Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004659.1 Hibiscus syriacus cultivar Beakdansim tig00010444_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: 131947
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Found at i:775 original size:43 final size:42
Alignment explanation
Indices: 727--817 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 42
717 TGAGTGTCAT
727 ATAGAATTGTCACGAAAGACAACATAT-TGTCCCAAAGGACCTC
1 ATAGAATTGTCACGAAAGACAACATATAT-TCCC-AAGGACCTC
* * * * *
770 GTAGAATTGTCCCGAAGGACCACATATATTCCCGAGGACCTC
1 ATAGAATTGTCACGAAAGACAACATATATTCCCAAGGACCTC
812 ATAGAA
1 ATAGAA
818 CCCTCGACTC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 13 0.32
43 27 0.66
44 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
ATAGAATTGTCACGAAAGACAACATATATTCCCAAGGACCTC
Found at i:6422 original size:2 final size:2
Alignment explanation
Indices: 6415--6471 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
6405 TCAAAATAAT
6415 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6457 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
6472 TTCAAAAATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9253 original size:22 final size:22
Alignment explanation
Indices: 9228--9277 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
9218 TAATGATAAC
9228 GTGACTAGAGTCTGAATTCGAT
1 GTGACTAGAGTCTGAATTCGAT
*
9250 GTGACTAGAGTCTGAATTTGAT
1 GTGACTAGAGTCTGAATTCGAT
9272 GTGACT
1 GTGACT
9278 GTCGAGTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (22 bp):
GTGACTAGAGTCTGAATTCGAT
Found at i:10306 original size:20 final size:19
Alignment explanation
Indices: 10283--10348 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
10273 AGAAGTTTCT
10283 AAACTTCTACAAGAGTTTTG
1 AAACTTCT-CAAGAGTTTTG
* *
10303 AAACTT-TCCAATAGTTTCG
1 AAACTTCT-CAAGAGTTTTG
*
10322 AAACTATCTTAAGAGTTTTG
1 AAACT-TCTCAAGAGTTTTG
10342 AAACTTC
1 AAACTTC
10349 CATTAAAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 17 0.45
20 20 0.53
21 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (19 bp):
AAACTTCTCAAGAGTTTTG
Found at i:10358 original size:20 final size:20
Alignment explanation
Indices: 10296--10359 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
10286 CTTCTACAAG
*
10296 AGTTTTGAAACTTTCCA--AT
1 AGTTTTGAAAC-TTCCATTAA
*
10315 AGTTTCGAAACTAT-C-TTAA
1 AGTTTTGAAACT-TCCATTAA
10334 GAGTTTTGAAACTTCCATTAA
1 -AGTTTTGAAACTTCCATTAA
10355 AGTTT
1 AGTTT
10360 CAATACTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
18 2 0.06
19 13 0.36
20 17 0.47
21 4 0.11
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (20 bp):
AGTTTTGAAACTTCCATTAA
Found at i:17488 original size:18 final size:18
Alignment explanation
Indices: 17465--17499 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17455 CAGAAAATAT
17465 TAAATATTTA-ATATATTA
1 TAAATA-TTACATATATTA
17483 TAAATATTACATATATT
1 TAAATATTACATATATT
17500 TATAGCTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAATATTACATATATTA
Found at i:21801 original size:250 final size:259
Alignment explanation
Indices: 21374--21919 Score: 851
Period size: 251 Copynumber: 2.1 Consensus size: 259
21364 GTCAGGTCGT
* *
21374 GTTTCTAATTCATATATTCAGGTCGGGTCGGGTGAAACTTTATTTTGGTCTGGTCGGGTCAGGTC
1 GTTTCTAATTCATATATTCGGGTCGGGTAGGGTGAAACTTTA-TTT-GTCTGGTCGGGTCAGGTC
21439 GGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCC
64 GGTTTTTTTAAGTGTGATATTCGGGTC-GG-CGAGTTCGGGTTTAGGGTGAAAAATACCCGACCC
* * *
21504 GACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTATCTA
127 GACCCGAAAAAATATATAATTTAACCTTATATATTTAGGAATAATTACAATAATACCCCTATATA
*
21569 TATAA-TTTTTTCAATTAAGTTACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGGT
192 TATAATTTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGGT
21633 C-G
257 CAG
* *
21635 GATTTCTAATTCATATATTTGGGTCGGGTAGGGTGAAACTTTA-TT-T-TGGTCGGGTCGGGTCG
1 G-TTTCTAATTCATATATTCGGGTCGGGTAGGGTGAAACTTTATTTGTCTGGTCGGGTCAGGTCG
*
21697 G-TTTTTTAAGTGTGCTATTCGGGTC-G-G-GTTCGGGTTTAGGGTGAAAAATACCCGACCCGAC
65 GTTTTTTTAAGTGTGATATTCGGGTCGGCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAC
* * *
21758 CC-AAAAAATATATAATTTAACCTTATATATTTAGGAATAATTACAATAGTATCCCTCTATATAT
130 CCGAAAAAATATATAATTTAACCTTATATATTTAGGAATAATTACAATAATACCCCTATATATAT
*
21822 AATTTTTTTCAATTAAGTCATTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGGTCAG
195 AATTTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGGTCAG
*
21887 GTTTCTAATTCATATATTCGGGTCGGGTTGGGT
1 GTTTCTAATTCATATATTCGGGTCGGGTAGGGT
21920 TGTCGGGTCG
Statistics
Matches: 267, Mismatches: 15, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
250 58 0.22
251 124 0.46
252 3 0.01
254 1 0.00
256 23 0.09
257 16 0.06
258 1 0.00
260 2 0.01
261 1 0.00
262 38 0.14
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (259 bp):
GTTTCTAATTCATATATTCGGGTCGGGTAGGGTGAAACTTTATTTGTCTGGTCGGGTCAGGTCGG
TTTTTTTAAGTGTGATATTCGGGTCGGCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGACC
CGAAAAAATATATAATTTAACCTTATATATTTAGGAATAATTACAATAATACCCCTATATATATA
ATTTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTATTATTTCGGGTCAG
Found at i:22278 original size:17 final size:18
Alignment explanation
Indices: 22256--22302 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
22246 CATGGAATTG
*
22256 GATTCTAATTCC-TGACA
1 GATTCTAATTCCTTCACA
22273 GATTCTAATTCCTTCACA
1 GATTCTAATTCCTTCACA
*
22291 GATTCAAATTCC
1 GATTCTAATTCC
22303 CTCAAAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (18 bp):
GATTCTAATTCCTTCACA
Found at i:27186 original size:19 final size:19
Alignment explanation
Indices: 27141--27203 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
27131 AGTTTTGCAA
* *
27141 TGAACCGGTAGAACCGGTTG
1 TGAACCGGAAAAACCGG-TG
*
27161 AGAACC-GACAAAACCGGTG
1 TGAACCGGA-AAAACCGGTG
27180 TGAACCGGAAAAACCGGTG
1 TGAACCGGAAAAACCGGTG
27199 TGAAC
1 TGAAC
27204 TGGCGATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 23 0.62
20 14 0.38
ACGTcount: A:0.35, C:0.22, G:0.30, T:0.13
Consensus pattern (19 bp):
TGAACCGGAAAAACCGGTG
Found at i:27490 original size:27 final size:27
Alignment explanation
Indices: 27452--27510 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
27442 ATGAAGATCT
* *
27452 TGATGCTGTGGATTTTCAAGTTCAAAG
1 TGATGCTATGGAGTTTCAAGTTCAAAG
27479 TGATGCTATGGAGTTTCAAGTTCAAAG
1 TGATGCTATGGAGTTTCAAGTTCAAAG
27506 TGATG
1 TGATG
27511 ATGGCGGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (27 bp):
TGATGCTATGGAGTTTCAAGTTCAAAG
Found at i:28502 original size:18 final size:18
Alignment explanation
Indices: 28479--28518 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
28469 ATATCACAAT
28479 ATATATAATTATAATATA
1 ATATATAATTATAATATA
**
28497 ATATATTTTTATAATATA
1 ATATATAATTATAATATA
28515 ATAT
1 ATAT
28519 TTAAAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATATAATTATAATATA
Found at i:32612 original size:29 final size:29
Alignment explanation
Indices: 32548--32633 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 29
32538 TCTGAATATT
*
32548 AAAAATATATTTTATT-TTTTCTTAACTTA
1 AAAAATATATTTTATTCTTATCTTAAC-TA
***
32577 TTGAATATATTTTATTCTTATCTTAACTA
1 AAAAATATATTTTATTCTTATCTTAACTA
* *
32606 AAAAATATATTTTAATCTTATTTTAACT
1 AAAAATATATTTTATTCTTATCTTAACT
32634 TATAAATTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 38 0.81
30 9 0.19
ACGTcount: A:0.37, C:0.08, G:0.01, T:0.53
Consensus pattern (29 bp):
AAAAATATATTTTATTCTTATCTTAACTA
Found at i:32640 original size:29 final size:29
Alignment explanation
Indices: 32550--32644 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 29
32540 TGAATATTAA
*
32550 AAATATATTTT-AT-TTTTTCTTAACTTATT
1 AAATATATTTTAATCTTATT-TTAACTTA-T
* * * * *
32579 GAATATATTTTATTCTTATCTTAACTAAA
1 AAATATATTTTAATCTTATTTTAACTTAT
32608 AAATATATTTTAATCTTATTTTAACTTAT
1 AAATATATTTTAATCTTATTTTAACTTAT
32637 AAAT-TATT
1 AAATATATT
32645 AAATTATAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
28 4 0.08
29 38 0.72
30 8 0.15
31 3 0.06
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (29 bp):
AAATATATTTTAATCTTATTTTAACTTAT
Found at i:32651 original size:15 final size:16
Alignment explanation
Indices: 32628--32660 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
32618 TAATCTTATT
*
32628 TTAACTTATAAAT-TA
1 TTAAATTATAAATATA
32643 TTAAATTATAAATATA
1 TTAAATTATAAATATA
32659 TT
1 TT
32661 GTATTTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAATTATAAATATA
Found at i:32702 original size:2 final size:2
Alignment explanation
Indices: 32697--32762 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
32687 TATTTTTTAT
*
32697 TA TA TA T- TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32738 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 T
32763 TATTTAAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32911 original size:29 final size:28
Alignment explanation
Indices: 32879--32953 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 28
32869 ATTTAAATAT
32879 TTAAGTTAAG-CTAAAAAATATTTTTTTAG
1 TTAAGTTAAGACT--AAAATATTTTTTTAG
** *
32908 TTAA-AAAAGACTAAAATATTTTTTTAT
1 TTAAGTTAAGACTAAAATATTTTTTTAG
* *
32935 TTTAGTTAAGAATAAAATA
1 TTAAGTTAAGACTAAAATA
32954 AATATTCAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
27 17 0.46
28 14 0.38
29 6 0.16
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.43
Consensus pattern (28 bp):
TTAAGTTAAGACTAAAATATTTTTTTAG
Found at i:36810 original size:108 final size:108
Alignment explanation
Indices: 36668--38249 Score: 2130
Period size: 108 Copynumber: 14.6 Consensus size: 108
36658 GGAGTATGGA
* * ** *
36668 ACTCGAATAATCTTTAATAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
*
36733 TTCATCAATCGCGTCTGCCCTCTATTTCTTCAGAGAGTATAAG
66 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
36776 ACTCGAACAATCTTCAACGATCGTGTCTGCCCCCTATATT-TTCAGAGAGTATAAGACTCGAACA
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTAT-TTCTTCAGAGAGTATAAGAC-C-CACA
* * * * * *
36840 ATCTTTAAT-GATCGTGTCTGCCCCCTATATCTTTAGGGAGTATAAG
63 ATC-TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * * *
36886 AC-C-CACAATCTTCATCAATCGCGCCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCACAATC
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
* * *
36949 TTCATCAATCGTGTTTGCCCCCTATTTTTTCAGAGAGTATAAG
66 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * * *
36992 ACTCGAATAATCTTCAATGATCGTGTCTGCCCCCTATATCTTTAGAGAGTATAAGACCCACAATC
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
37057 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
66 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
37100 ACTCGAACGATCTTCAACGATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCACAATC
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
37165 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
66 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
37208 ACTCGAACAATCTTCAACGATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAATACCCACAATC
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
* * ** *
37273 TTCAACGATTACGTCTGCCCCCTATTTTTTCAGAGAGTATAAG
66 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * *
37316 ACCCG--CAATCTTTATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAA
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCC--ACAA
* * * *
37379 TCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAATATAAG
64 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * *
37424 ACCCGAACAATCTTCAACTATTGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
*
37489 TTCATCAATCGCGTATGCCCCCTATTTCTTCAGAGAGTATAAG
66 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
37532 ACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAAAGAGTATAAGACCCACAATC
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
*
37597 TTCATCAATCGCATCTGCCCCCTATTTCTTCAGAGAGTATAAG
66 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* *
37640 ACCCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCAAACAA
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCC--ACAA
* * * *
37705 TCTTCAACAATCGTGTCTGCCCCCTATATCTTCAGAGAGTATAAT
64 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* **
37750 AC-C-CACAATCTTCAACGATTACGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
37813 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
66 TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * *
37856 ACCCGAACAATCTTCAACGATTGCGTCTGCCTCCTATTTCTTCAGAGAATATAAGACCCGAACAA
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCC--ACAA
* * *
37921 TCTTCAACTATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
64 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * * *
37966 AC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAAAAA
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAA
* * * *
38029 TCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAAAGAGTATAAG
64 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
38074 AC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAA
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCC--ACAA
* * *
38137 TCTTCAACGATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
64 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
38182 AC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAA
1 ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCC--ACAA
38245 TCTTC
64 TCTTC
38250 TTTTACTTCA
Statistics
Matches: 1343, Mismatches: 109, Indels: 44
0.90 0.07 0.03
Matches are distributed among these distances:
105 4 0.00
106 132 0.10
107 5 0.00
108 1011 0.75
109 7 0.01
110 180 0.13
111 4 0.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (108 bp):
ACTCGAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATC
TTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
Found at i:39320 original size:128 final size:127
Alignment explanation
Indices: 39023--39431 Score: 599
Period size: 128 Copynumber: 3.2 Consensus size: 127
39013 TCTCATCATG
*
39023 ATGTGGGTTCAGTCGTGCCCCAACATTATCTTATACTGGTACGGGCCTTTCAAAATGCCCCTATT
1 ATGTGGGTTCAGTCGTGCCCCAACATTATCTTATACTGGTACGGGCC-TTCAAAATGCCCC-ATC
* ** * *
39088 ACCTCAAATTGTAAGGCTCATTCTTCATGCC-TC--CTTGGTCTGAATCTTTTCATCTCAACATG
64 ACCTCAGATTGTAAGGCTCATTCTTCATGCCTTCTTCTTCTTCTGAAT-TTTTCATCTCAACCTA
39150 ATGTGGGTTCAGTCGTGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCATCAC
1 ATGTGGGTTCAGTCGTGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCATCAC
* *
39215 CTTAGTTTGTAAGGCTCATTCTTCATGCCTTCTTCTTCTTCTGAATTTTATCATCTCAACCTA
66 CTCAGATTGTAAGGCTCATTCTTCATGCCTTCTTCTTCTTCTGAATTTT-TCATCTCAACCTA
* * * * *
39278 ATGTGGGTTCAGTCATGCCCCAACATTATCTTGTACTAGTACGAGCCTTCAAAATGTCCCATCAC
1 ATGTGGGTTCAGTCGTGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCATCAC
* *
39343 CTCAGATTGTAAGGCTTATTCTTCATGCCTTCTTCTTCTTCTGAATCTTGTCATCTCAACCTA
66 CTCAGATTGTAAGGCTCATTCTTCATGCCTTCTTCTTCTTCTGAAT-TTTTCATCTCAACCTA
* *
39406 ATGTGGGTTCAGCCGTGCCTCAACAT
1 ATGTGGGTTCAGTCGTGCCCCAACAT
39432 ATCGCAACTT
Statistics
Matches: 257, Mismatches: 20, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
125 30 0.12
126 15 0.06
127 50 0.19
128 160 0.62
129 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (127 bp):
ATGTGGGTTCAGTCGTGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCATCAC
CTCAGATTGTAAGGCTCATTCTTCATGCCTTCTTCTTCTTCTGAATTTTTCATCTCAACCTA
Found at i:40693 original size:16 final size:16
Alignment explanation
Indices: 40675--40704 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40665 TTCATTCTTT
40675 TTTTC-ATTTTTCTCA
1 TTTTCAATTTTTCTCA
40690 TTTTCAATTTTTCTC
1 TTTTCAATTTTTCTC
40705 TTTCTTTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.13, C:0.20, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTCAATTTTTCTCA
Found at i:40731 original size:6 final size:6
Alignment explanation
Indices: 40674--40767 Score: 52
Period size: 6 Copynumber: 15.2 Consensus size: 6
40664 TTTCATTCTT
* *
40674 TTTTTC ATTTTTC TCATTTTC AATTTTTC TCTTTC TTTTCC TTTTT- TATTTTC
1 TTTTTC -TTTTTC T--TTTTC --TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC
* * *
40727 TTTTTC -ATTTC ATTTTT- TTTATC -TTTTC TTTTTC TCTTTC T
1 TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T
40768 ATATTTCTCT
Statistics
Matches: 68, Mismatches: 9, Indels: 21
0.69 0.09 0.21
Matches are distributed among these distances:
5 13 0.19
6 34 0.50
7 10 0.15
8 10 0.15
10 1 0.01
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTTC
Found at i:43098 original size:6 final size:6
Alignment explanation
Indices: 43077--43117 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
43067 AAACAAATAC
43077 ATGC-A ATGCAAA ATGCAA ATGCAA ATGCAA ATGCAA ATGCA
1 ATGCAA ATGC-AA ATGCAA ATGCAA ATGCAA ATGCAA ATGCA
43118 CGAGGTGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 4 0.12
6 25 0.74
7 5 0.15
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
ATGCAA
Found at i:47763 original size:17 final size:17
Alignment explanation
Indices: 47712--47767 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
47702 AAATTCTTCG
47712 ATTAATAAAAATATATCAT
1 ATTAATAAAAA-A-ATCAT
** *
47731 ATT-ATAATTAACTCAT
1 ATTAATAAAAAAATCAT
47747 ATTAATAAAAAAATCAT
1 ATTAATAAAAAAATCAT
47764 ATTA
1 ATTA
47768 TCTTATTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
16 7 0.23
17 15 0.50
18 5 0.17
19 3 0.10
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTAATAAAAAAATCAT
Found at i:49713 original size:52 final size:52
Alignment explanation
Indices: 49632--49735 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
49622 AATCTCTAAT
* *
49632 CTTAATTCTTAGTATCTATTTACATGGATGAATATTTGATTACAAAGAAAAC
1 CTTAATTCTTAATATCTATTTACAGGGATGAATATTTGATTACAAAGAAAAC
*
49684 CTTAATTCTTAATATCTATTTATAGGGATGAATATTTGATTACAAAGAAAAC
1 CTTAATTCTTAATATCTATTTACAGGGATGAATATTTGATTACAAAGAAAAC
49736 TTGTAAAGCA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (52 bp):
CTTAATTCTTAATATCTATTTACAGGGATGAATATTTGATTACAAAGAAAAC
Found at i:49753 original size:52 final size:52
Alignment explanation
Indices: 49644--49760 Score: 155
Period size: 52 Copynumber: 2.2 Consensus size: 52
49634 TAATTCTTAG
* * ** *
49644 TATCTATTTACATGGATGAATATTTGATTACAAAGAAAACCTTAATTCTTAA
1 TATCTATTTATAGGGATGAATATTTGATTACAAAGAAAACCTTAAAGCATAA
*
49696 TATCTATTTATAGGGATGAATATTTGATTACAAAGAAAACTTGTAAAGCATAA
1 TATCTATTTATAGGGATGAATATTTGATTACAAAGAAAACCT-TAAAGCATAA
*
49749 -ATCTACTTATAG
1 TATCTATTTATAG
49761 TAGATTTTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 50 0.88
53 7 0.12
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (52 bp):
TATCTATTTATAGGGATGAATATTTGATTACAAAGAAAACCTTAAAGCATAA
Found at i:62114 original size:16 final size:16
Alignment explanation
Indices: 62093--62127 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
62083 TGACATGTCC
62093 TTAATTAATAAAATTG
1 TTAATTAATAAAATTG
62109 TTAATTAATAAAATTG
1 TTAATTAATAAAATTG
62125 TTA
1 TTA
62128 TTGTTCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (16 bp):
TTAATTAATAAAATTG
Found at i:65093 original size:19 final size:20
Alignment explanation
Indices: 65069--65110 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
65059 TTAGAATGAA
*
65069 GTTGTGG-TCGTTTCTAGCC
1 GTTGTGGATCATTTCTAGCC
*
65088 GTTGTGGATTATTTCTAGCC
1 GTTGTGGATCATTTCTAGCC
65108 GTT
1 GTT
65111 TGGGGATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.10, C:0.17, G:0.29, T:0.45
Consensus pattern (20 bp):
GTTGTGGATCATTTCTAGCC
Found at i:65261 original size:20 final size:20
Alignment explanation
Indices: 65231--65290 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
65221 AGCCGTTGGG
65231 GCCTGATGGTATCGATACTAT
1 GCCT-ATGGTATCGATACTAT
65252 GCCTATGGTATCGATACTAT
1 GCCTATGGTATCGATACTAT
* *
65272 GACTATAGTATCGATACTA
1 GCCTATGGTATCGATACTA
65291 CTATACAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
20 33 0.89
21 4 0.11
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.33
Consensus pattern (20 bp):
GCCTATGGTATCGATACTAT
Found at i:70409 original size:3 final size:3
Alignment explanation
Indices: 70388--70445 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
70378 CAGTTTACTT
* * *
70388 TTA TT- TTA TTA TT- TAA TTA TTA TTA TTA TCA -TA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
70433 TTA TATA TTA TTA
1 TTA T-TA TTA TTA
70446 ATAAATAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:70412 original size:14 final size:15
Alignment explanation
Indices: 70393--70445 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 15
70383 TACTTTTATT
70393 TTATTATT-TAATTA
1 TTATTATTATAATTA
*
70407 TTATTATTATCA-TA
1 TTATTATTATAATTA
**
70421 TTATTATTATTGTTA
1 TTATTATTATAATTA
70436 TATATTATTA
1 T-TATTATTA
70446 ATAAATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 20 0.61
15 5 0.15
16 8 0.24
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (15 bp):
TTATTATTATAATTA
Found at i:70413 original size:17 final size:18
Alignment explanation
Indices: 70388--70445 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
70378 CAGTTTACTT
70388 TTATT-TTATTATTTA-A
1 TTATTATTATTATTTATA
*
70404 TTATTATTATTA-TCATA
1 TTATTATTATTATTTATA
*
70421 TTATTATTATTGTTATATA
1 TTATTATTATTATT-TATA
70440 TTATTA
1 TTATTA
70446 ATAAATAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 7 0.20
17 18 0.51
18 1 0.03
19 9 0.26
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
TTATTATTATTATTTATA
Found at i:71991 original size:16 final size:15
Alignment explanation
Indices: 71968--72000 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
71958 AAAAATCCTA
71968 TTTATA-AAATTAAT
1 TTTATATAAATTAAT
*
71982 TTTATATAAATTACT
1 TTTATATAAATTAAT
71997 TTTA
1 TTTA
72001 AGGAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATAAATTAAT
Found at i:72267 original size:135 final size:133
Alignment explanation
Indices: 72024--72273 Score: 297
Period size: 135 Copynumber: 1.9 Consensus size: 133
72014 TATTTTGATA
* * *
72024 TTTATTTATTTTTCAATATTAAGAAAGGGCAGTCTTAAAACAACTAGAAGTCCTTTTCTGATATT
1 TTTATTTATTTTTCAATATAAAGAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTGATATT
* ** * * *
72089 TTTAAATAAATAAATATCCTATTTTTTTAATTATATATTATTATTATTTTTAGAATTTTTTTTAA
66 TCTAAATAAATAAATATCCTATTAATATAATTATATATAATTATAATTTTTAGAATTTTTTTTAA
72154 TTT
131 TTT
* * **
72157 TTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAGGC-ACATAGAAGTCATTTTCTGAT
1 TTTATTTATTTTTCAATAT-AAAG-AAAGAGCAGTCTTAAAACAAC-TAGAAGTCATTTTCTGAT
** * *
72221 ATTTCTAAATAAATAAATATTTTATTAATAT-ATTTTTTCATAATTATAATTTT
63 ATTTCTAAATAAATAAATATCCTATTAATATAATTATAT-ATAATTATAATTTT
72274 GAAATAATAG
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
133 18 0.19
134 10 0.10
135 68 0.71
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (133 bp):
TTTATTTATTTTTCAATATAAAGAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTGATATT
TCTAAATAAATAAATATCCTATTAATATAATTATATATAATTATAATTTTTAGAATTTTTTTTAA
TTT
Found at i:80726 original size:76 final size:75
Alignment explanation
Indices: 80631--80800 Score: 214
Period size: 76 Copynumber: 2.3 Consensus size: 75
80621 ACAAGAAGCG
* * * * *
80631 AATGTTGTGGCATGATGAAAACCCCTTTCAATCAGAATCAGGAATATTGAAGTATTCTGAATATT
1 AATGTTGGGGCATGCTGAAAACCCCTTTCAATCAGAATCAGGAATATTGAAGCATTCTGAACACT
80696 TATATCAGCAA
66 TATATCAGC-A
* * * * *
80707 AATGTTGGGGCATGCTGAAAGCCCCTTTCAATCAGAATCAGGACTGTTGATGCATTTTGAACACT
1 AATGTTGGGGCATGCTGAAAACCCCTTTCAATCAGAATCAGGAATATTGAAGCATTCTGAACACT
* * *
80772 TGTATTAGCT
66 TATATCAGCA
80782 AATGTTGGGGCATGCTGAA
1 AATGTTGGGGCATGCTGAA
80801 GGCCCATATC
Statistics
Matches: 81, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
75 19 0.23
76 62 0.77
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (75 bp):
AATGTTGGGGCATGCTGAAAACCCCTTTCAATCAGAATCAGGAATATTGAAGCATTCTGAACACT
TATATCAGCA
Found at i:82112 original size:22 final size:22
Alignment explanation
Indices: 82086--82162 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
82076 ATCTACACTC
82086 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
82108 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
82130 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
82152 TTCAAAGATGA
1 TTCAAAGATGA
82163 AAGCTTTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:83100 original size:76 final size:76
Alignment explanation
Indices: 83001--83288 Score: 522
Period size: 76 Copynumber: 3.8 Consensus size: 76
82991 CTATTTCCTA
*
83001 CATCTGTAAGTCATGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
83066 AGACTTAGGGT
66 AGCCTTAGGGT
* *
83077 CATCGGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
83142 AGCCTTAGGGT
66 AGCCTTAGGGT
83153 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
83218 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
83229 CATCTGCAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT
83289 GTTATTTTGA
Statistics
Matches: 204, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 204 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:83538 original size:76 final size:76
Alignment explanation
Indices: 83412--83899 Score: 823
Period size: 76 Copynumber: 6.4 Consensus size: 76
83402 CTATTTCCTA
*
83412 CATCTGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
83477 AGCCTTAGGGT
66 AGCCTTAGGGT
*
83488 CATCTGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
83553 AGCCTTAGGGT
66 AGCCTTAGGGT
*
83564 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAACTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
83629 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
83640 CATCTGTAAGTCCTACAGTGCATGATGTTTCAAAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTC--CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
83705 AAAGCCTTAGGGT
64 AAAGCCTTAGGGT
83718 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
83783 AGCCTTAGGGT
66 AGCCTTAGGGT
* * **
83794 CATCTGTAAGTCCTACAGTGCATGATGTTTCGAAAAAGCCTTCGGGAGCTTTTTGATAATTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* * *
83859 AACCTTCGAGT
66 AGCCTTAGGGT
* * *
83870 CACCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTGCAGTGCATGATGTTT
83900 TCAACATTTC
Statistics
Matches: 393, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
76 320 0.81
78 73 0.19
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:83639 original size:411 final size:414
Alignment explanation
Indices: 82875--83701 Score: 1489
Period size: 411 Copynumber: 2.0 Consensus size: 414
82865 CCAATCAACA
82875 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATA
1 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATA
* *
82940 AAATTGTTGAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTATTAAACTATTTCCTACATC
66 AAATTGTTAAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCTACATC
*
83005 TGTAAGTCATGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGAC
131 TGTAAGTCATGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGAC
*
83070 TTAGGGTCATCGGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATG
196 TTAGGGTCATCGGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATG
83135 TTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
261 TTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
* *
83200 GCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGCAAGTCCTACAGTGCATGATGTTTC-CAAA
326 ACTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGCAAGTCCTACAGTGCATGATGTTTCAAAAA
83264 AAGCCTTCGGGAGCTTTTTGATGT
391 AAGCCTTCGGGAGCTTTTTGATGT
* ** *
83288 TGTTATTTTGAAAAATAATGAGAAAATGATTTCCATAGTTTCTCATTTTATCTTTTCT-AAAATG
1 TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATA
83352 AAATTGTTAAAAAGTAAGAAAACGATTTCCTTAG-TTTTTTACTTAGTAAACTATTTCCTACATC
66 AAATTGTTAAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCTACATC
* *
83416 TGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
131 TGTAAGTCATGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGAC
* *
83481 TTAGGGTCATCTGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG
196 TTAGGGTCATCGGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATG
83546 TTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
261 TTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
*
83611 ACTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCAAAAA
326 ACTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGCAAGTCCTACAGTGCATGATGTTTC-AAAA
83676 AAAGCCTTCGGGAGCTTTTTGATGT
390 AAAGCCTTCGGGAGCTTTTTGATGT
83701 T
1 T
83702 TTCAAAGCCT
Statistics
Matches: 397, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
411 276 0.70
412 38 0.10
413 83 0.21
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (414 bp):
TGTTATTTTGAAAAATAATGAGAAAACGATTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATA
AAATTGTTAAAAAGTAAGAAAACGATTTCCTTAGTTTTTTTACTTAGTAAACTATTTCCTACATC
TGTAAGTCATGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGAC
TTAGGGTCATCGGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATG
TTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
ACTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGCAAGTCCTACAGTGCATGATGTTTCAAAAA
AAGCCTTCGGGAGCTTTTTGATGT
Found at i:83709 original size:230 final size:228
Alignment explanation
Indices: 83412--83899 Score: 823
Period size: 230 Copynumber: 2.1 Consensus size: 228
83402 CTATTTCCTA
* * *
83412 CATCTGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
83477 AGCCTTAGGGTCATCTGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
83542 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
** * *
83607 GGGAACTTTTTGATGTTTTCAAAGCCTTAGGGT
196 GGGAACTTTTTGATAATTTCAAAACCTTAGAGT
83640 CATCTGTAAGTCCTACAGTGCATGATGTTTCAAAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 CATCTGTAAGTCCTACAGTGCATGATGTTTC--AAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
*
83705 AAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
64 AAAGCCTTAGGGTCATCTGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTT
*
83770 TTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCGAAAAAGCCT
129 TTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCT
* *
83835 TCGGGAGCTTTTTGATAATTTCAAAACCTTCGAGT
194 TCGGGAACTTTTTGATAATTTCAAAACCTTAGAGT
* * *
83870 CACCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
83900 TCAACATTTC
Statistics
Matches: 243, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
228 29 0.12
230 214 0.88
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (228 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGTCATCTGTAAGTCCTGCAGAGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAACTTTTTGATAATTTCAAAACCTTAGAGT
Found at i:84038 original size:3 final size:3
Alignment explanation
Indices: 84017--84074 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
84007 CAGTTTACTT
* * *
84017 TTA TT- TTA TTA TT- TAA TTA TTA TTA TTA -TA ATA TTA TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
84062 TTA TATA TTA TTA
1 TTA T-TA TTA TTA
84075 ATAAATTAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
2 5 0.11
3 38 0.83
4 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:84042 original size:17 final size:17
Alignment explanation
Indices: 84017--84074 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 17
84007 CAGTTTACTT
84017 TTATT-TTATTATTTAA
1 TTATTATTATTATTTAA
84033 TTATTATTATTA--TAA
1 TTATTATTATTATTTAA
*
84048 -TATTATTATTATTGTTA
1 TTATTATTATTATT-TAA
84065 TATATTATTA
1 T-TATTATTA
84075 ATAAATTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 11 0.31
15 3 0.09
16 5 0.14
17 8 0.23
19 8 0.23
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATTATTATTATTTAA
Found at i:84983 original size:19 final size:17
Alignment explanation
Indices: 84948--84981 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
84938 ATGATATATC
84948 TCTCTCCAGAAGAGAGA
1 TCTCTCCAGAAGAGAGA
84965 TCTCTCCAGAAGAGAGA
1 TCTCTCCAGAAGAGAGA
84982 GAAGAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (17 bp):
TCTCTCCAGAAGAGAGA
Found at i:85495 original size:15 final size:15
Alignment explanation
Indices: 85475--85545 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
85465 ATCCTATAGT
85475 TTTTAATATTATTAC
1 TTTTAATATTATTAC
* *
85490 TTTTAAT-TTCTTTC
1 TTTTAATATTATTAC
85504 ATTTTAATTATTATTA-
1 -TTTTAA-TATTATTAC
*
85520 TTTTATTTTATTATTAC
1 TTTTA--ATATTATTAC
*
85537 TTTTGATAT
1 TTTTAATAT
85546 ATGTTTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
14 5 0.12
15 21 0.49
16 9 0.21
17 8 0.19
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (15 bp):
TTTTAATATTATTAC
Found at i:85651 original size:16 final size:15
Alignment explanation
Indices: 85628--85660 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
85618 AAAAATCCTA
85628 TTTATA-AAATTAAT
1 TTTATATAAATTAAT
*
85642 TTTATATAAATTACT
1 TTTATATAAATTAAT
85657 TTTA
1 TTTA
85661 AGGAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATAAATTAAT
Found at i:85928 original size:136 final size:134
Alignment explanation
Indices: 85682--85934 Score: 301
Period size: 136 Copynumber: 1.9 Consensus size: 134
85672 CATATTTTGA
* *
85682 TATTTATTTATTTTTCAATATTAAGAAAGGGCAGTCTTAAAACAACTAGAAGTCCTTTTCTGATA
1 TATTTATTTATTTTTCAATATTAAGAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTGATA
* ** * * *
85747 TTTTTAAATAAATAAATATCCTATTTTTTTAATTATATATTATTATTATTTTTAGAAAAATGTTT
66 TTTCTAAATAAATAAATATCCTATTAATATAATTATATATAATTATAATTTTTAGAAAAATGTTT
85812 TAAT
131 TAAT
* * ** * *
85816 TATTTATTTATTTTTTAATATTAAAGAAAAGAGCTGTCTTAAGGCACCTAGAATTCATTTTCTGA
1 TATTTATTTATTTTTCAATATT-AAG-AAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTGA
* ** * *
85881 TATTTCTAAATAAATAATTATTTTATTAATAT-ATTTTTTCATAATTATAATTTT
64 TATTTCTAAATAAATAAATATCCTATTAATATAATTATAT-ATAATTATAATTTT
85935 GAAATAATAG
Statistics
Matches: 97, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
134 21 0.22
135 8 0.08
136 68 0.70
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.49
Consensus pattern (134 bp):
TATTTATTTATTTTTCAATATTAAGAAAGAGCAGTCTTAAAACAACTAGAAGTCATTTTCTGATA
TTTCTAAATAAATAAATATCCTATTAATATAATTATATATAATTATAATTTTTAGAAAAATGTTT
TAAT
Found at i:97638 original size:18 final size:18
Alignment explanation
Indices: 97615--97667 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
97605 ACTGAATATT
*
97615 TGTCCCGAAGGATCACTA
1 TGTCCCGAAGGACCACTA
*
97633 TGTCCCGAAGGACCAATA
1 TGTCCCGAAGGACCACTA
97651 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
97668 GATAATCCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:97933 original size:2 final size:2
Alignment explanation
Indices: 97926--97951 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
97916 TATAACCGTA
97926 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
97952 GCATGTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98380 original size:36 final size:37
Alignment explanation
Indices: 98325--98394 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
98315 GCTCAAAGAT
*
98325 GGTATCGATACCTTCCTTC-AGGTATCGGTACCCCTG
1 GGTATCGATACCTTCCTTCAAGGTATCAGTACCCCTG
*
98361 GGTATCGATA-CTGTTCTTCAAGGTATCAGTACCC
1 GGTATCGATACCT-TCCTTCAAGGTATCAGTACCC
98395 TTTGAATTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 2 0.07
36 15 0.50
37 13 0.43
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (37 bp):
GGTATCGATACCTTCCTTCAAGGTATCAGTACCCCTG
Found at i:102914 original size:10 final size:9
Alignment explanation
Indices: 102892--102916 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
102882 AAGATAAAAG
102892 TTTTTCAAA
1 TTTTTCAAA
102901 TTTTTCAAA
1 TTTTTCAAA
102910 TTTTTCA
1 TTTTTCA
102917 GCAGGTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTCAAA
Found at i:103895 original size:17 final size:17
Alignment explanation
Indices: 103865--103902 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
103855 AATTTATTCA
*
103865 TTTATATTTGTCCCGAT
1 TTTATATTTGTCCCAAT
103882 TTTATTATTT-TCCCAAT
1 TTTA-TATTTGTCCCAAT
103899 TTTA
1 TTTA
103903 GTTTTAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTATATTTGTCCCAAT
Found at i:104515 original size:15 final size:16
Alignment explanation
Indices: 104495--104528 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
104485 TATATGTATT
*
104495 TTTAAA-TTATTAATA
1 TTTAAATTTAATAATA
104510 TTTAAATTTAATAATA
1 TTTAAATTTAATAATA
104526 TTT
1 TTT
104529 TTATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAAATTTAATAATA
Found at i:104543 original size:10 final size:10
Alignment explanation
Indices: 104530--104562 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
104520 ATAATATTTT
104530 TATTTTATTA
1 TATTTTATTA
104540 TATTTTATTA
1 TATTTTATTA
*
104550 TATTATATT-
1 TATTTTATTA
104559 TATT
1 TATT
104563 GTCAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTTTATTA
Found at i:104547 original size:15 final size:15
Alignment explanation
Indices: 104527--104559 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
104517 TTAATAATAT
*
104527 TTTTATTTTATTATA
1 TTTTATTATATTATA
104542 TTTTATTATATTATA
1 TTTTATTATATTATA
104557 TTT
1 TTT
104560 ATTGTCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTATTATATTATA
Found at i:108310 original size:15 final size:15
Alignment explanation
Indices: 108275--108311 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
108265 GGTATTTAGT
* *
108275 GGGCGAGCGGATGCT
1 GGGCGGGCGGATGCG
108290 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCG
108305 GGGCGGG
1 GGGCGGG
108312 TAAGATAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.19, G:0.65, T:0.08
Consensus pattern (15 bp):
GGGCGGGCGGATGCG
Found at i:111268 original size:13 final size:13
Alignment explanation
Indices: 111250--111276 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
111240 TCGAAATTAC
111250 TCTCAACTTGGTG
1 TCTCAACTTGGTG
111263 TCTCAACTTGGTG
1 TCTCAACTTGGTG
111276 T
1 T
111277 TAGGGGCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.41
Consensus pattern (13 bp):
TCTCAACTTGGTG
Found at i:119311 original size:26 final size:26
Alignment explanation
Indices: 119282--119400 Score: 139
Period size: 26 Copynumber: 4.3 Consensus size: 26
119272 TGCTCATTAA
*
119282 GCTCGTTAAAATTTTGCTCGAATCGT
1 GCTCGTTAAAATTTTGCTCGACTCGT
* *
119308 GCTCATTAAGAAAATTTGTTGCTCGACTTGTT
1 GCTCGTT---AAAA-TT-TTGCTCGACTCG-T
*
119340 GCTCGTTAAAATTTTGTTCGACTCGT
1 GCTCGTTAAAATTTTGCTCGACTCGT
119366 GCTCGTTAAAATTTTGCTCGACTCGT
1 GCTCGTTAAAATTTTGCTCGACTCGT
*
119392 GTTCGTTAA
1 GCTCGTTAA
119401 GAAAATTTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
26 40 0.51
27 10 0.13
28 2 0.03
29 8 0.10
30 2 0.03
31 10 0.13
32 7 0.09
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (26 bp):
GCTCGTTAAAATTTTGCTCGACTCGT
Found at i:122519 original size:2 final size:2
Alignment explanation
Indices: 122512--122559 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
122502 AAAAATAATA
122512 AT AT AT AT AT AT A- 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
122553 AT AT AT A
1 AT AT AT A
122560 ATTTATAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:123587 original size:31 final size:29
Alignment explanation
Indices: 123551--123615 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 29
123541 TTTTGGTACC
*
123551 TGCTTTCCTCGTTCGTTTTATGGTACTGTAT
1 TGCTTTCCTCGTTCG-TATAT-GTACTGTAT
*
123582 TGCTTTCCTCGTTCGTATATGTTCTGTAT
1 TGCTTTCCTCGTTCGTATATGTACTGTAT
123611 TGCTT
1 TGCTT
123616 CTATTGGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 13 0.41
30 4 0.12
31 15 0.47
ACGTcount: A:0.09, C:0.20, G:0.18, T:0.52
Consensus pattern (29 bp):
TGCTTTCCTCGTTCGTATATGTACTGTAT
Found at i:124050 original size:21 final size:19
Alignment explanation
Indices: 124015--124061 Score: 76
Period size: 21 Copynumber: 2.4 Consensus size: 19
124005 TTGTAATATA
124015 AATTTTATTTAATAATAAT
1 AATTTTATTTAATAATAAT
124034 AATTATTATTATAATAATAAT
1 AATT-TTATT-TAATAATAAT
124055 AATTTTA
1 AATTTTA
124062 AAAATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.15
20 8 0.31
21 14 0.54
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTTATTTAATAATAAT
Found at i:125288 original size:3 final size:3
Alignment explanation
Indices: 125274--125313 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
125264 ATTTTTTATT
* * *
125274 TAA TAA TGA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
125314 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:125689 original size:22 final size:22
Alignment explanation
Indices: 125659--125701 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
125649 TTTTTTTAAA
*
125659 CATCATGCACTGTAGGTCTTAT
1 CATCATGCACTATAGGTCTTAT
*
125681 CATCTTGCACTATAGGTCTTA
1 CATCATGCACTATAGGTCTTA
125702 CAGATGACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (22 bp):
CATCATGCACTATAGGTCTTAT
Found at i:125876 original size:116 final size:116
Alignment explanation
Indices: 125672--126301 Score: 985
Period size: 116 Copynumber: 5.4 Consensus size: 116
125662 CATGCACTGT
* *
125672 AGGTCTTATCATCTTGCACTATAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAATAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
*
125737 CCGAATGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTG
* * *
125788 AGGTCTTATCATCCTGAACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* *
125853 CTGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTG
*
125904 AGGTCTTATCATCTTGCACTGTAGGTCTTATAGATGACCC-AGAGGCTTTAAATATCAAAAAGCT
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGA-AGGCTTTAAATATCAAAAAGCT
* * * * *
125968 CCCGAAGGCTTTTTGAAAACAACCTGTATTATAGGTCTTATGGATGTCCCTA
65 CCCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTG
* * *
126020 AGGTCTTATCA-CTTGCACTGTAGGCCTTACAGATGACCCGGAGGCTTTAAATATCAAAAATCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* *
126084 CTGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
66 CCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTG
*
126135 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAACGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* * * *
126200 CGGAAGGCTTTTTTTAAAAACATCATGCACTATAGGTCTTATGGATGGCTCTG
66 CCGAAGGC--TTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTG
* *
126253 AGGTCTTATCATCTTGCACTATAGGTCTTATAGATGACCCGAAGGCTTT
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTT
126302 TTGAAAACAT
Statistics
Matches: 468, Mismatches: 41, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
115 103 0.22
116 279 0.60
118 86 0.18
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (116 bp):
AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
CCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTG
Found at i:125932 original size:22 final size:23
Alignment explanation
Indices: 125871--125934 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 23
125861 TTTTTGAAAA
*
125871 CATCCTGCACTGTAGGTCTTATG
1 CATCTTGCACTGTAGGTCTTATG
* * *
125894 GA--TGGCCCTG-AGGTCTTAT-
1 CATCTTGCACTGTAGGTCTTATG
125913 CATCTTGCACTGTAGGTCTTAT
1 CATCTTGCACTGTAGGTCTTAT
125935 AGATGACCCA
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.29
21 11 0.35
22 9 0.29
23 1 0.03
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (23 bp):
CATCTTGCACTGTAGGTCTTATG
Found at i:126144 original size:231 final size:232
Alignment explanation
Indices: 125672--126890 Score: 1477
Period size: 231 Copynumber: 5.4 Consensus size: 232
125662 CATGCACTGT
* *
125672 AGGTCTTATCATCTTGCACTATAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAATAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* *
125737 CCGAATGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTGAGGTCTTATCATCC
66 CCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTGAGGTCTTATCATCT
* *
125802 TGAACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCTGAAGGCTTTTTG
131 TGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAATCTCCTGAAGGCTTTTTG
125867 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
196 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
*
125904 AGGTCTTATCATCTTGCACTGTAGGTCTTATAGATGACCC-AGAGGCTTTAAATATCAAAAAGCT
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGA-AGGCTTTAAATATCAAAAAGCT
* * * * *
125968 CCCGAAGGCTTTTTGAAAACAACCTGTATTATAGGTCTTATGGATGTCCCTAAGGTCTTATCA-C
65 CCCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTGAGGTCTTATCATC
*
126032 TTGCACTGTAGGCCTTACAGATGACCCGGAGGCTTTAAATATCAAAAATCTCCTGAAGGCTTTTT
130 TTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAATCTCCTGAAGGCTTTTT
126097 GAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
195 GAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
*
126135 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAACGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* * * *
126200 CGGAAGGCTTTTTTTAAAAACATCATGCACTATAGGTCTTATGGATGGCTCTGAGGTCTTATCAT
66 CCGAAGGC--TTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTGAGGTCTTATCAT
* * * * *
126265 CTTGCACTATAGGTCTTATAGATGACCCGAAGGCTTT---T-TGAAAACATCATGCACTGTAGG-
129 CTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAA-ATC-T-C-CTGAAGGC
* * * *
126325 TCTTATG----GAT--GGC-CT-TGAGGTCTTAT-CAT-----T-
190 T-TTTTGAAAACATCCTGCACTGT-AGGTCTTATGGATGGCCCTG
** * * **
126355 TTG-C--A-C-TGTAGGTCT-TA-----T--AGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* * *
126407 CTGAAGGCTTTTTGAAAACTTCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCT
66 CCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTGAGGTCTTATCATCT
* *
126472 TGCA-TGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAATTCTTCTGAAGGCTTTTTG
131 TGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAATCTCCTGAAGGCTTTTTG
* *
126536 AAAACATCCTACACTGTAGGTCTTATGGATGGCCCTA
196 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
*
126573 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGATC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* * *
126638 CTGAAGGCTTTTTGAAAACATCCTACACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCT
66 CCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTGAGGTCTTATCATCT
* * *
126703 TGCACTGTAGGTCTTACAGATGACCTGAAGGCTTTAAATATCAAAAAAGCTCCTGAAGGCTTTTT
131 TGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATC-AAAAATCTCCTGAAGGCTTTTT
* * *
126768 GAAAACGTACTGCACTCTAGGTCTTATGGA------T-
195 GAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
* *
126799 A-G-C----C--C-T--ACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATC-AAAAGGTC
1 AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
* *
126852 CCGAAGGCTTTTTGAAAACATCCTGCAATGTAGGTCTTA
66 CCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTA
126891 CAGATGTGGG
Statistics
Matches: 859, Mismatches: 82, Indels: 110
0.82 0.08 0.10
Matches are distributed among these distances:
204 37 0.04
205 57 0.07
206 1 0.00
207 43 0.05
208 7 0.01
209 1 0.00
210 1 0.00
211 11 0.01
212 3 0.00
214 45 0.05
215 43 0.05
216 1 0.00
217 3 0.00
218 2 0.00
219 2 0.00
220 2 0.00
221 2 0.00
222 1 0.00
223 5 0.01
224 3 0.00
225 1 0.00
226 4 0.00
227 12 0.01
228 2 0.00
229 1 0.00
230 7 0.01
231 273 0.32
232 153 0.18
233 93 0.11
234 43 0.05
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (232 bp):
AGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTC
CCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGGCCCTGAGGTCTTATCATCT
TGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAATCTCCTGAAGGCTTTTTG
AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG
Found at i:126163 original size:22 final size:23
Alignment explanation
Indices: 126102--126164 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 23
126092 TTTTTGAAAA
*
126102 CATCCTGCACTGTAGGTCTTATG
1 CATCTTGCACTGTAGGTCTTATG
* * *
126125 GA--TGGCCCTG-AGGTCTTAT-
1 CATCTTGCACTGTAGGTCTTATG
126144 CATCTTGCACTGTAGGTCTTA
1 CATCTTGCACTGTAGGTCTTA
126165 CAGATGACCC
Statistics
Matches: 30, Mismatches: 7, Indels: 7
0.68 0.16 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.30
21 11 0.37
22 8 0.27
23 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (23 bp):
CATCTTGCACTGTAGGTCTTATG
Found at i:126277 original size:42 final size:41
Alignment explanation
Indices: 126220--126377 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 41
126210 TTTTTAAAAA
*
126220 CATCATGCACTATAGGTCTTATGGATGGCTCTGAGGTCTTAT
1 CATCATGCACTATAGGTCTTATAGATGGC-CTGAGGTCTTAT
* * * * *
126262 CATCTTGCACTATAGGTCTTATAGATGACCCGAAGGCTTTTTGAAAA
1 CATCATGCACTATAGGTCTTATAGATGGCCTG-AGG--TCTT---AT
* *
126309 CATCATGCACTGTAGGTCTTATGGATGGCCTTGAGGTCTTAT
1 CATCATGCACTATAGGTCTTATAGATGGCC-TGAGGTCTTAT
** *
126351 CATTTTGCACTGTAGGTCTTATAGATG
1 CATCATGCACTATAGGTCTTATAGATG
126378 ACCCGAAGGC
Statistics
Matches: 93, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 2 0.02
42 54 0.58
44 3 0.03
45 3 0.03
47 30 0.32
48 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (41 bp):
CATCATGCACTATAGGTCTTATAGATGGCCTGAGGTCTTAT
Found at i:126320 original size:207 final size:204
Alignment explanation
Indices: 126086--126505 Score: 687
Period size: 207 Copynumber: 2.0 Consensus size: 204
126076 AAAATCTCCT
*
126086 GAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
1 GAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
*
126151 CACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAACGCTCCGGAAGGCTTTTTTTA
66 CACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCGGAAGGC--TTTTTA
*
126216 AAAACATCATGCACTATAGGTCTTATGGATGGCTCTGAGGTCTTATCATCTTGCACTATAGGTCT
129 AAAACATCATGCACTATAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCA-TATAGGTCT
*
126281 TATAGATGACCC
193 TACAGATGACCC
* *
126293 GAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCTTGAGGTCTTATCATTTTG
1 GAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
* * *
126358 CACTGTAGGTCTTATAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCTGAAGGCTTTTTGAA
66 CACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCGGAAGGCTTTTTAAA
* * * *
126423 AACTTCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATGTAGGTCTTAC
131 AACATCATGCACTATAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATATAGGTCTTAC
126488 AGATGACCC
196 AGATGACCC
*
126497 GGAGGCTTT
1 GAAGGCTTT
126506 AAATATCAAA
Statistics
Matches: 199, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
204 27 0.14
205 56 0.28
207 116 0.58
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (204 bp):
GAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
CACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCGGAAGGCTTTTTAAA
AACATCATGCACTATAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATATAGGTCTTAC
AGATGACCC
Found at i:126359 original size:89 final size:89
Alignment explanation
Indices: 126210--126390 Score: 310
Period size: 89 Copynumber: 2.0 Consensus size: 89
126200 CGGAAGGCTT
126210 TTTTTAAAAACATCATGCACTATAGGTCTTATGGATGGCTCTGAGGTCTTATCATCTTGCACTAT
1 TTTTTAAAAACATCATGCACTATAGGTCTTATGGATGGCTCTGAGGTCTTATCATCTTGCACTAT
126275 AGGTCTTATAGATGACCCGAAGGC
66 AGGTCTTATAGATGACCCGAAGGC
* * * *
126299 TTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGC-CTTGAGGTCTTATCATTTTGCACTG
1 TTTTTAAAAACATCATGCACTATAGGTCTTATGGATGGCTC-TGAGGTCTTATCATCTTGCACTA
126363 TAGGTCTTATAGATGACCCGAAGGC
65 TAGGTCTTATAGATGACCCGAAGGC
126388 TTT
1 TTT
126391 AAATATCAAA
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
88 1 0.01
89 86 0.99
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (89 bp):
TTTTTAAAAACATCATGCACTATAGGTCTTATGGATGGCTCTGAGGTCTTATCATCTTGCACTAT
AGGTCTTATAGATGACCCGAAGGC
Found at i:126415 original size:438 final size:436
Alignment explanation
Indices: 125855--126737 Score: 1473
Period size: 438 Copynumber: 2.0 Consensus size: 436
125845 AAAAGCTCCT
*
125855 GAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
1 GAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
125920 CACTGTAGGTCTTATAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAA
66 CACTGTAGGTCTTATAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAA
* * *
125985 AACAACCTGTATTATAGGTCTTATGGATGTCCCTAAGGTCTTATCA-CTTGCACTGTAGGCCTTA
131 AACAACCTGCACTATAGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTGCA-TGTAGGCCTTA
*
126049 CAGATGACCCGGAGGCTTTAAATATCAAAAATCTCCTGAAGGCTTTTTGAAAACATCCTGCACTG
195 CAGATGACCCGGAGGCTTTAAATATCAAAAATCTCCTGAAGGCTTTTTGAAAACATCCTACACTG
*
126114 TAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAG
260 TAGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAG
* * *
126179 GCTTTAAATATCAAAACGCTCCGGAAGGCTTTTTTTAAAAACATCATGCACTATAGGTCTTATGG
325 GCTTTAAATATCAAAAAGATCCGGAAGGC--TTTTTAAAAACATCATACACTATAGGTCTTATGG
* *
126244 ATGGCTCTGAGGTCTTATCATCTTGCACTATAGGTCTTATAGATGACCC
388 ATGGCCCTGAGGTCTTATCATCTTGCACTATAGGTCTTACAGATGACCC
* *
126293 GAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCTTGAGGTCTTATCATTTTG
1 GAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
*
126358 CACTGTAGGTCTTATAGATGACCC-GAAGGCTTTAAATATCAAAAAGCTCCTGAAGGCTTTTTGA
66 CACTGTAGGTCTTATAGATGACCCAG-AGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGA
** * * *
126422 AAACTTCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATGTAGGTCTTA
130 AAACAACCTGCACTATAGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTGCATGTAGGCCTTA
* *
126487 CAGATGACCCGGAGGCTTTAAATATCAAAATTCTTCTGAAGGCTTTTTGAAAACATCCTACACTG
195 CAGATGACCCGGAGGCTTTAAATATCAAAAATCTCCTGAAGGCTTTTTGAAAACATCCTACACTG
126552 TAGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAG
260 TAGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAG
* * * *
126617 GCTTTAAATATCAAAAAGATCCTGAAGGCTTTTTGAAAACATCCTACACTGTAGGTCTTATGGAT
325 GCTTTAAATATCAAAAAGATCCGGAAGGCTTTTTAAAAACATCATACACTATAGGTCTTATGGAT
* *
126682 GGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCT
390 GGCCCTGAGGTCTTATCATCTTGCACTATAGGTCTTACAGATGACCC
126729 GAAGGCTTT
1 GAAGGCTTT
126738 AAATATCAAA
Statistics
Matches: 416, Mismatches: 27, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
436 84 0.20
437 1 0.00
438 325 0.78
439 6 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (436 bp):
GAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
CACTGTAGGTCTTATAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAA
AACAACCTGCACTATAGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTGCATGTAGGCCTTAC
AGATGACCCGGAGGCTTTAAATATCAAAAATCTCCTGAAGGCTTTTTGAAAACATCCTACACTGT
AGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGACCCGAAGG
CTTTAAATATCAAAAAGATCCGGAAGGCTTTTTAAAAACATCATACACTATAGGTCTTATGGATG
GCCCTGAGGTCTTATCATCTTGCACTATAGGTCTTACAGATGACCC
Found at i:126655 original size:116 final size:116
Alignment explanation
Indices: 126293--126804 Score: 846
Period size: 116 Copynumber: 4.4 Consensus size: 116
126283 TAGATGACCC
* * *
126293 GAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGGCCTTGAGGTCTTATCATTTTG
1 GAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
*
126358 CACTGTAGGTCTTATAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCT
66 CACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCT
*
126409 GAAGGCTTTTTGAAAACTTCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
1 GAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
* ** *
126474 CA-TGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAATTCTTCT
66 CACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCT
* *
126524 GAAGGCTTTTTGAAAACATCCTACACTGTAGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTG
1 GAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
*
126589 CACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGATCCT
66 CACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCT
*
126640 GAAGGCTTTTTGAAAACATCCTACACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
1 GAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
*
126705 CACTGTAGGTCTTACAGATGACCTGAAGGCTTTAAATATCAAAAAAGCTCCT
66 CACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATC-AAAAAGCTCCT
* * * *
126757 GAAGGCTTTTTGAAAACGTACTGCACTCTAGGTCTTATGGATAGCCCT
1 GAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCT
126805 ACTGTAGGTC
Statistics
Matches: 369, Mismatches: 25, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
115 107 0.29
116 209 0.57
117 53 0.14
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (116 bp):
GAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTG
CACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCT
Found at i:126886 original size:97 final size:98
Alignment explanation
Indices: 126706--126890 Score: 282
Period size: 97 Copynumber: 1.9 Consensus size: 98
126696 ATCATCTTGC
* *
126706 ACTGTAGGTCTTACAGATGACCTGAAGGCTTTAAATATCAAAAAAGCTCCTGAAGGCTTTTTGAA
1 ACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATC-AAAAAGCTCCCGAAGGCTTTTTGAA
* *
126771 AACGTACTGCACTCTAGGTCTTATGGATAGCCCT
65 AACATACTGCAATCTAGGTCTTATGGATAGCCCT
* *
126805 ACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATC-AAAAGGTCCCGAAGGCTTTTTGAAA
1 ACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAA
* *
126869 ACATCCTGCAATGTAGGTCTTA
66 ACATACTGCAATCTAGGTCTTA
126891 CAGATGTGGG
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
97 41 0.53
99 37 0.47
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (98 bp):
ACTGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAA
ACATACTGCAATCTAGGTCTTATGGATAGCCCT
Found at i:127988 original size:54 final size:54
Alignment explanation
Indices: 127919--128073 Score: 229
Period size: 54 Copynumber: 2.9 Consensus size: 54
127909 ATAATCATTG
* * * * *
127919 GTTCATAAAACATTTGGCATCATATTCATCATTTCTTGTGGCTTCTGTACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCATGTGGCTTCTGTACAGAT
* *
127973 GTTCGTAAAACATTTGACAACACATTCATCCTTTCATGTGGTTTCTGTACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCATGTGGCTTCTGTACAGAT
* *
128027 GTTCGTAAAACATTTGACAACACATTCATCATTTCCTATGGCTTCTG
1 GTTCGTAAAACATTTGACAACACATTCATCATTTCATGTGGCTTCTG
128074 CCTAGATTTC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCATTTCATGTGGCTTCTGTACAGAT
Found at i:128463 original size:75 final size:75
Alignment explanation
Indices: 128343--128800 Score: 586
Period size: 75 Copynumber: 6.1 Consensus size: 75
128333 ATATGGGCCC
* * * *
128343 TCAGCATGCCCCAACAATTGTTGATACGAACATTCAAAATGCATCAACATTCCTGA-TTCTGATT
1 TCAGCATGCCCCAACATTTGCTGATACAAACGTTCAAAATGCATCAACATTCCT-ATTTCTGATT
128407 GAAATGGGCTT
65 GAAATGGGCTT
* * ** *
128418 TCAGCATG-CCCAGCATTTGCTGATACAGACGTTCAAAAACACATCAACATTCTTATTTCTGATT
1 TCAGCATGCCCCAACATTTGCTGATACAAACGTTC-AAAATGCATCAACATTCCTATTTCTGATT
*
128482 GAAATGAGCTT
65 GAAATGGGCTT
* * * *
128493 TCAGCATACCCCAATATTTACTGATACAAACGTTCAAAGTGCATCAACATTCCTATTTCTGATTG
1 TCAGCATGCCCCAACATTTGCTGATACAAACGTTCAAAATGCATCAACATTCCTATTTCTGATTG
*
128558 AAATAGGCTT
66 AAATGGGCTT
* * *
128568 TCAGCATGCCCCAACATTTGATGATACAAATGTTCAAAATGCGTCAACATTCCTATTT-TGATTG
1 TCAGCATGCCCCAACATTTGCTGATACAAACGTTCAAAATGCATCAACATTCCTATTTCTGATTG
*
128632 AAATGAGCTT
66 AAATGGGCTT
* * **
128642 TCACCATGCCCCAACA-TTGTTGATA-AAACGTTCAAAACACATCAACATTCCTGA-TTCTGATT
1 TCAGCATGCCCCAACATTTGCTGATACAAACGTTCAAAATGCATCAACATTCCT-ATTTCTGATT
128704 GAAATGGGCTT
65 GAAATGGGCTT
* * * * * *
128715 TCAGCATGCCCCAACATTTGCTGATATAAACATTCGAAATGCGTCAAGATTCTTATTTCTGATTG
1 TCAGCATGCCCCAACATTTGCTGATACAAACGTTCAAAATGCATCAACATTCCTATTTCTGATTG
128780 AAATGGGCTT
66 AAATGGGCTT
128790 TCAGCATGCCC
1 TCAGCATGCCC
128801 AGCATTACTT
Statistics
Matches: 329, Mismatches: 46, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
72 25 0.08
73 39 0.12
74 59 0.18
75 184 0.56
76 22 0.07
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (75 bp):
TCAGCATGCCCCAACATTTGCTGATACAAACGTTCAAAATGCATCAACATTCCTATTTCTGATTG
AAATGGGCTT
Found at i:128774 original size:222 final size:225
Alignment explanation
Indices: 128343--128800 Score: 640
Period size: 222 Copynumber: 2.0 Consensus size: 225
128333 ATATGGGCCC
* *
128343 TCAGCATGCCCCAACAATTGTTGATACGAACATTCAAAATGCATCAACATTCCTGATTCTGATTG
1 TCAGCATGCCCCAACAATTGATGATACAAACATTCAAAATGCATCAACATTCCTGATTCTGATTG
* * * * *
128408 AAATGGGCTTTCAGCATGCCCAGCATTTGCTGATACAGACGTTCAAAAACACATCAACATTCTTA
66 AAATGAGCTTTCACCATGCCCAACATTTGCTGATACAAACGTTCAAAAACACATCAACATTCTGA
* *
128473 TTTCTGATTGAAATGAGCTTTCAGCATACCCCAATATTTACTGATACAAACGTTCAAAGTGCATC
131 TTTCTGATTGAAATGAGCTTTCAGCATACCCCAACATTTACTGATACAAACATTCAAAGTGCATC
128538 AACATTCCTATTTCTGATTGAAATAGGCTT
196 AACATTCCTATTTCTGATTGAAATAGGCTT
* ** * *
128568 TCAGCATGCCCCAACATTTGATGATACAAATGTTCAAAATGCGTCAACATTCCT-ATTTTGATTG
1 TCAGCATGCCCCAACAATTGATGATACAAACATTCAAAATGCATCAACATTCCTGATTCTGATTG
*
128632 AAATGAGCTTTCACCATGCCCCAACA-TTGTTGATA-AAACGTTC-AAAACACATCAACATTCCT
66 AAATGAGCTTTCACCATG-CCCAACATTTGCTGATACAAACGTTCAAAAACACATCAACATT-CT
* * * *
128694 GA-TTCTGATTGAAATGGGCTTTCAGCATGCCCCAACATTTGCTGATATAAACATTCGAAA-TGC
129 GATTTCTGATTGAAATGAGCTTTCAGCATACCCCAACATTTACTGATACAAACATTC-AAAGTGC
* * * *
128757 GTCAAGATTCTTATTTCTGATTGAAATGGGCTT
193 ATCAACATTCCTATTTCTGATTGAAATAGGCTT
128790 TCAGCATGCCC
1 TCAGCATGCCC
128801 AGCATTACTT
Statistics
Matches: 207, Mismatches: 23, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
222 107 0.52
223 13 0.06
224 33 0.16
225 54 0.26
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (225 bp):
TCAGCATGCCCCAACAATTGATGATACAAACATTCAAAATGCATCAACATTCCTGATTCTGATTG
AAATGAGCTTTCACCATGCCCAACATTTGCTGATACAAACGTTCAAAAACACATCAACATTCTGA
TTTCTGATTGAAATGAGCTTTCAGCATACCCCAACATTTACTGATACAAACATTCAAAGTGCATC
AACATTCCTATTTCTGATTGAAATAGGCTT
Found at i:128837 original size:38 final size:38
Alignment explanation
Indices: 128786--128882 Score: 95
Period size: 39 Copynumber: 2.5 Consensus size: 38
128776 ATTGAAATGG
** * * * *
128786 GCTTTCAGCATGCCCAGCATTACTTCTTATTGATGTGA
1 GCTTTCAAAATGCCCAACATTACTTCATACTAATGTGA
**
128824 GCTTTCAAAATGCCCCAACATTTTTTCATACTAATGTGA
1 GCTTTCAAAATG-CCCAACATTACTTCATACTAATGTGA
* *
128863 GCCTTCAAAATGCCCCACAT
1 GCTTTCAAAATGCCCAACAT
128883 GGATCTATCT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
38 17 0.35
39 31 0.65
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (38 bp):
GCTTTCAAAATGCCCAACATTACTTCATACTAATGTGA
Found at i:131055 original size:71 final size:71
Alignment explanation
Indices: 130918--131059 Score: 205
Period size: 71 Copynumber: 2.0 Consensus size: 71
130908 ATATAATAGT
*
130918 ATAACAGGCTAGCTAAATATTATCCATAAAGTCAGGCGATTAACCAATTGCTTTAGGGGGACAAC
1 ATAACAGGCTAGCTAAATATTATCCATAAAGCCAGGCGATTAACCAATTGCTTTAGGGGGACAAC
130983 TCAAGC
66 TCAAGC
* * * * * *
130989 ATAACAGGTTAGTTGAATATTATCCATAAAGCCGGGGCGATTAACCAATTTCTTTAGGGGG-TAA
1 ATAACAGGCTAGCTAAATATTATCCATAAAGCC-AGGCGATTAACCAATTGCTTTAGGGGGACAA
131053 CTCAAGC
65 CTCAAGC
131060 TTTATTGTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
71 38 0.60
72 25 0.40
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (71 bp):
ATAACAGGCTAGCTAAATATTATCCATAAAGCCAGGCGATTAACCAATTGCTTTAGGGGGACAAC
TCAAGC
Done.