Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003011.1 Hibiscus syriacus cultivar Beakdansim tig00006239_pilon, 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: 127151
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:124 original size:41 final size:41
Alignment explanation
Indices: 54--348 Score: 256
Period size: 41 Copynumber: 7.2 Consensus size: 41
44 TAAACACAAC
* **
54 CGCCACTAAAGTACGAGTCGTTAGCGGCGTTTGTACAAAAA
1 CGCCACTAAAGAACGAGTTTTTAGCGGCGTTTGTACAAAAA
* ** *
95 CGCCACTAATGAACTCGTTTTTAGTGGCGTTTGTACAAAAAA
1 CGCCACTAAAGAACGAGTTTTTAGCGGCGTTTGTAC-AAAAA
* * **
137 CGCCACTAAAGTACGAGTTATTAGCGATGTTTGTACAAAAA
1 CGCCACTAAAGAACGAGTTTTTAGCGGCGTTTGTACAAAAA
* * ** *
178 CACCACTAATGAACTCGTTTTTAGCGGCATTTGTACAAAAAAA
1 CGCCACTAAAGAACGAGTTTTTAGCGGCGTTTGTAC--AAAAA
* * * *
221 CGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAC
1 CGCCACTAAAGAACGAGTTTTTAGCGGCGTTTGTACAAAAA
* ** * * * * *
262 CCCCACTAAATTA-TAATCTTTAGCGGCGTTTATATAAAAA
1 CGCCACTAAAGAACGAGTTTTTAGCGGCGTTTGTACAAAAA
* *
302 CGCCACTAAA-ATATGAGTATTTAGCGGCGTTT-TA-AAAAA
1 CGCCACTAAAGA-ACGAGTTTTTAGCGGCGTTTGTACAAAAA
341 CGCCACTA
1 CGCCACTA
349 TAGCACATGT
Statistics
Matches: 205, Mismatches: 44, Indels: 12
0.79 0.17 0.05
Matches are distributed among these distances:
39 13 0.06
40 35 0.17
41 91 0.44
42 33 0.16
43 33 0.16
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (41 bp):
CGCCACTAAAGAACGAGTTTTTAGCGGCGTTTGTACAAAAA
Found at i:153 original size:83 final size:83
Alignment explanation
Indices: 54--348 Score: 361
Period size: 83 Copynumber: 3.6 Consensus size: 83
44 TAAACACAAC
*
54 CGCCACTAAAGTACGAGTCGTTAGCGGCGTTTGTACAAAAACGCCACTAATGAACTCGTTTTTAG
1 CGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTACAAAAACGCCACTAATGAACTCGTTTTTAG
*
119 TGGCGTTTGTACAAAAAA
66 CGGCGTTTGTACAAAAAA
** *
137 CGCCACTAAAGTACGAGT-TATTAGCGATGTTTGTACAAAAACACCACTAATGAACTCGTTTTTA
1 CGCCACTAAAGTACGAGTCT-TTAGCGGCGTTTGTACAAAAACGCCACTAATGAACTCGTTTTTA
*
201 GCGGCATTTGTACAAAAAAA
65 GCGGCGTTTGTAC-AAAAAA
* * * * *
221 CGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAACCCCCACTAAATTATAATC---TTT
1 CGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTACAAAAACGCCACT-AATGA-ACTCGTTTTT
* *
283 AGCGGCGTTTATA-TAAAAA
64 AGCGGCGTTTGTACAAAAAA
* * *
302 CGCCACTAAAATATGAGTATTTAGCGGCGTTT-TA-AAAAACGCCACTA
1 CGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTACAAAAACGCCACTA
349 TAGCACATGT
Statistics
Matches: 186, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 10 0.05
80 2 0.01
81 34 0.18
83 84 0.45
84 47 0.25
85 5 0.03
86 3 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (83 bp):
CGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTACAAAAACGCCACTAATGAACTCGTTTTTAG
CGGCGTTTGTACAAAAAA
Found at i:282 original size:40 final size:40
Alignment explanation
Indices: 223--341 Score: 132
Period size: 40 Copynumber: 3.0 Consensus size: 40
213 CAAAAAAACG
* * *
223 CCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAACCC
1 CCACTAAAATATGAATCTTTAGCGGCGTTT-TATAAAACCC
* * *
264 CCACTAAATTAT-AATCTTTAGCGGCGTTTATATAAAAACG
1 CCACTAAAATATGAATCTTTAGCGGCGTTT-TATAAAACCC
* * *
304 CCACTAAAATATGAGTATTTAGCGGCGTTTTAAAAAAC
1 CCACTAAAATATGAATCTTTAGCGGCGTTTTATAAAAC
342 GCCACTATAG
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 41 0.62
41 25 0.38
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (40 bp):
CCACTAAAATATGAATCTTTAGCGGCGTTTTATAAAACCC
Found at i:10592 original size:23 final size:23
Alignment explanation
Indices: 10562--10621 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
10552 GGGCGCTATA
10562 CCTATAAATACCCCCCAAACCTC
1 CCTATAAATACCCCCCAAACCTC
*
10585 CCTATAAATACCCCCCTAACCTC
1 CCTATAAATACCCCCCAAACCTC
10608 CCTATAAATACCCC
1 CCTATAAATACCCC
10622 ATCCTCTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (23 bp):
CCTATAAATACCCCCCAAACCTC
Found at i:10753 original size:17 final size:18
Alignment explanation
Indices: 10717--10757 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10707 ATATTATGTA
*
10717 TTTAATTTATTTAAGCAT
1 TTTACTTTATTTAAGCAT
*
10735 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGCAT
10752 TTTACT
1 TTTACT
10758 AATATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGCAT
Found at i:15402 original size:22 final size:22
Alignment explanation
Indices: 15372--15422 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
15362 GATTCAACCT
15372 AATTTTTTTTAT-TTTTTATTA
1 AATTTTTTTTATATTTTTATTA
* *
15393 AATATTTTTTATATTTTTATTT
1 AATTTTTTTTATATTTTTATTA
15415 AATTTTTT
1 AATTTTTT
15423 AAATAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (22 bp):
AATTTTTTTTATATTTTTATTA
Found at i:15407 original size:23 final size:22
Alignment explanation
Indices: 15376--15422 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
15366 CAACCTAATT
15376 TTTTTTAT-TTTTTATTAAATA
1 TTTTTTATATTTTTATTAAATA
*
15397 TTTTTTATATTTTTATTTAAT-
1 TTTTTTATATTTTTATTAAATA
15418 TTTTT
1 TTTTT
15423 AAATAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTTATATTTTTATTAAATA
Found at i:16245 original size:12 final size:11
Alignment explanation
Indices: 16226--16277 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
16216 TTATTTTTTA
16226 AAAAATA-AAT
1 AAAAATATAAT
16236 AAAAATATAAT
1 AAAAATATAAT
16247 AAAAATA-AAT
1 AAAAATATAAT
16257 -AAAAT-TCAAT
1 AAAAATAT-AAT
*
16267 AAACATATAAT
1 AAAAATATAAT
16278 GTAAAGCTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
9 5 0.14
10 13 0.36
11 17 0.47
12 1 0.03
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAAATATAAT
Found at i:16269 original size:10 final size:10
Alignment explanation
Indices: 16226--16260 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
16216 TTATTTTTTA
16226 AAAAATAAAT
1 AAAAATAAAT
16236 AAAAATATAAT
1 AAAAATA-AAT
16247 AAAAATAAAT
1 AAAAATAAAT
16257 AAAA
1 AAAA
16261 TTCAATAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:17533 original size:11 final size:10
Alignment explanation
Indices: 17519--17558 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
17509 TTTATATTAT
*
17519 ATTTTTATTG
1 ATTTTTATTC
*
17529 AATTTTATTC
1 ATTTTTATTC
17539 ATTTTTAATTC
1 ATTTTT-ATTC
17550 ATTTTTATT
1 ATTTTTATT
17559 GTATTTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:17537 original size:21 final size:21
Alignment explanation
Indices: 17513--17569 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
17503 TTAGTTTTTA
*
17513 TATTATATTTTTATTGAATTT
1 TATTATATTTTTATTCAATTT
* *
17534 TATTCAT-TTTTAATTCATTTT
1 TATT-ATATTTTTATTCAATTT
* *
17555 TATTGTATTTGTATT
1 TATTATATTTTTATT
17570 TATTTTTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
20 1 0.04
21 25 0.89
22 2 0.07
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.67
Consensus pattern (21 bp):
TATTATATTTTTATTCAATTT
Found at i:17564 original size:11 final size:10
Alignment explanation
Indices: 17500--17576 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 10
17490 GATATGATAT
*
17500 TTTTTAGTT-
1 TTTTTATTTA
*
17509 TTTATATTATA
1 TTTTTATT-TA
*
17520 TTTTTATTGA
1 TTTTTATTTA
* *
17530 ATTTTATTCA
1 TTTTTATTTA
*
17540 TTTTTAATTCA
1 TTTTT-ATTTA
17551 TTTTTATTGTA
1 TTTTTATT-TA
*
17562 TTTGTATTTA
1 TTTTTATTTA
17572 TTTTT
1 TTTTT
17577 TAAAAAGTGA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
9 6 0.11
10 23 0.43
11 25 0.46
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (10 bp):
TTTTTATTTA
Found at i:24798 original size:12 final size:12
Alignment explanation
Indices: 24716--24798 Score: 57
Period size: 12 Copynumber: 6.8 Consensus size: 12
24706 TAACTGCAAA
24716 AAATAAAATAATT
1 AAATAAAAT-ATT
* *
24729 ACATAAAATACT
1 AAATAAAATATT
24741 -AA-AAAA-ATT
1 AAATAAAATATT
24750 AAATGATACAATAATT
1 AAAT-A-A-AAT-ATT
*
24766 AAATAAAATACT
1 AAATAAAATATT
24778 -AATAAAATATT
1 AAATAAAATATT
*
24789 AAATAGAATA
1 AAATAAAATA
24799 AAATATACCT
Statistics
Matches: 55, Mismatches: 7, Indels: 17
0.70 0.09 0.22
Matches are distributed among these distances:
9 2 0.04
10 6 0.11
11 11 0.20
12 13 0.24
13 12 0.22
14 3 0.05
15 1 0.02
16 7 0.13
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (12 bp):
AAATAAAATATT
Found at i:28091 original size:21 final size:22
Alignment explanation
Indices: 28046--28096 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
28036 TTTTCCAGAT
28046 TGCTACAGGGTACCGATTCCCC
1 TGCTACAGGGTACCGATTCCCC
*
28068 TGCTATAGGGTACCGATT-CCC
1 TGCTACAGGGTACCGATTCCCC
28089 TGCTACAG
1 TGCTACAG
28097 TACTGCTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.25
Consensus pattern (22 bp):
TGCTACAGGGTACCGATTCCCC
Found at i:28546 original size:29 final size:29
Alignment explanation
Indices: 28512--28569 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
28502 TGATTATCTT
*
28512 CTTATCATTATCAT-TATTATCATTAATAC
1 CTTATCA-TATCATATACTATCATTAATAC
*
28541 CTTATCATATCATATACTATCATTTATAC
1 CTTATCATATCATATACTATCATTAATAC
28570 ATATATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (29 bp):
CTTATCATATCATATACTATCATTAATAC
Found at i:28871 original size:18 final size:17
Alignment explanation
Indices: 28848--28886 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
28838 ACTGAATATT
28848 TATCCCGAAGGACCACTA
1 TATCCCGAAGGACCAC-A
28866 TATCCCGAAGGACCACA
1 TATCCCGAAGGACCACA
28883 TATC
1 TATC
28887 ACATTTGTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.33, C:0.33, G:0.15, T:0.18
Consensus pattern (17 bp):
TATCCCGAAGGACCACA
Found at i:29927 original size:20 final size:20
Alignment explanation
Indices: 29898--29936 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29888 TTTTTTCTTT
29898 AGGGGAAATC-GATACCCCCC
1 AGGGGAAATCTG-TACCCCCC
*
29918 AGGGGGAATCTGTACCCCC
1 AGGGGAAATCTGTACCCCC
29937 TGCATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.13
Consensus pattern (20 bp):
AGGGGAAATCTGTACCCCCC
Found at i:31235 original size:27 final size:27
Alignment explanation
Indices: 31173--31248 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
31163 TGTTTAAGGT
* *
31173 ATATTTTA-TTATATTTAGTATTTTGTTA
1 ATATTTTATTTAAATTTA--ATTTTATTA
* *
31201 GTAATTTATTTAAATTTAATTTTATTA
1 ATATTTTATTTAAATTTAATTTTATTA
31228 ATATTTTATTT-AA-TTAATTTT
1 ATATTTTATTTAAATTTAATTTT
31249 TTTTACATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
25 8 0.20
26 2 0.05
27 17 0.41
28 6 0.15
29 8 0.20
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (27 bp):
ATATTTTATTTAAATTTAATTTTATTA
Found at i:31250 original size:16 final size:16
Alignment explanation
Indices: 31204--31253 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
31194 TTTGTTAGTA
* *
31204 ATTTATTTAA-ATTTA
1 ATTTAATTAATATTTT
*
31219 ATTTTATTAATATTTT
1 ATTTAATTAATATTTT
31235 ATTTAATTAAT-TTTT
1 ATTTAATTAATATTTT
31250 -TTTA
1 ATTTA
31254 CATATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 4 0.13
15 12 0.40
16 14 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTAATTAATATTTT
Found at i:33578 original size:34 final size:34
Alignment explanation
Indices: 33489--33578 Score: 101
Period size: 34 Copynumber: 2.6 Consensus size: 34
33479 TCATTAAATA
* **
33489 CTTACTTTATTTTGTTAATTTGGTTGAATTTTTT
1 CTTAATTTATTTTGTTAATTTTATTGAATTTTTT
* * *
33523 -TAAAATTTATTTTGTTTATTTTATTGGATTTTTT
1 CT-TAATTTATTTTGTTAATTTTATTGAATTTTTT
*
33557 CTTAATTTATTTTGATAATTTT
1 CTTAATTTATTTTGTTAATTTT
33579 GTTTATTACC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
33 1 0.02
34 43 0.96
35 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.09, T:0.66
Consensus pattern (34 bp):
CTTAATTTATTTTGTTAATTTTATTGAATTTTTT
Found at i:37317 original size:23 final size:23
Alignment explanation
Indices: 37291--37355 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
37281 CAGCTCATAT
37291 AATTGCACCGAAGTGCCATGTAG
1 AATTGCACCGAAGTGCCATGTAG
* **
37314 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCATGTAG
*
37337 AATTGCACCGTAGTGCCAT
1 AATTGCACCGAAGTGCCAT
37356 ATAATAATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCATGTAG
Found at i:37541 original size:103 final size:100
Alignment explanation
Indices: 37362--37585 Score: 340
Period size: 103 Copynumber: 2.2 Consensus size: 100
37352 CCATATAATA
* *
37362 ATGTCCATAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTG
1 ATGTCCA-AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
* *
37427 TATCGCCAGACTTCACACATGTTCTAAAGAATACATAT
65 TATCACCAGACTTCACACATGTTCCAAAGAATAC--AT
*
37465 ATGTCTCAAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
1 ATGTC-CAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
*
37530 TCTCACCAGACTTCACACATGTTCCAAAGAATACAT
65 TATCACCAGACTTCACACATGTTCCAAAGAATACAT
*
37566 ATGTCCCGAAGGACCACATA
1 ATGT-CCAAAGGACCACATA
37586 GACCCTCGAC
Statistics
Matches: 112, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
101 19 0.17
102 1 0.01
103 90 0.80
104 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (100 bp):
ATGTCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGT
ATCACCAGACTTCACACATGTTCCAAAGAATACAT
Found at i:47420 original size:2 final size:2
Alignment explanation
Indices: 47413--47453 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
47403 AATTTTGGTT
47413 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47454 TAAAGAAGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47706 original size:39 final size:39
Alignment explanation
Indices: 47626--47939 Score: 272
Period size: 39 Copynumber: 7.9 Consensus size: 39
47616 TAAAATAATT
* *
47626 TTTTTAGAAAACGATTTTTGAAAATGTATAT-AT-TATCTAG
1 TTTTTA-AAAAC-A-TTTTGAAAATATATATAATATATATAG
* *
47666 TTTTTGAAAACATCTTGAAAATATATATAATATATATAG
1 TTTTTAAAAACATTTTGAAAATATATATAATATATATAG
*
47705 TTTTTAAAAACATTTTGAAAACATATAT-ATAATATATAG
1 TTTTTAAAAACATTTTGAAAATATATATAAT-ATATATAG
* *
47744 TTTTTAAAAATATTTTTAAAACTTATATATATATATATATA-
1 TTTTTAAAAACATTTTGAAAA--TATATATA-ATATATATAG
* * * *
47785 TAGTTTTGAAATCATTTTAAAAAAATTTATATAATATAT-T-G
1 T--TTTTAAAAACATTTT--GAAAATATATATAATATATATAG
*
47826 TTTTTTTAAAAATATTTTGAAAATATATATAATATAT-T-G
1 --TTTTTAAAAACATTTTGAAAATATATATAATATATATAG
*
47865 TTTTTTTAAAAACATTTTGAAAATATATATAGTATATACT--
1 --TTTTTAAAAACATTTTGAAAATATATATAATATATA-TAG
* *
47905 TTTTAAAAAACATTTTGAAAA-CTATATAATATATA
1 TTTTTAAAAACATTTTGAAAATATATATAATATATA
47940 GTTTTGAATA
Statistics
Matches: 233, Mismatches: 25, Indels: 35
0.80 0.09 0.12
Matches are distributed among these distances:
37 26 0.11
38 25 0.11
39 117 0.50
40 5 0.02
41 21 0.09
42 13 0.06
43 22 0.09
45 4 0.02
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (39 bp):
TTTTTAAAAACATTTTGAAAATATATATAATATATATAG
Found at i:52686 original size:20 final size:21
Alignment explanation
Indices: 52647--52687 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
52637 TTTTTCACGG
*
52647 GAGAAGAAATAATTGATGCAT
1 GAGAACAAATAATTGATGCAT
*
52668 GAGAACAAA-AATTGTTGCAT
1 GAGAACAAATAATTGATGCAT
52688 TATCATAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (21 bp):
GAGAACAAATAATTGATGCAT
Found at i:52821 original size:21 final size:21
Alignment explanation
Indices: 52795--52838 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
52785 TAATATTTAA
*
52795 ATTAGTTTGTTAGTTTAAATT
1 ATTAGTTTATTAGTTTAAATT
*
52816 ATTAGTTTATTAGTTTAAGTT
1 ATTAGTTTATTAGTTTAAATT
52837 AT
1 AT
52839 ATTATATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (21 bp):
ATTAGTTTATTAGTTTAAATT
Found at i:54483 original size:31 final size:31
Alignment explanation
Indices: 54445--54568 Score: 124
Period size: 31 Copynumber: 4.0 Consensus size: 31
54435 CCTCGGCAAC
* *
54445 TGTCCATAGGTCCCAAAGAACCTAGGTAAAT
1 TGTCCATATGTCCCAAAGAACATAGGTAAAT
* ** *
54476 TGTCCATATGTTCCTTAGAACATAGGTATAT
1 TGTCCATATGTCCCAAAGAACATAGGTAAAT
* *
54507 TGTCCATATGTCCTGAAAG-ACATAGGTAATT
1 TGTCCATATGTCC-CAAAGAACATAGGTAAAT
* **
54538 ATGTCCATATGTTCCGTAGAACATAGGTAAA
1 -TGTCCATATGTCCCAAAGAACATAGGTAAA
54569 CCCTCGACTC
Statistics
Matches: 73, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
31 49 0.67
32 24 0.33
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (31 bp):
TGTCCATATGTCCCAAAGAACATAGGTAAAT
Found at i:54548 original size:63 final size:62
Alignment explanation
Indices: 54445--54566 Score: 174
Period size: 63 Copynumber: 2.0 Consensus size: 62
54435 CCTCGGCAAC
* *
54445 TGTCCATAGGTCCCAAAGAACCTAGGTAAATTGTCCATATGTTCCTTAGAACATAGGTATAT
1 TGTCCATAGGTCCCAAAGAACATAGGTAAATTGTCCATATGTTCCGTAGAACATAGGTATAT
* * *
54507 TGTCCATATGTCCTGAAAG-ACATAGGTAATTATGTCCATATGTTCCGTAGAACATAGGTA
1 TGTCCATAGGTCC-CAAAGAACATAGGTAAAT-TGTCCATATGTTCCGTAGAACATAGGTA
54567 AACCCTCGAC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
62 22 0.42
63 31 0.58
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (62 bp):
TGTCCATAGGTCCCAAAGAACATAGGTAAATTGTCCATATGTTCCGTAGAACATAGGTATAT
Found at i:57361 original size:30 final size:30
Alignment explanation
Indices: 57325--57414 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
57315 CCAGAAGGAC
*
57325 CTATCCAAAGGTCACAAGGAACCTCGGTAA
1 CTATCCAAAGGTCACAAAGAACCTCGGTAA
* * * *
57355 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAAAGGTCACAAAGAACCTCGGTAA
* * *
57385 CTGTCCATAGGTTC-CAAAGAACCTAGGTAA
1 CTATCCAAAGG-TCACAAAGAACCTCGGTAA
57415 ACTGTCCATA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
30 46 0.96
31 2 0.04
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (30 bp):
CTATCCAAAGGTCACAAAGAACCTCGGTAA
Found at i:57418 original size:31 final size:31
Alignment explanation
Indices: 57383--57507 Score: 117
Period size: 31 Copynumber: 4.0 Consensus size: 31
57373 GATCCTCGGC
*
57383 AACTGTCCATAGGTTCCAAAGAACCTAGGTA
1 AACTGTCCATAGGTTCCAAAGAACATAGGTA
* **
57414 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATAGGTTCCAAAGAACATAGGTA
* ** *
57445 TACTGTCCATATATCTCGAAAG-ACATAGGTA
1 AACTGTCCATAGGT-TCCAAAGAACATAGGTA
* * **
57476 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATAGGTTCCAAAGAACATAGGTA
57508 CCCTCGACTC
Statistics
Matches: 76, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
31 52 0.68
32 24 0.32
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (31 bp):
AACTGTCCATAGGTTCCAAAGAACATAGGTA
Found at i:58207 original size:2 final size:2
Alignment explanation
Indices: 58202--58245 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
58192 ATCCTTATCC
58202 AT AT AT AT AT AT 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 AT AT AT AT AT AT
58244 AT
1 AT
58246 CATTATTTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62077 original size:21 final size:21
Alignment explanation
Indices: 62048--62091 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
62038 GTTATAAAAT
62048 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
62069 ATAATTTAAATTAACAAACTA
1 ATAACTTAAACTAACAAACTA
62090 AT
1 AT
62092 TTAAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:62229 original size:21 final size:21
Alignment explanation
Indices: 62199--62240 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
62189 TGCTGCAATA
* *
62199 ATGCAACAATTTTTTGTTCTC
1 ATGCAACAATTATTTCTTCTC
*
62220 ATGCATCAATTATTTCTTCTC
1 ATGCAACAATTATTTCTTCTC
62241 CAATGAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (21 bp):
ATGCAACAATTATTTCTTCTC
Found at i:64312 original size:22 final size:22
Alignment explanation
Indices: 64256--64314 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
64246 TGGTAAATAA
* *
64256 TTTTTTAAATGAG-GTTAATTT
1 TTTTTTAAAAGGGTGTTAATTT
*
64277 CTTTTTAAAAGGGTGTTAATTT
1 TTTTTTAAAAGGGTGTTAATTT
*
64299 TTTTTTAAACGGGTGT
1 TTTTTTAAAAGGGTGT
64315 CATTTTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 10 0.31
22 22 0.69
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (22 bp):
TTTTTTAAAAGGGTGTTAATTT
Found at i:66296 original size:33 final size:32
Alignment explanation
Indices: 66256--66345 Score: 110
Period size: 31 Copynumber: 2.8 Consensus size: 32
66246 AAAATTAAGA
66256 TACTAAAATGAAAGAAAAAGTTAACTGCGGGGG
1 TACTAAAATGAAAGAAAAAGTTAACTG-GGGGG
* * * * *
66289 TATTAAAATGAAACAAAAAGATAAC-GGTGTG
1 TACTAAAATGAAAGAAAAAGTTAACTGGGGGG
*
66320 TACTAAAATGAAAGAAAAAGTGAACT
1 TACTAAAATGAAAGAAAAAGTTAACT
66346 TTAGGTATGA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
31 24 0.51
32 1 0.02
33 22 0.47
ACGTcount: A:0.51, C:0.08, G:0.21, T:0.20
Consensus pattern (32 bp):
TACTAAAATGAAAGAAAAAGTTAACTGGGGGG
Found at i:66330 original size:31 final size:33
Alignment explanation
Indices: 66256--66339 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
66246 AAAATTAAGA
*
66256 TACTAAAATGAAAGAAAAAGTTAACTGCGGGGG
1 TACTAAAATGAAAGAAAAAGATAACTGCGGGGG
* * * *
66289 TATTAAAATGAAACAAAAAGATAAC-G-GTGTG
1 TACTAAAATGAAAGAAAAAGATAACTGCGGGGG
66320 TACTAAAATGAAAGAAAAAG
1 TACTAAAATGAAAGAAAAAG
66340 TGAACTTTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 21 0.48
32 1 0.02
33 22 0.50
ACGTcount: A:0.52, C:0.07, G:0.21, T:0.19
Consensus pattern (33 bp):
TACTAAAATGAAAGAAAAAGATAACTGCGGGGG
Found at i:67713 original size:30 final size:30
Alignment explanation
Indices: 67677--67737 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
67667 TGATTAAAGA
67677 AAGACAAGCATTATTTATAATCGGAAGTGT
1 AAGACAAGCATTATTTATAATCGGAAGTGT
*
67707 AAGACAAGCATTATTTATAATTGGAAGTGT
1 AAGACAAGCATTATTTATAATCGGAAGTGT
67737 A
1 A
67738 GTGTGTGGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (30 bp):
AAGACAAGCATTATTTATAATCGGAAGTGT
Found at i:74936 original size:56 final size:56
Alignment explanation
Indices: 74850--74965 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
74840 TAATCACTGA
74850 AATTTTGTGATATTTATTTTACTCACTAATAACTCTTTTATTATTATATTAGTGAT
1 AATTTTGTGATATTTATTTTACTCACTAATAACTCTTTTATTATTATATTAGTGAT
*
74906 AATTTTGTGATATTTATTTTACTCACTAATAACTCTTTTATTATTATATTAGTTAT
1 AATTTTGTGATATTTATTTTACTCACTAATAACTCTTTTATTATTATATTAGTGAT
74962 AATT
1 AATT
74966 ATACTTTTTA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (56 bp):
AATTTTGTGATATTTATTTTACTCACTAATAACTCTTTTATTATTATATTAGTGAT
Found at i:81087 original size:12 final size:12
Alignment explanation
Indices: 81070--81111 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
81060 TTGGTTAGTA
81070 AATAATATATAT
1 AATAATATATAT
*
81082 AATAATATAAAT
1 AATAATATATAT
81094 AATAATATATA-
1 AATAATATATAT
81105 AATAATA
1 AATAATA
81112 ATAAAGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AATAATATATAT
Found at i:81105 original size:14 final size:14
Alignment explanation
Indices: 81070--81114 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
81060 TTGGTTAGTA
81070 AATAATATAT--AT
1 AATAATATATAAAT
81082 AAT-A-ATATAAAT
1 AATAATATATAAAT
81094 AATAATATATAAAT
1 AATAATATATAAAT
81108 AATAATA
1 AATAATA
81115 AAGAGAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.14
11 1 0.03
12 8 0.28
13 1 0.03
14 15 0.52
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATAATATATAAAT
Found at i:81126 original size:26 final size:26
Alignment explanation
Indices: 81074--81126 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
81064 TTAGTAAATA
* * *
81074 ATATATATAATAATATAAATAATAAT
1 ATATAAATAATAATATAAAGAAGAAT
81100 ATATAAATAATAATA-AAGAGAAGAAT
1 ATATAAATAATAATATAA-AGAAGAAT
81126 A
1 A
81127 AAAAATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (26 bp):
ATATAAATAATAATATAAAGAAGAAT
Found at i:83489 original size:103 final size:103
Alignment explanation
Indices: 83145--83840 Score: 1151
Period size: 103 Copynumber: 6.8 Consensus size: 103
83135 GGTTAACAGT
*** *
83145 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
83210 TTGAAATTGGCTCTGAAATTGAGAAATGTTGTTGACAAC
66 TTGAAATTGGCTCTGAAATTGAGAAAT-TTGTTGACAAC
83249 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC-A-A---TTC-TTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* * *
83308 TTGAAATTGGCTCTGACATTGAG-AATATTATT-AAAAC
66 TTGAAATTGGCTCTGAAATTGAGAAAT-TTGTTGACAAC
83345 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
83410 TTGAAATTGGCTCTGAAATTGAGAAATTTGTTGACAAC
66 TTGAAATTGGCTCTGAAATTGAGAAATTTGTTGACAAC
83448 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
83513 TTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
66 TTGAAATTGGCTCTGAAATTGAG-AA-ATTTGTTGACAAC
*
83553 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGTCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
83618 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
66 TTGAAATTGGCTCTGAAATTGAGAAA--TTTGTTGACAAC
*
83658 TAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
83723 TTGAAA-TGGCTCTGAAA-TGAGAAATGTTTGTTGACAAC
66 TTGAAATTGGCTCTGAAATTGAGAAA--TTTGTTGACAAC
* *
83761 TAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
83826 TTGAAATTGGCTCTG
66 TTGAAATTGGCTCTG
83841 GGTAAAACCT
Statistics
Matches: 564, Mismatches: 15, Indels: 26
0.93 0.02 0.04
Matches are distributed among these distances:
96 50 0.09
97 8 0.01
98 31 0.05
99 3 0.01
101 3 0.01
102 35 0.06
103 188 0.33
104 65 0.12
105 181 0.32
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (103 bp):
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCTCTGAAATTGAGAAATTTGTTGACAAC
Found at i:83610 original size:208 final size:208
Alignment explanation
Indices: 83145--83840 Score: 1180
Period size: 208 Copynumber: 3.4 Consensus size: 208
83135 GGTTAACAGT
*** *
83145 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
83210 TTGAAATTGGCTCTGAAATTGAGAAATGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
66 TTGAAATTGGCTCTGAAATTGAGAAAT-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
*
83275 ACTTGCGTTGTCTGGAGTCC-A-A---TTC-TTGTGAAGTTGAAATTGGCTCTGACATTGAG-AA
130 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA
* *
83333 TA-TTATT-AAAAC
195 TATTTGTTGACAAC
83345 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
83410 TTGAAATTGGCTCTGAAATTGAGAAATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
66 TTGAAATTGGCTCTGAAATTGAGAAATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
83475 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT
131 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT
83540 ATTTGTTGACAAC
196 ATTTGTTGACAAC
*
83553 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGTCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
83618 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACTAGCGGTCCCTTCGTCGTGAAGTTG
66 TTGAAATTGGCTCTGAAATTGAGAAA--TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
83683 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA-TGGCTCTGAAA-TGAGAA
129 AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA
*
83746 ATGTTTGTTGACAAC
194 ATATTTGTTGACAAC
* *
83761 TAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
83826 TTGAAATTGGCTCTG
66 TTGAAATTGGCTCTG
83841 GGTAAAACCT
Statistics
Matches: 472, Mismatches: 13, Indels: 14
0.95 0.03 0.03
Matches are distributed among these distances:
199 57 0.12
200 89 0.19
201 1 0.00
204 3 0.01
205 30 0.06
206 4 0.01
207 4 0.01
208 191 0.40
209 11 0.02
210 82 0.17
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (208 bp):
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCTCTGAAATTGAGAAATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAAT
ATTTGTTGACAAC
Found at i:83617 original size:105 final size:105
Alignment explanation
Indices: 83145--83840 Score: 1168
Period size: 105 Copynumber: 6.8 Consensus size: 105
83135 GGTTAACAGT
*** *
83145 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
83210 TTGAAATTGGCTCTGAAATTGAGAAAT-GTTGTTGACAAC
66 TTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
83249 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC-A-A---TTC-TTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* * *
83308 TTGAAATTGGCTCTGACATTGAG-AATA-TTATT-AAAAC
66 TTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
83345 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
83410 TTGAAATTGGCTCTGAAATTGAG-AA-ATTTGTTGACAAC
66 TTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
83448 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
83513 TTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
66 TTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
*
83553 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATGTCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
83618 TTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
66 TTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
*
83658 TAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
83723 TTGAAA-TGGCTCTGAAA-TGAGAAATGTTTGTTGACAAC
66 TTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
* *
83761 TAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
83826 TTGAAATTGGCTCTG
66 TTGAAATTGGCTCTG
83841 GGTAAAACCT
Statistics
Matches: 565, Mismatches: 15, Indels: 24
0.94 0.02 0.04
Matches are distributed among these distances:
96 50 0.09
97 8 0.01
98 31 0.05
99 3 0.01
101 4 0.01
102 37 0.07
103 184 0.33
104 63 0.11
105 185 0.33
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCTCTGAAATTGAGAAATATTTGTTGACAAC
Found at i:91273 original size:37 final size:37
Alignment explanation
Indices: 91223--91297 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
91213 AGTCTGGAAC
91223 TAGGCTCAGCTCCATTGCGTCCACTCCATAATAATCA
1 TAGGCTCAGCTCCATTGCGTCCACTCCATAATAATCA
91260 TAGGCTCAGCTCCATTGCGTCCACTCCATAATAATCA
1 TAGGCTCAGCTCCATTGCGTCCACTCCATAATAATCA
91297 T
1 T
91298 GGTCTCCCTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.32, G:0.13, T:0.28
Consensus pattern (37 bp):
TAGGCTCAGCTCCATTGCGTCCACTCCATAATAATCA
Found at i:95112 original size:22 final size:23
Alignment explanation
Indices: 95081--95129 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
95071 GTTAGATAAA
*
95081 AAAATGAGAAAATAAAACGA-AT
1 AAAATAAGAAAATAAAACGAGAT
*
95103 AAAATAAGAAAATAATACGAGAT
1 AAAATAAGAAAATAAAACGAGAT
95126 AAAA
1 AAAA
95130 AGATAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.69, C:0.04, G:0.12, T:0.14
Consensus pattern (23 bp):
AAAATAAGAAAATAAAACGAGAT
Found at i:95319 original size:21 final size:22
Alignment explanation
Indices: 95286--95329 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
95276 AGTAAGAACC
95286 AAAAAGAAATATAGATA-ATAA
1 AAAAAGAAATATAGATATATAA
* * *
95307 AAAAATAATTATATATATATAA
1 AAAAAGAAATATAGATATATAA
95329 A
1 A
95330 TAGGGGATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (22 bp):
AAAAAGAAATATAGATATATAA
Found at i:95601 original size:3 final size:3
Alignment explanation
Indices: 95585--95634 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
95575 TTGGTTAGTA
95585 AAT AAT -AT ATAT AAT AAT AAT -AT AAAT AAT AAT AAT -AT AAAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT AAT
95630 AAT AA
1 AAT AA
95635 AGAGAAGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
2 6 0.15
3 28 0.68
4 7 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:95605 original size:15 final size:15
Alignment explanation
Indices: 95585--95634 Score: 91
Period size: 15 Copynumber: 3.3 Consensus size: 15
95575 TTGGTTAGTA
*
95585 AATAATATATATAAT
1 AATAATATAAATAAT
95600 AATAATATAAATAAT
1 AATAATATAAATAAT
95615 AATAATATAAATAAT
1 AATAATATAAATAAT
95630 AATAA
1 AATAA
95635 AGAGAAGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAATATAAATAAT
Found at i:95631 original size:12 final size:13
Alignment explanation
Indices: 95585--95633 Score: 66
Period size: 12 Copynumber: 3.8 Consensus size: 13
95575 TTGGTTAGTA
95585 AATAAT-ATATAT
1 AATAATAATATAT
95597 AATAATAATATA-
1 AATAATAATATAT
95609 AATAATAATAATAT
1 AATAATAAT-ATAT
95623 AAATAATAATA
1 -AATAATAATA
95634 AAGAGAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 15 0.45
13 8 0.24
14 1 0.03
15 9 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATAATAATATAT
Found at i:96564 original size:15 final size:15
Alignment explanation
Indices: 96544--96576 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
96534 TGGAAACATG
96544 AAATAA-AAAATAAAT
1 AAATAATAAAAT-AAT
96559 AAATAATAAAATAAT
1 AAATAATAAAATAAT
96574 AAA
1 AAA
96577 ATATGTGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAATAAAATAAT
Found at i:98491 original size:3 final size:3
Alignment explanation
Indices: 98485--98520 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
98475 TGTAATAATT
98485 TAA TAA TAA TAA TAA TATA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA
98521 TACTTATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:98509 original size:19 final size:19
Alignment explanation
Indices: 98477--98522 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
98467 AACAAAATTG
98477 TAATAAT-T-TAATAATAA
1 TAATAATATATAATAATAA
98494 TAATAATATATAATAATAA
1 TAATAATATATAATAATAA
98513 TAATAATATA
1 TAATAATATA
98523 CTTATAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 7 0.26
18 1 0.04
19 19 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAATAATATATAATAATAA
Found at i:98861 original size:88 final size:88
Alignment explanation
Indices: 98747--98940 Score: 300
Period size: 88 Copynumber: 2.2 Consensus size: 88
98737 TGCATCGCTC
* *
98747 CACTACTCTTTTGTGAAGGTTGAATTGACTTGAAAAGAATCTGTTTCACTACTCTTTCGTGAAAA
1 CACTACTCTTCTGTGAAGGTTGAATTGACTTGAAAAGAATCTGTTTCACTACTCTTTCATGAAAA
98812 TCAGACTCGAGGTT-AGGTTACTT
66 TCAGACTCGAGGTTGA-GTTACTT
* * *
98835 CACTACTCTTCCGTGAAGGTTGAATTGACTTGAAAAGAATCTGTTTCACTACTCTTTTATGAAGA
1 CACTACTCTTCTGTGAAGGTTGAATTGACTTGAAAAGAATCTGTTTCACTACTCTTTCATGAAAA
* * *
98900 TTAGATTCGAGGTTGAGTTATTT
66 TCAGACTCGAGGTTGAGTTACTT
98923 CACTACTCTTCTGTGAAG
1 CACTACTCTTCTGTGAAG
98941 ACCAAATATG
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
88 95 0.99
89 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (88 bp):
CACTACTCTTCTGTGAAGGTTGAATTGACTTGAAAAGAATCTGTTTCACTACTCTTTCATGAAAA
TCAGACTCGAGGTTGAGTTACTT
Found at i:98886 original size:46 final size:46
Alignment explanation
Indices: 98747--98891 Score: 133
Period size: 46 Copynumber: 3.2 Consensus size: 46
98737 TGCATCGCTC
*
98747 CACTACTCTTTTGTGAAGGTTGAATTGACTTGAAAAGAATCTGTTT
1 CACTACTCTTTCGTGAAGGTTGAATTGACTTGAAAAGAATCTGTTT
* * ** * **
98793 CACTACTCTTTCGTGAA-----AATCAGACTCGAGGTTAG-GT-TACTT
1 CACTACTCTTTCGTGAAGGTTGAAT-TGACTTGA--AAAGAATCTGTTT
*
98835 CACTACTCTTCCGTGAAGGTTGAATTGACTTGAAAAGAATCTGTTT
1 CACTACTCTTTCGTGAAGGTTGAATTGACTTGAAAAGAATCTGTTT
98881 CACTACTCTTT
1 CACTACTCTTT
98892 TATGAAGATT
Statistics
Matches: 72, Mismatches: 17, Indels: 20
0.66 0.16 0.18
Matches are distributed among these distances:
41 3 0.04
42 25 0.35
43 1 0.01
44 4 0.06
45 1 0.01
46 35 0.49
47 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (46 bp):
CACTACTCTTTCGTGAAGGTTGAATTGACTTGAAAAGAATCTGTTT
Found at i:110293 original size:24 final size:20
Alignment explanation
Indices: 110239--110295 Score: 69
Period size: 20 Copynumber: 2.6 Consensus size: 20
110229 TTTTCCATTG
110239 AAGTGCATCGATGCATTCTA
1 AAGTGCATCGATGCATTCTA
*
110259 CAGTGCATCGATGCATTCCTTAA
1 AAGTGCATCGATGCATT-C-T-A
110282 AAGGTGCATCGATG
1 AA-GTGCATCGATG
110296 TACTACCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.52
21 1 0.03
22 1 0.03
23 2 0.06
24 11 0.35
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (20 bp):
AAGTGCATCGATGCATTCTA
Found at i:110372 original size:19 final size:19
Alignment explanation
Indices: 110348--110399 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
110338 TTTTAAGGGG
110348 ATGCATCGATGCACTCCTC
1 ATGCATCGATGCACTCCTC
110367 ATGCATCGATGCACTCCTC
1 ATGCATCGATGCACTCCTC
110386 ATGCATCGATGCAC
1 ATGCATCGATGCAC
110400 CAACTGTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.23, C:0.35, G:0.17, T:0.25
Consensus pattern (19 bp):
ATGCATCGATGCACTCCTC
Found at i:114176 original size:30 final size:30
Alignment explanation
Indices: 114142--114199 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
114132 ATGATTTATG
* *
114142 TGATAAAGGTATGGAAATGATATGTCTATA
1 TGATAAAGGTATGAAAATAATATGTCTATA
114172 TGATAAAGGTATGAAAATAATATGTCTA
1 TGATAAAGGTATGAAAATAATATGTCTA
114200 CGCGATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (30 bp):
TGATAAAGGTATGAAAATAATATGTCTATA
Found at i:114514 original size:24 final size:23
Alignment explanation
Indices: 114446--114516 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 23
114436 TTATATAGCA
* *
114446 CTACGTGACACTTCGATGC-ATTT
1 CTACGTGGCACTTCG-TGCAAATT
*
114469 CTACGTGGTC-CTTCGGGACAAATT
1 CTACGTGG-CACTTCGTG-CAAATT
114493 CTACGTGGCACTTCAGTGCAAATT
1 CTACGTGGCACTTC-GTGCAAATT
114517 TATACGAGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
22 1 0.03
23 14 0.36
24 22 0.56
25 2 0.05
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (23 bp):
CTACGTGGCACTTCGTGCAAATT
Found at i:115005 original size:21 final size:21
Alignment explanation
Indices: 114981--115024 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
114971 TTACGAAAGT
*
114981 CACTGTAGCAGTGCATCGATG
1 CACTGTAGCAGTGCATCAATG
*
115002 CACTGTAGCAGTGTATCAATG
1 CACTGTAGCAGTGCATCAATG
115023 CA
1 CA
115025 TAATTTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
CACTGTAGCAGTGCATCAATG
Found at i:121177 original size:30 final size:30
Alignment explanation
Indices: 121143--121205 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
121133 GTTATATGAG
*
121143 CTATGTGATAAAGGTATGGAAATGATATGT
1 CTATGTGATAAAGGTATGGAAATAATATGT
121173 CTATGTGATAAAGGTATGGAAATAATATGT
1 CTATGTGATAAAGGTATGGAAATAATATGT
121203 CTA
1 CTA
121206 CGCGATATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGT
Found at i:121485 original size:23 final size:23
Alignment explanation
Indices: 121459--121529 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
121449 ACTGCAATGT
121459 ATTTCTACGTGGCACTTCGGTGC
1 ATTTCTACGTGGCACTTCGGTGC
*
121482 ATTTCTACGCGGTC-CTTCGG-GAC
1 ATTTCTACGTGG-CACTTCGGTG-C
* *
121505 AAATTCTACGTGGCACTTCAGTGC
1 -ATTTCTACGTGGCACTTCGGTGC
121529 A
1 A
121530 AATTTATACG
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
22 1 0.03
23 20 0.51
24 17 0.44
25 1 0.03
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (23 bp):
ATTTCTACGTGGCACTTCGGTGC
Found at i:121531 original size:24 final size:23
Alignment explanation
Indices: 121461--121533 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
121451 TGCAATGTAT
*
121461 TTCTACGTGGCACTTCGGTGC-AT
1 TTCTACGTGGCACTTC-GTGCAAA
* *
121484 TTCTACGCGGTC-CTTCGGGACAAA
1 TTCTACGTGG-CACTTCGTG-CAAA
121508 TTCTACGTGGCACTTCAGTGCAAA
1 TTCTACGTGGCACTTC-GTGCAAA
121532 TT
1 TT
121534 TATACGAGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
22 2 0.05
23 15 0.38
24 21 0.52
25 2 0.05
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (23 bp):
TTCTACGTGGCACTTCGTGCAAA
Found at i:122035 original size:19 final size:20
Alignment explanation
Indices: 121996--122038 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
121986 TTACGAAAGT
121996 CACTGTAGCAGTGCATCGATG
1 CACTGTAGCAGTG-ATCGATG
122017 CACTGTAGCAGTG-TCGATG
1 CACTGTAGCAGTGATCGATG
122036 CAC
1 CAC
122039 AATTTTGCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 9 0.41
21 13 0.59
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.23
Consensus pattern (20 bp):
CACTGTAGCAGTGATCGATG
Found at i:122116 original size:12 final size:12
Alignment explanation
Indices: 122099--122142 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
122089 GCACTGTAGC
122099 ACTGTTCACGGT
1 ACTGTTCACGGT
**
122111 ACTGTTCGTGGT
1 ACTGTTCACGGT
*
122123 ACTGTTCGCGGT
1 ACTGTTCACGGT
*
122135 ACTTTTCA
1 ACTGTTCA
122143 TTATTGTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.39
Consensus pattern (12 bp):
ACTGTTCACGGT
Found at i:123694 original size:15 final size:15
Alignment explanation
Indices: 123674--123702 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
123664 TAATCTTACG
123674 AGACTCATTTGAGTT
1 AGACTCATTTGAGTT
123689 AGACTCATTTGAGT
1 AGACTCATTTGAGT
123703 AGGTCTACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (15 bp):
AGACTCATTTGAGTT
Found at i:123972 original size:18 final size:19
Alignment explanation
Indices: 123944--123980 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
123934 TGTTTTTTAA
*
123944 CGGTTCGGGTTTTTCGGTT
1 CGGTTCGGGTTTATCGGTT
123963 CGGTTC-GGTTTATCGGTT
1 CGGTTCGGGTTTATCGGTT
123981 TTTCAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.03, C:0.16, G:0.35, T:0.46
Consensus pattern (19 bp):
CGGTTCGGGTTTATCGGTT
Found at i:124471 original size:14 final size:14
Alignment explanation
Indices: 124452--124486 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
124442 ACAGTGGGTG
124452 AGGAAAAGCATAAA
1 AGGAAAAGCATAAA
124466 AGGAAAAGCATAAA
1 AGGAAAAGCATAAA
124480 AGGAAAA
1 AGGAAAA
124487 ACAATGTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.66, C:0.06, G:0.23, T:0.06
Consensus pattern (14 bp):
AGGAAAAGCATAAA
Done.