGTGGCTCTGTTCCAGCTGCTAAGACAGTGAAAGCTGATAGTAG
* * * *
91441 TTCAGAGTCTAGTAGTGAGGAAGATTCATCCTCTGATGAAGTAAGTCTTATGCTCATG-TTATA
131 TTCTGAGTCTAGTAGTGAGGAAGATTCATCCTCTGACGAAGTGAGTATTATGCTCATGCTTATA
91504 TTAGCTTATT
Statistics
Matches: 678, Mismatches: 117, Indels: 61
0.79 0.14 0.07
Matches are distributed among these distances:
204 9 0.01
205 2 0.00
206 29 0.04
207 69 0.10
208 59 0.09
209 4 0.01
210 43 0.06
211 104 0.15
212 132 0.19
213 143 0.21
214 60 0.09
215 8 0.01
216 16 0.02
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (212 bp):
TATTCTTTTGCATGATTGTTAATGTTCAATTTTTTGTTTTATTCCAGGAAGCTCCTGCTCAGAAT
AAAAAACCTGTAGTAGCTAAAAGTGGCTCTGTTCCAGCTGCTAAGACAGTGAAAGCTGATAGTAG
TTCTGAGTCTAGTAGTGAGGAAGATTCATCCTCTGACGAAGTGAGTATTATGCTCATGCTTATAA
TATTAGCATGGTTGGAA
Found at i:95461 original size:21 final size:21
Alignment explanation
Indices: 95435--95474 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
95425 GGGGAAGAGA
* *
95435 TGGTGGTGGCCGTGGGGGTCG
1 TGGTGGTAGACGTGGGGGTCG
95456 TGGTGGTAGACGTGGGGGT
1 TGGTGGTAGACGTGGGGGT
95475 GGTCGATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.05, C:0.10, G:0.60, T:0.25
Consensus pattern (21 bp):
TGGTGGTAGACGTGGGGGTCG
Found at i:99484 original size:19 final size:22
Alignment explanation
Indices: 99443--99485 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
99433 TTTTTAATTA
*
99443 TCTTCTGCTTCTCTCTTTGTTT
1 TCTTCTGCTTCTCTCATTGTTT
*
99465 TCTTCT-CTTCT-TCATTTTTT
1 TCTTCTGCTTCTCTCATTGTTT
99485 T
1 T
99486 AATGTAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.02, C:0.26, G:0.05, T:0.67
Consensus pattern (22 bp):
TCTTCTGCTTCTCTCATTGTTT
Found at i:100962 original size:56 final size:55
Alignment explanation
Indices: 100876--100987 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 55
100866 CACCCTACCT
*
100876 ATCAGGCCATCATATGAAATTCAATTAGAGTTCTTTTTTAGTGCCTAAATAACATA
1 ATCAGGCCATCATATGAAATTCAATTAGAGTTC-TTTTTAGTCCCTAAATAACATA
100932 ATCAGGCCATCATATGAAATTCAATTAGAGTTCTTTTTAGTCCCTAAATAACATA
1 ATCAGGCCATCATATGAAATTCAATTAGAGTTCTTTTTAGTCCCTAAATAACATA
100987 A
1 A
100988 ATTCAGATAT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 22 0.40
56 33 0.60
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (55 bp):
ATCAGGCCATCATATGAAATTCAATTAGAGTTCTTTTTAGTCCCTAAATAACATA
Found at i:112435 original size:2 final size:2
Alignment explanation
Indices: 112428--112455 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
112418 ATACATGGTC
112428 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
112456 GCAAAGGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:124295 original size:22 final size:22
Alignment explanation
Indices: 124260--124304 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
124250 TATGCTAATC
* *
124260 GGATTGCTAGTGTTATTGGATT
1 GGATTGCCAGTGTTATCGGATT
* *
124282 GGATTGCCATTGTTCTCGGATT
1 GGATTGCCAGTGTTATCGGATT
124304 G
1 G
124305 AAATCATGCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.31, T:0.42
Consensus pattern (22 bp):
GGATTGCCAGTGTTATCGGATT
Found at i:127821 original size:24 final size:25
Alignment explanation
Indices: 127771--127821 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
127761 TGGTTTAACC
* *
127771 AAATAATTTAAATATAATTAAATAA
1 AAATAATTGAAATATAATAAAATAA
*
127796 AAATAA-TGAAATATAA-AAAATCA
1 AAATAATTGAAATATAATAAAATAA
127819 AAA
1 AAA
127822 CTAGCTGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 8 0.35
24 9 0.39
25 6 0.26
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATAATTGAAATATAATAAAATAA
Found at i:128271 original size:22 final size:23
Alignment explanation
Indices: 128246--128289 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
128236 ATCGTTTTAC
128246 TTTTATTTCATTATTA-TATTTT
1 TTTTATTTCATTATTATTATTTT
* *
128268 TTTTATTTTATTGTTATTATTT
1 TTTTATTTCATTATTATTATTT
128290 GGATATTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTTATTTCATTATTATTATTTT
Found at i:128279 original size:14 final size:14
Alignment explanation
Indices: 128215--128289 Score: 64
Period size: 14 Copynumber: 5.4 Consensus size: 14
128205 TTTTTTGCTA
*
128215 TATTATTATTATTAT
1 TATT-TTATTGTTAT
*
128230 TATTTTATCGTT-T
1 TATTTTATTGTTAT
*
128243 TACTTTTATT-TCAT
1 TA-TTTTATTGTTAT
* * *
128257 TATTATATTTTTTT
1 TATTTTATTGTTAT
128271 TATTTTATTGTTAT
1 TATTTTATTGTTAT
128285 TATTT
1 TATTT
128290 GGATATTGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
13 10 0.21
14 33 0.70
15 4 0.09
ACGTcount: A:0.23, C:0.04, G:0.03, T:0.71
Consensus pattern (14 bp):
TATTTTATTGTTAT
Found at i:130219 original size:13 final size:13
Alignment explanation
Indices: 130186--130235 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
130176 ATTTAAGAAT
130186 AATTTCAATATTT-
1 AATTT-AATATTTA
*
130199 AGTTTAATATTTA
1 AATTTAATATTTA
130212 AATTTAATATTTA
1 AATTTAATATTTA
130225 ATATTTAATAT
1 A-ATTTAATAT
130236 GATATTTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 7 0.21
13 17 0.52
14 9 0.27
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (13 bp):
AATTTAATATTTA
Found at i:130223 original size:7 final size:7
Alignment explanation
Indices: 130201--130235 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
130191 CAATATTTAG
130201 TTTAATA
1 TTTAATA
130208 TTTAA-A
1 TTTAATA
130214 TTTAATA
1 TTTAATA
130221 TTTAATA
1 TTTAATA
130228 TTTAATA
1 TTTAATA
130235 T
1 T
130236 GATATTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTAATA
Found at i:132831 original size:61 final size:61
Alignment explanation
Indices: 132734--132853 Score: 222
Period size: 61 Copynumber: 2.0 Consensus size: 61
132724 GGAAGCCAAC
132734 GTAAGTGCAAAGATAGTAGCATGAGTTTGTGATTGTTTTGGTTCTGGGCTAATTGCATTAG
1 GTAAGTGCAAAGATAGTAGCATGAGTTTGTGATTGTTTTGGTTCTGGGCTAATTGCATTAG
* *
132795 GTAAGTGCAATGATAGTAGCATGAGTTTGTGTTTGTTTTGGTTCTGGGCTAATTGCATT
1 GTAAGTGCAAAGATAGTAGCATGAGTTTGTGATTGTTTTGGTTCTGGGCTAATTGCATT
132854 TGTATCCTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.23, C:0.08, G:0.29, T:0.40
Consensus pattern (61 bp):
GTAAGTGCAAAGATAGTAGCATGAGTTTGTGATTGTTTTGGTTCTGGGCTAATTGCATTAG
Found at i:137919 original size:25 final size:25
Alignment explanation
Indices: 137866--137911 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
137856 GTTGAATCCA
137866 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAATTCTAAAAAGATAATTTG
*
137891 AATTAAA-TCTAAACA-ATAATT
1 AATTAAATTCTAAAAAGATAATT
137912 CCTTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTAAATTCTAAAAAGATAATTTG
Found at i:138965 original size:12 final size:13
Alignment explanation
Indices: 138944--138990 Score: 62
Period size: 12 Copynumber: 3.7 Consensus size: 13
138934 TATTTTTGTC
*
138944 TTTTTCTTCTC-T
1 TTTTTTTTCTCGT
138956 TTTTTTTTCTCGAT
1 TTTTTTTTCTCG-T
138970 TTTTTTTT-TCGT
1 TTTTTTTTCTCGT
138982 TTTTTTTTC
1 TTTTTTTTC
138991 ATTTTTTCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
12 19 0.61
13 3 0.10
14 9 0.29
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (13 bp):
TTTTTTTTCTCGT
Found at i:138995 original size:19 final size:19
Alignment explanation
Indices: 138969--139016 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
138959 TTTTTCTCGA
138969 TTTT-TTTTTTCG-TTTTT
1 TTTTCTTTTTTCGATTTTT
138986 TTTTCATTTTTTCGACTTTTT
1 TTTTC-TTTTTTCGA-TTTTT
139007 TTTTCTTTTT
1 TTTTCTTTTT
139017 CTAAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.15
19 8 0.30
20 5 0.19
21 10 0.37
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.81
Consensus pattern (19 bp):
TTTTCTTTTTTCGATTTTT
Found at i:139016 original size:11 final size:11
Alignment explanation
Indices: 138936--139016 Score: 56
Period size: 11 Copynumber: 7.2 Consensus size: 11
138926 CTCAGACATA
*
138936 TTTTTGTCTTT
1 TTTTTTTCTTT
* *
138947 TTCTTCTCTTT
1 TTTTTTTCTTT
138958 TTTTTTCTCGATTT
1 TTTTTT-TC--TTT
*
138972 TTTTTTTCGTT
1 TTTTTTTCTTT
*
138983 TTTTTTTCATT
1 TTTTTTTCTTT
***
138994 TTTTCGAC-TT
1 TTTTTTTCTTT
139004 TTTTTTTCTTT
1 TTTTTTTCTTT
139015 TT
1 TT
139017 CTAAATAATA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
10 7 0.13
11 34 0.63
12 2 0.04
13 2 0.04
14 9 0.17
ACGTcount: A:0.04, C:0.14, G:0.05, T:0.78
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:139017 original size:19 final size:17
Alignment explanation
Indices: 138969--139017 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 17
138959 TTTTTCTCGA
138969 TTTTT-TTTTTCGTTTT
1 TTTTTCTTTTTCGTTTT
138985 TTTTTCATTTTTTCGACTTTT
1 TTTTTC--TTTTTCG--TTTT
139006 TTTTTCTTTTTC
1 TTTTTCTTTTTC
139018 TAAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 5 0.18
19 13 0.46
21 10 0.36
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTTCGTTTT
Found at i:139957 original size:11 final size:11
Alignment explanation
Indices: 139941--139979 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
139931 AGTGTTTAAT
139941 TAAAATAAAAA
1 TAAAATAAAAA
*
139952 TAAAATAAAAC
1 TAAAATAAAAA
139963 TAAAAATAAAAA
1 T-AAAATAAAAA
139975 TAAAA
1 TAAAA
139980 ATGAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:139990 original size:6 final size:6
Alignment explanation
Indices: 139942--139987 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
139932 GTGTTTAATT
* *
139942 AAAATA AAAAT- AAAATA AAACTA AAAATA AAAATA AAAATG AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
139988 GAATAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
5 5 0.14
6 31 0.86
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:142071 original size:12 final size:13
Alignment explanation
Indices: 142042--142071 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
142032 AATAAAATAA
142042 AAAAATTAAATGT
1 AAAAATTAAATGT
142055 AAAAATTAAAT-T
1 AAAAATTAAATGT
142067 AAAAA
1 AAAAA
142072 CAAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (13 bp):
AAAAATTAAATGT
Found at i:143219 original size:25 final size:25
Alignment explanation
Indices: 143166--143211 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
143156 ATTGGATCCA
143166 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAATTCTAAAAAGATAATTTG
*
143191 AATTAAATT-TAAACA-ATAATT
1 AATTAAATTCTAAAAAGATAATT
143212 CTCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (25 bp):
AATTAAATTCTAAAAAGATAATTTG
Found at i:143298 original size:13 final size:13
Alignment explanation
Indices: 143277--143310 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
143267 ACAATATAAT
143277 AATAATAATCCTA
1 AATAATAATCCTA
*
143290 AATATTAATCCTA
1 AATAATAATCCTA
*
143303 AAAAATAA
1 AATAATAA
143311 AATTTAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (13 bp):
AATAATAATCCTA
Found at i:144356 original size:20 final size:21
Alignment explanation
Indices: 144317--144356 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
144307 TATAATTACA
* *
144317 TAAATGTGTGTGTTTGATTCT
1 TAAATGTATGTGTGTGATTCT
144338 TAAATGTAT-TGTGTGATTC
1 TAAATGTATGTGTGTGATTC
144357 GTGAACAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.50
Consensus pattern (21 bp):
TAAATGTATGTGTGTGATTCT
Found at i:149278 original size:17 final size:18
Alignment explanation
Indices: 149256--149290 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
149246 GGAATTTTTA
*
149256 TTTTAAATATAT-ATTAT
1 TTTTAAAAATATAATTAT
149273 TTTTAAAAATATAATTAT
1 TTTTAAAAATATAATTAT
149291 ATATTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTAAAAATATAATTAT
Found at i:149609 original size:35 final size:35
Alignment explanation
Indices: 149570--149636 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
149560 TATATACACA
* *
149570 AAAATATA-AAAATGGAAATAAATAAATAAATTCAG
1 AAAATATATAAAATGCAAA-AAACAAATAAATTCAG
*
149605 AAAATATATAAAATGCAAAAAACATATAAATT
1 AAAATATATAAAATGCAAAAAACAAATAAATT
149637 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 19 0.68
36 9 0.32
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (35 bp):
AAAATATATAAAATGCAAAAAACAAATAAATTCAG
Found at i:149615 original size:17 final size:17
Alignment explanation
Indices: 149569--149636 Score: 55
Period size: 18 Copynumber: 3.9 Consensus size: 17
149559 GTATATACAC
* **
149569 AAAAATATAAAAATGGA
1 AAAAATATATAAATTCA
*
149586 AATAAATAAATAAATTCA
1 AA-AAATATATAAATTCA
* *
149604 GAAAATATATAAAATGCA
1 AAAAATATAT-AAATTCA
*
149622 AAAAACATATAAATT
1 AAAAATATATAAATT
149637 ATAAAAAAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
17 13 0.33
18 26 0.67
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAAATATATAAATTCA
Found at i:150229 original size:25 final size:25
Alignment explanation
Indices: 150169--150232 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 25
150159 TAAAAAAAAC
150169 ATATATAATATATAAAAAAATTTGAAA
1 ATATATAAT-TAT-AAAAAATTTGAAA
*
150196 ATAT-T--TTATATAAAATTCT-AAA
1 ATATATAATTATAAAAAATT-TGAAA
150218 ATATATAATTATAAA
1 ATATATAATTATAAA
150233 TTTTAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
22 14 0.45
23 5 0.16
24 1 0.03
25 6 0.19
26 1 0.03
27 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
ATATATAATTATAAAAAATTTGAAA
Found at i:155851 original size:29 final size:28
Alignment explanation
Indices: 155819--155891 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 28
155809 AATTCATTAT
155819 AAAATATTGTAGTTTTAAAAATTATTTA-A
1 AAAATATTGTAGTTTT--AAATTATTTAGA
*
155848 AAAA-A-TGATATGTTTTAGATTATTTAGA
1 AAAATATTG-TA-GTTTTAAATTATTTAGA
*
155876 AAAATATTATAGTTTT
1 AAAATATTGTAGTTTT
155892 CTCTCACATA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
27 11 0.30
28 13 0.35
29 12 0.32
30 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (28 bp):
AAAATATTGTAGTTTTAAATTATTTAGA
Found at i:164851 original size:13 final size:13
Alignment explanation
Indices: 164833--164858 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
164823 CCCGAAAAAC
164833 AAAATTGTCATCT
1 AAAATTGTCATCT
164846 AAAATTGTCATCT
1 AAAATTGTCATCT
164859 TTTCCAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAATTGTCATCT
Found at i:165308 original size:36 final size:36
Alignment explanation
Indices: 165232--165309 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
165222 TAAGGAGCTC
* *
165232 GCCAATCTTAGAGGGTTCACCAATCTAGTTGAGTTC
1 GCCAATCTTAGAGGGTTCACCAATCTAGATGAGTTA
* * * *
165268 GCCAATCTTGGCA-GGTTCACCGATCTTGATGTGTTA
1 GCCAATCTTAG-AGGGTTCACCAATCTAGATGAGTTA
165304 GCCAAT
1 GCCAAT
165310 TTTTAAAGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (36 bp):
GCCAATCTTAGAGGGTTCACCAATCTAGATGAGTTA
Found at i:166203 original size:14 final size:14
Alignment explanation
Indices: 166184--166211 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
166174 CCGTTATAAT
166184 TAACCACTATAAGA
1 TAACCACTATAAGA
166198 TAACCACTATAAGA
1 TAACCACTATAAGA
166212 ACTATCCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
TAACCACTATAAGA
Done.