Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009586.1 Hibiscus syriacus cultivar Beakdansim tig00116964_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: 3773412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 19
Found at i:220916 original size:184 final size:184
Alignment explanation
Indices: 220598--220985 Score: 602
Period size: 184 Copynumber: 2.1 Consensus size: 184
220588 AACCGAAATT
* * *
220598 AAATTTTAAATATATTATATATAACATTTGGACTTAGCCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGACTCAGCCCAAACCATTTAAAACTCAATTAATAA
* * **
220663 TTTAAAATCATATAACTTTTAAACCTAAATGAATATTAATTAATTAAAAATTTTATATAAAAATT
66 ATTAAAATCATATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAAATT
* *
220728 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
*
220783 AAA-ATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGACTCAGCCCAAACCATTTAAAACTCAATTAATAA
* * *
220847 ATTAAGATCCA-ATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATCTAAAATT
66 ATTAAAAT-CATATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAAAT
220911 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
* *
220966 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
220986 AATTAGAAAA
Statistics
Matches: 186, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
183 24 0.13
184 157 0.84
185 5 0.03
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGGACTCAGCCCAAACCATTTAAAACTCAATTAATAA
ATTAAAATCATATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAAATT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
Found at i:226844 original size:21 final size:21
Alignment explanation
Indices: 226815--226867 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
226805 ATTATGACTA
226815 TCGCATTGCGA-TTTCCCAAAT
1 TCGCATTGCGAGTTT-CCAAAT
* *
226836 TCGCGTTGCGAGTTTCCTAAT
1 TCGCATTGCGAGTTTCCAAAT
*
226857 TCGCAATGCGA
1 TCGCATTGCGA
226868 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGAGTTTCCAAAT
Found at i:226889 original size:20 final size:20
Alignment explanation
Indices: 226860--226950 Score: 110
Period size: 20 Copynumber: 4.5 Consensus size: 20
226850 TCCTAATTCG
226860 CAATGCGAATACGTAAATCA
1 CAATGCGAATACGTAAATCA
* ** *
226880 CAACGCGAATTTGGAAAATCA
1 CAATGCGAA-TACGTAAATCA
* *
226901 CAATGCGATTACGTAAATCG
1 CAATGCGAATACGTAAATCA
*
226921 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCA
226941 CAATGCGAAT
1 CAATGCGAAT
226951 CTGACTATCG
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 44 0.75
21 15 0.25
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (20 bp):
CAATGCGAATACGTAAATCA
Found at i:227616 original size:20 final size:20
Alignment explanation
Indices: 227576--227645 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
227566 TGCGATTCTT
* **
227576 GCGTTGCAATAGTCAAATTC
1 GCGTTGCGATAGTCATTTTC
227596 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCATTTTC
* **
227616 GTGTTGCGATTTTCATTTTC
1 GCGTTGCGATAGTCATTTTC
*
227636 GTGTTGCGAT
1 GCGTTGCGAT
227646 TTAAAGTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (20 bp):
GCGTTGCGATAGTCATTTTC
Found at i:227646 original size:20 final size:20
Alignment explanation
Indices: 227593--227647 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
227583 AATAGTCAAA
* **
227593 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
227613 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
227633 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
227648 AAAGTTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:229551 original size:20 final size:20
Alignment explanation
Indices: 229526--229629 Score: 130
Period size: 20 Copynumber: 5.5 Consensus size: 20
229516 AGAATAGTTT
229526 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
229546 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
229566 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
229582 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
229600 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
229620 ACTATCGCAA
1 ACTATCGCAA
229630 CGAAAGAATC
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
14 7 0.10
16 4 0.05
17 4 0.05
18 4 0.05
20 54 0.74
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:229615 original size:54 final size:54
Alignment explanation
Indices: 229529--229650 Score: 208
Period size: 54 Copynumber: 2.3 Consensus size: 54
229519 ATAGTTTACT
*
229529 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGA
* **
229583 ATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGA
229637 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
229651 TGAAAATCAC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGA
Found at i:229701 original size:20 final size:20
Alignment explanation
Indices: 229676--229814 Score: 134
Period size: 20 Copynumber: 7.3 Consensus size: 20
229666 GATTCTCTCG
**
229676 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
229696 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
229716 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
229736 TTGCGAT--T-TTGTTTCGCA
1 TTGCGATAGTCAT-TTTCGCA
*
229754 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
**
229768 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGTCATTTTCGCA
*
229788 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
229808 TTGCGAT
1 TTGCGAT
229815 TTTAAGTTTC
Statistics
Matches: 103, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
14 7 0.07
16 6 0.06
17 1 0.01
18 19 0.18
20 70 0.68
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.41
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:230339 original size:18 final size:19
Alignment explanation
Indices: 230300--230341 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
230290 CTCACCTTTC
230300 ATCGTTCAAGAGGCATCCCCT
1 ATCGTTCAAGAGG-A-CCCCT
230321 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGACCCCT
230339 ATC
1 ATC
230342 ATCCCTAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGACCCCT
Found at i:230395 original size:42 final size:42
Alignment explanation
Indices: 230323--230405 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
230313 CATCCCCTAT
*
230323 CGTTCAAGAGGCCCCTATCATCCCTAAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTAAAGAGGT-CCCTCCCAC
* ** *
230365 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTAAAGAGGTCCCTCCCA
230406 ACATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTAAAGAGGTCCCTCCCAC
Found at i:231767 original size:14 final size:14
Alignment explanation
Indices: 231748--231783 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
231738 ATTGTTTAAT
231748 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
231762 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
231776 TGATTTGT
1 TGATTTGT
231784 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:232005 original size:33 final size:34
Alignment explanation
Indices: 231939--232007 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 34
231929 GAAATGAAAA
* * **
231939 TCGCAATTGCGATTCACTCGTTGTGATTTTCATT
1 TCGCAATTGCGATTCACTCATTGCGATAGTCATT
*
231973 TCGC-ATTGCGATTCTCTCATTGCGATAGTCATT
1 TCGCAATTGCGATTCACTCATTGCGATAGTCATT
232006 TC
1 TC
232008 CGCGTTGTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (34 bp):
TCGCAATTGCGATTCACTCATTGCGATAGTCATT
Found at i:232021 original size:20 final size:20
Alignment explanation
Indices: 231992--232123 Score: 187
Period size: 20 Copynumber: 6.6 Consensus size: 20
231982 GATTCTCTCA
231992 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
* *
232012 TTGTGATAGTCAATTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
232032 TTGCGATAGTCAATTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
232052 TTGCGATAGTCATTTCCGTG
1 TTGCGATAGTCATTTCCGCG
*
232072 TTGCGATAGTCATATT-TGCG
1 TTGCGATAGTCAT-TTCCGCG
232092 TTGCGATAGTCATATT-CGCG
1 TTGCGATAGTCAT-TTCCGCG
232112 TTGCGATAGTCA
1 TTGCGATAGTCA
232124 AATGAATGTC
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
20 101 0.98
21 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:232837 original size:20 final size:20
Alignment explanation
Indices: 232814--232920 Score: 144
Period size: 20 Copynumber: 5.3 Consensus size: 20
232804 TAGAATCTCG
232814 TTGCGATTTACAG-ATTCGCA
1 TTGCGATTTAC-GTATTCGCA
232834 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
232854 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* ** *
232874 TTGCGATTTTCCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
232895 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
232915 TTGCGA
1 TTGCGA
232921 ATTAGGAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
19 1 0.01
20 59 0.79
21 15 0.20
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:232839 original size:40 final size:38
Alignment explanation
Indices: 232793--232925 Score: 119
Period size: 40 Copynumber: 3.3 Consensus size: 38
232783 GAAATTCAGT
232793 ATTGCGATAGTTAGAATCTCGTTGCGATTTACAG-ATTCGC
1 ATTGCGAT--TTAGAATCTCGTTGCGATTTAC-GTATTCGC
* *
232833 ATTGCGATTTACGTAT-TCGCATTGCGATTTACGTAATCGC
1 ATTGCGATTTA-GAATCTCG--TTGCGATTTACGTATTCGC
*
232873 ATTGCGATTTTCCA-AATTCGCGTTGCGATTTACGTATTCGC
1 ATTGCGA-TTT--AGAA-TCTCGTTGCGATTTACGTATTCGC
*
232914 ATTGCGAATTAG
1 ATTGCGATTTAG
232926 GAAAATCGCA
Statistics
Matches: 77, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
38 7 0.09
39 4 0.05
40 33 0.43
41 29 0.38
42 1 0.01
43 3 0.04
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (38 bp):
ATTGCGATTTAGAATCTCGTTGCGATTTACGTATTCGC
Found at i:232941 original size:41 final size:41
Alignment explanation
Indices: 232814--232942 Score: 154
Period size: 41 Copynumber: 3.2 Consensus size: 41
232804 TAGAATCTCG
*
232814 TTGCGATTTACAG-ATTCGCATTGCGATTTACG-TATTCGCA
1 TTGCGATTTAC-GTATTCGCATTGCGATTTACGAAATTCGCA
* * * *
232854 TTGCGATTTACGTAATCGCATTGCGATTTTCCAAATTCGCG
1 TTGCGATTTACGTATTCGCATTGCGATTTACGAAATTCGCA
* * *
232895 TTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCA
1 TTGCGATTTACGTATTCGCATTGCGATTTACGAAATTCGCA
*
232936 ATGCGAT
1 TTGCGAT
232943 AGTCAGAATC
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 27 0.36
41 46 0.62
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (41 bp):
TTGCGATTTACGTATTCGCATTGCGATTTACGAAATTCGCA
Found at i:232955 original size:61 final size:61
Alignment explanation
Indices: 232824--232961 Score: 172
Period size: 61 Copynumber: 2.3 Consensus size: 61
232814 TTGCGATTTA
* * * * * **
232824 CAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCATTGCGATTTTC
1 CAGAATCGCGTTGCGATTTACGTATTCGCATTGCGAATTACGAAATCGCAATGCGATAGTC
*
232885 CA-AATTCGCGTTGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAATGCGATAGT-
1 CAGAA-TCGCGTTGCGATTTACGTATTCGCATTGCGAATTACG-AAATCGCAATGCGATAGTC
232946 CAGAATCGCGTTGCGA
1 CAGAATCGCGTTGCGA
232962 ATCTGGAAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
60 1 0.02
61 49 0.74
62 16 0.24
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (61 bp):
CAGAATCGCGTTGCGATTTACGTATTCGCATTGCGAATTACGAAATCGCAATGCGATAGTC
Found at i:233724 original size:18 final size:19
Alignment explanation
Indices: 233692--233730 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
233682 AAATTTTAAC
*
233692 TTTTTATATTATTTAAATA
1 TTTTTATAGTATTTAAATA
*
233711 TTTTTATAGT-TTTAATTA
1 TTTTTATAGTATTTAAATA
233729 TT
1 TT
233731 AATATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTTATAGTATTTAAATA
Found at i:234867 original size:19 final size:19
Alignment explanation
Indices: 234843--234898 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
234833 ATGACCAATA
*
234843 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
234862 AAATCGCAACGCGATATCT
1 AAATCGCAACGCGATCTCT
234881 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
234899 CATTATCGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:234989 original size:21 final size:21
Alignment explanation
Indices: 234943--234990 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
234933 GATTTTGACT
*
234943 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTACAAA
* * *
234964 TTCGCGTTGCGATTTTAGAAA
1 ATCGCATTGCGATTTTACAAA
234985 ATCGCA
1 ATCGCA
234991 ACGCGAATAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (21 bp):
ATCGCATTGCGATTTTACAAA
Found at i:234996 original size:21 final size:20
Alignment explanation
Indices: 234981--235037 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 20
234971 TGCGATTTTA
*
234981 GAAAATCGCAACGCGAATAT
1 GAAAATCGCAACGCGATTAT
* * *
235001 GTAAATCGCGACGCGATTCT
1 GAAAATCGCAACGCGATTAT
** *
235021 GACTATCGCAATGCGAT
1 GAAAATCGCAACGCGAT
235038 AATACATAAT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGCGATTAT
Found at i:235050 original size:21 final size:21
Alignment explanation
Indices: 235025--235079 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
235015 GATTCTGACT
235025 ATCGCAATGCGATAATACATA
1 ATCGCAATGCGATAATACATA
*
235046 ATCGCAATGCGATAATACGTA
1 ATCGCAATGCGATAATACATA
*
235067 ATCGCAACGCGAT
1 ATCGCAATGCGAT
235080 TCTGACTATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (21 bp):
ATCGCAATGCGATAATACATA
Found at i:235070 original size:62 final size:62
Alignment explanation
Indices: 234982--235120 Score: 183
Period size: 62 Copynumber: 2.3 Consensus size: 62
234972 GCGATTTTAG
* * * *
234982 AAAATCGCAACGCG--AATATGTAAATCGCGACGCGATTCTGACTATCGCAATGCGATAATAC
1 AAAATCGCAATGCGATAATACGT-AATCGCAACGCGATTCTGACTATCGCAATACGATAATAC
* **
235043 ATAATCGCAATGCGATAATACGTAATCGCAACGCGATTCTGACTATCGCGTTACGATAATAC
1 AAAATCGCAATGCGATAATACGTAATCGCAACGCGATTCTGACTATCGCAATACGATAATAC
*
235105 AAAATCGTAATGCGAT
1 AAAATCGCAATGCGAT
235121 TTTCAAAGCG
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
61 12 0.18
62 49 0.73
63 6 0.09
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (62 bp):
AAAATCGCAATGCGATAATACGTAATCGCAACGCGATTCTGACTATCGCAATACGATAATAC
Found at i:235717 original size:20 final size:20
Alignment explanation
Indices: 235649--235721 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 20
235639 GCGATTTTAG
* **
235649 TTTCATGTTGCGATTTTC-A
1 TTTCACGTTGCGATAGTCAA
* *
235668 TTTCGCGTTGCAATAGTCAA
1 TTTCACGTTGCGATAGTCAA
*
235688 ATTCACGTTGCGATAGTCAA
1 TTTCACGTTGCGATAGTCAA
**
235708 TTTCGTGTTGCGAT
1 TTTCACGTTGCGAT
235722 TTTAAGTTTC
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 13 0.31
20 29 0.69
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (20 bp):
TTTCACGTTGCGATAGTCAA
Found at i:237723 original size:20 final size:20
Alignment explanation
Indices: 237628--237735 Score: 70
Period size: 20 Copynumber: 5.8 Consensus size: 20
237618 CCCGAAACTT
237628 AAAATCGCAATGCGAAAATG
1 AAAATCGCAATGCGAAAATG
** * ** **
237648 ACTATCGTAACACGAATTTG
1 AAAATCGCAATGCGAAAATG
**
237668 ACTATCGCAATGCG-AAAT-
1 AAAATCGCAATGCGAAAATG
237686 AAAATCGCAA--CG----TG
1 AAAATCGCAATGCGAAAATG
237700 AAAATCGCAATGCGAAAATG
1 AAAATCGCAATGCGAAAATG
*
237720 AAAATCGCAACGCGAA
1 AAAATCGCAATGCGAA
237736 TTTAGTTTCG
Statistics
Matches: 66, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
13 1 0.02
14 10 0.15
16 4 0.06
18 8 0.12
19 2 0.03
20 41 0.62
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (20 bp):
AAAATCGCAATGCGAAAATG
Found at i:237753 original size:19 final size:19
Alignment explanation
Indices: 237731--237773 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
237721 AAATCGCAAC
*
237731 GCGA-ATTTAGTTTCGCGTT
1 GCGATATTTA-TTTCGCATT
*
237750 GCGATTTTTATTTCGCATT
1 GCGATATTTATTTCGCATT
237769 GCGAT
1 GCGAT
237774 TATCTTGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (19 bp):
GCGATATTTATTTCGCATT
Found at i:237774 original size:19 final size:20
Alignment explanation
Indices: 237736--237774 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
237726 GCAACGCGAA
*
237736 TTTAGTTTCGCGTTGCGATT
1 TTTAGTTTCGCATTGCGATT
237756 TTTA-TTTCGCATTGCGATT
1 TTTAGTTTCGCATTGCGATT
237775 ATCTTGTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTAGTTTCGCATTGCGATT
Found at i:237805 original size:34 final size:37
Alignment explanation
Indices: 237767--237848 Score: 89
Period size: 40 Copynumber: 2.2 Consensus size: 37
237757 TTATTTCGCA
237767 TTGCGATT-ATCTT-G-TTACGATAGTCATTTCCATG
1 TTGCGATTCATCTTCGATTACGATAGTCATTTCCATG
* * *
237801 TTGCGATAGTCATTTTCGCATTACGATAGTCATTTTCGTG
1 TTGCGAT--TCATCTTCG-ATTACGATAGTCATTTCCATG
237841 TTGCGATT
1 TTGCGATT
237849 TTAAGTTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
34 7 0.18
36 1 0.03
37 4 0.10
38 2 0.05
40 25 0.64
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (37 bp):
TTGCGATTCATCTTCGATTACGATAGTCATTTCCATG
Found at i:237847 original size:20 final size:20
Alignment explanation
Indices: 237779--237847 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
237769 GCGATTATCT
* *
237779 TGTTACGATAGTCATTTCCA
1 TGTTACGATAGTCATTTTCG
*
237799 TGTTGCGATAGTCATTTTCG
1 TGTTACGATAGTCATTTTCG
**
237819 CATTACGATAGTCATTTTCG
1 TGTTACGATAGTCATTTTCG
*
237839 TGTTGCGAT
1 TGTTACGAT
237848 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (20 bp):
TGTTACGATAGTCATTTTCG
Found at i:238383 original size:21 final size:21
Alignment explanation
Indices: 238350--238410 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
238340 ATATCATCCC
**
238350 TCAAGAGTCCCCTCCCACCGT
1 TCAAGAGGACCCTCCCACCGT
** *
238371 TCAAGAGGACCCTGTCATCGT
1 TCAAGAGGACCCTCCCACCGT
* *
238392 TGAAGAGGTCCCTCCCACC
1 TCAAGAGGACCCTCCCACC
238411 ATTTTAGAGC
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.39, G:0.20, T:0.20
Consensus pattern (21 bp):
TCAAGAGGACCCTCCCACCGT
Found at i:238398 original size:42 final size:41
Alignment explanation
Indices: 238297--238413 Score: 119
Period size: 42 Copynumber: 2.8 Consensus size: 41
238287 GTCCGACTAA
* * * *
238297 CCTGTCATCGTTCAAGAGGCCTCTCCTATCATTCAAGAGGC
1 CCTGTCATCGTTCAAGAGTCCCCTCCCACCATTCAAGAGGC
* ** *
238338 CCATATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGAC
1 CC-TGTCATCGTTCAAGAGTCCCCTCCCACCATTCAAGAGG-C
*
238381 CCTGTCATCGTTGAAGAGGT-CCCTCCCACCATT
1 CCTGTCATCGTTCAAGA-GTCCCCTCCCACCATT
238414 TTAGAGCCCG
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.03
42 53 0.88
43 5 0.08
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (41 bp):
CCTGTCATCGTTCAAGAGTCCCCTCCCACCATTCAAGAGGC
Found at i:239997 original size:20 final size:20
Alignment explanation
Indices: 239969--240018 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
239959 TTCTCGTTGT
* *
239969 GATAGTCAAGTTCCCATTGC
1 GATAGTCAAATTCACATTGC
* *
239989 GATAATCAAATTCACGTTGC
1 GATAGTCAAATTCACATTGC
240009 GATAGTCAAA
1 GATAGTCAAA
240019 ATCGCAATGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (20 bp):
GATAGTCAAATTCACATTGC
Found at i:240029 original size:20 final size:20
Alignment explanation
Indices: 240015--240073 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
240005 TTGCGATAGT
240015 CAAAATCGCAATGCGAAAGC
1 CAAAATCGCAATGCGAAAGC
240035 CAAAATCGC-ATCGCGAAAGC
1 CAAAATCGCAAT-GCGAAAGC
*
240055 CAAAATCGCAACGCGAAAG
1 CAAAATCGCAATGCGAAAG
240074 TCAATTCGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 2 0.06
20 33 0.92
21 1 0.03
ACGTcount: A:0.44, C:0.27, G:0.20, T:0.08
Consensus pattern (20 bp):
CAAAATCGCAATGCGAAAGC
Found at i:240030 original size:40 final size:39
Alignment explanation
Indices: 239963--240304 Score: 187
Period size: 40 Copynumber: 8.8 Consensus size: 39
239953 ACGATTTTCT
* ** *
239963 CGTTGTGATAGTCAAGTTCCCATTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAAATCGCATTGCGA-AATCAAATTCA
* * * *
240003 CGTTGCGATAGTCAAAATCGCAATGCGAAAGCCAAAATCG
1 CGTTGCGATAGTCAAAATCGCATTGCGAAA-TCAAATTCA
* * * * ** *
240043 CATCGCGAAAGCCAAAATCGCAACGCGAAAGTC-AATTCG
1 CGTTGCGATAGTCAAAATCGCATTGCGAAA-TCAAATTCA
* * * * *
240082 CGTTGCGATGGTC-TAATACGCTTTGC--AAT---TTTCT
1 CGTTGCGATAGTCAAAAT-CGCATTGCGAAATCAAATTCA
* * *
240116 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAAATCGCATTGCGA-AATCAAATTCA
* * * * * *
240156 CGTTGCGATAGTCAAAATCGTAATACGAAAGCCAAAATCG
1 CGTTGCGATAGTCAAAATCGCATTGCGAAA-TCAAATTCA
*** * * ** *
240196 CAACGCGAAAGTC-AATTCGTGTTGCGATAATCAAATTCT
1 CGTTGCGATAGTCAAAATCGCATTGCGA-AATCAAATTCA
* * *
240235 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAAATCGCATTGCGA-AATCAAATTCA
*
240275 CGTTGCGATAGTCAAAATCGCAATGCGAAA
1 CGTTGCGATAGTCAAAATCGCATTGCGAAA
240305 GACAAAATCG
Statistics
Matches: 226, Mismatches: 64, Indels: 25
0.72 0.20 0.08
Matches are distributed among these distances:
34 21 0.09
35 2 0.01
36 1 0.00
37 5 0.02
38 3 0.01
39 49 0.22
40 145 0.64
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (39 bp):
CGTTGCGATAGTCAAAATCGCATTGCGAAATCAAATTCA
Found at i:240141 original size:20 final size:20
Alignment explanation
Indices: 240116--240444 Score: 242
Period size: 20 Copynumber: 16.9 Consensus size: 20
240106 GCAATTTTCT
*
240116 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
240136 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
240156 CGTTGCGATAGTCAAAATCG
1 CGTTGCGATAGTCAAATTCG
*** * * * *
240176 TAATACGAAAGCCAAAATCG
1 CGTTGCGATAGTCAAATTCG
*** *
240196 CAACGCGAAAGTC-AATTCG
1 CGTTGCGATAGTCAAATTCG
* * *
240215 TGTTGCGATAATCAAATTCT
1 CGTTGCGATAGTCAAATTCG
*
240235 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
240255 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
240275 CGTTGCGATAGTCAAAATCG
1 CGTTGCGATAGTCAAATTCG
** * * *
240295 CAATGCGAAAGACAAAATCG
1 CGTTGCGATAGTCAAATTCG
*** * *
240315 CAACGCGAAAGTC-AATTTG
1 CGTTGCGATAGTCAAATTCG
* * *
240334 CGTTGCGATGGTCTAATACG
1 CGTTGCGATAGTCAAATTCG
* *
240354 CTTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
240374 CGTTGCGATAGTGAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
240394 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
240408 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
240428 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
240445 GAATGTGTAA
Statistics
Matches: 244, Mismatches: 57, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
14 12 0.05
16 1 0.00
18 1 0.00
19 24 0.10
20 206 0.84
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:240243 original size:153 final size:153
Alignment explanation
Indices: 239929--240206 Score: 466
Period size: 153 Copynumber: 1.8 Consensus size: 153
239919 AGGCAAAAGA
* * * *
239929 CGTTGCAATAGTCTAATACGCTTTACGATTTTCTCGTTGTGATAGTCAAGTTCCCATTGCGATAA
1 CGTTGCGATAGTCTAATACGCTTTACAATTTTCTCGTTGCGATAGTCAAATTCCCATTGCGATAA
* *
239994 TCAAATTCACGTTGCGATAGTCAAAATCGCAATGCGAAAGCCAAAATCGCATCGCGAAAGCCAAA
66 TCAAATTCACGTTGCGATAGTCAAAATCGCAATACGAAAGCCAAAATCGCAACGCGAAAGCCAAA
240059 ATCGCAACGCGAAAGTCAATTCG
131 ATCGCAACGCGAAAGTCAATTCG
* * *
240082 CGTTGCGATGGTCTAATACGCTTTGCAATTTTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAA
1 CGTTGCGATAGTCTAATACGCTTTACAATTTTCTCGTTGCGATAGTCAAATTCCCATTGCGATAA
*
240147 TCAAATTCACGTTGCGATAGTCAAAATCGTAATACGAAAGCCAAAATCGCAACGCGAAAG
66 TCAAATTCACGTTGCGATAGTCAAAATCGCAATACGAAAGCCAAAATCGCAACGCGAAAG
240207 TCAATTCGTG
Statistics
Matches: 115, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
153 115 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (153 bp):
CGTTGCGATAGTCTAATACGCTTTACAATTTTCTCGTTGCGATAGTCAAATTCCCATTGCGATAA
TCAAATTCACGTTGCGATAGTCAAAATCGCAATACGAAAGCCAAAATCGCAACGCGAAAGCCAAA
ATCGCAACGCGAAAGTCAATTCG
Found at i:240264 original size:119 final size:119
Alignment explanation
Indices: 240112--240402 Score: 438
Period size: 119 Copynumber: 2.4 Consensus size: 119
240102 CTTTGCAATT
*
240112 TTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAAATCGT
1 TTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAAATCGC
* *
240177 AATACGAAAGCCAAAATCGCAACGCGAAAGTCAATTCGTGTTGCGATAATCAAA
66 AATACGAAAGACAAAATCGCAACGCGAAAGTCAATTCGCGTTGCGATAATCAAA
240231 TTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAAATCGC
1 TTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAAATCGC
* * ** *
240296 AATGCGAAAGACAAAATCGCAACGCGAAAGTCAATTTGCGTTGCGATGGTCTAA
66 AATACGAAAGACAAAATCGCAACGCGAAAGTCAATTCGCGTTGCGATAATCAAA
* * * * * * * *
240350 TACGCTTTGCGATAATCAAATTCGCGTTGCGATAGTGAAATTCGCGTTGCGAT
1 TTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGAT
240403 TTTTGCGTTG
Statistics
Matches: 156, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 156 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (119 bp):
TTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAAATCGC
AATACGAAAGACAAAATCGCAACGCGAAAGTCAATTCGCGTTGCGATAATCAAA
Found at i:240291 original size:99 final size:99
Alignment explanation
Indices: 240116--240394 Score: 262
Period size: 99 Copynumber: 2.8 Consensus size: 99
240106 GCAATTTTCT
* * * * *
240116 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAAAT-CGTAAT
1 CGTTGCGATAATCAAATTCTCGTTGCGATAGTCAAATTCACGTTGCGATAATCAAATTCCGT--T
* * * * *
240180 ACGAAAGCCAAAATCGCAACGCGAAAGTC-AATTCG
64 GCGATAGTCAAAATCGCAACGCGAAAGACAAAATCG
* *
240215 TGTTGCGATAATCAAATTCTCGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCACGTTG
1 CGTTGCGATAATCAAATTCTCGTTGCGATAGTCAAATTCACGTTGCGATAATCAAATTC-CGTTG
*
240280 CGATAGTCAAAATCGCAATGCGAAAGACAAAATCG
65 CGATAGTCAAAATCGCAACGCGAAAGACAAAATCG
*** * * * * *
240315 CAACGCGA-AAGTC-AATT-TGCGTTGCGATGGTCTAATACGCTTTGCGATAATCAAATTCGCGT
1 CGTTGCGATAA-TCAAATTCT-CGTTGCGATAGTCAAATTCACGTTGCGATAATCAAATTC-CGT
* *
240377 TGCGATAGTGAAATTCGC
63 TGCGATAGTCAAAATCGC
240395 GTTGCGATTT
Statistics
Matches: 150, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
98 1 0.01
99 135 0.90
100 11 0.07
101 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (99 bp):
CGTTGCGATAATCAAATTCTCGTTGCGATAGTCAAATTCACGTTGCGATAATCAAATTCCGTTGC
GATAGTCAAAATCGCAACGCGAAAGACAAAATCG
Found at i:240667 original size:140 final size:140
Alignment explanation
Indices: 240415--240697 Score: 530
Period size: 140 Copynumber: 2.0 Consensus size: 140
240405 TTGCGTTGCG
*
240415 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAACAAGTGATAACAACTGAACAGATCA
*
240480 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAATTTACACATAA
66 TAGCAATGTTCAAAATCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAATTTACACATAA
240545 AATACACATA
131 AATACACATA
240555 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAACAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAACAAGTGATAACAACTGAACAGATCA
* *
240620 TAGCAATGTTCAAAATCAAGTTACTAATACATGTCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAAATCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAATTTACACATAA
240685 AATACACATA
131 AATACACATA
240695 ATA
1 ATA
240698 AAATGTTTGC
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 139 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAACAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAAATCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAATTTACACATAA
AATACACATA
Found at i:240778 original size:18 final size:18
Alignment explanation
Indices: 240755--240789 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
240745 AAGCCGGTTG
*
240755 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
240773 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
240790 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:243085 original size:24 final size:24
Alignment explanation
Indices: 243058--243104 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
243048 ATCATTAAAA
243058 TCCGAGTATTGACCAAGATCAAAG
1 TCCGAGTATTGACCAAGATCAAAG
*
243082 TCCGGGTATTGACCAAGATCAAA
1 TCCGAGTATTGACCAAGATCAAA
243105 TTTTGAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
TCCGAGTATTGACCAAGATCAAAG
Found at i:243953 original size:20 final size:20
Alignment explanation
Indices: 243930--244008 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 20
243920 GTGTTGCAAA
243930 AGTCAGAATCGCGTTGCGAT
1 AGTCAGAATCGCGTTGCGAT
*
243950 AGTCAGAATCGCTTTGCGAT
1 AGTCAGAATCGCGTTGCGAT
* * * *
243970 -TTACATATTCGCATTGCGAT
1 AGT-CAGAATCGCGTTGCGAT
*
243990 AGTCAAAATCGCGTTGCGA
1 AGTCAGAATCGCGTTGCGA
244009 ATCTGGAAAC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (20 bp):
AGTCAGAATCGCGTTGCGAT
Found at i:244046 original size:20 final size:19
Alignment explanation
Indices: 244023--244068 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
244013 GGAAACTGAT
* *
244023 TTGCGATAATGGAGATCGCG
1 TTGCGAT-ATAGAGATCGCA
*
244043 TTGCGATTTAGAGATCGCA
1 TTGCGATATAGAGATCGCA
244062 TTGCGAT
1 TTGCGAT
244069 TTTATTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (19 bp):
TTGCGATATAGAGATCGCA
Found at i:244058 original size:19 final size:19
Alignment explanation
Indices: 244034--244070 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
244024 TGCGATAATG
*
244034 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
244053 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
244071 TATTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:244794 original size:50 final size:50
Alignment explanation
Indices: 244673--244787 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 50
244663 CAGTAAAGTA
** * ** * *
244673 CGCCCCCTGAATCGCGTTATACATTGATTTGGCGTCACGTGAGTATAGCG
1 CGCCCCCTGACCCGCGATATACGGTGATCTGGCGCCACGTGAGTATAGCG
* *
244723 CGCCCCCTGCCCCGCGATATACGGTGATCTGGCGCCACGTGGGTATAGCG
1 CGCCCCCTGACCCGCGATATACGGTGATCTGGCGCCACGTGAGTATAGCG
* *
244773 TGCCCCCTGATCCGC
1 CGCCCCCTGACCCGC
244788 ACTATACCTG
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.16, C:0.34, G:0.28, T:0.23
Consensus pattern (50 bp):
CGCCCCCTGACCCGCGATATACGGTGATCTGGCGCCACGTGAGTATAGCG
Found at i:244949 original size:20 final size:19
Alignment explanation
Indices: 244918--244956 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
244908 TTATCACACC
*
244918 AAATTTTCTCAAATTCTCT
1 AAATTTTCTCAAATACTCT
244937 AAATTTCTCTCAAATACTCT
1 AAATTT-TCTCAAATACTCT
244957 CTTTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTTTCTCAAATACTCT
Found at i:245036 original size:17 final size:18
Alignment explanation
Indices: 244999--245039 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
244989 CTATTATGTA
*
244999 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
245017 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
245034 TTTACT
1 TTTACT
245040 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:245295 original size:111 final size:111
Alignment explanation
Indices: 245101--245433 Score: 612
Period size: 111 Copynumber: 3.0 Consensus size: 111
245091 TGGAAATCAT
*
245101 ATATCTCTACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
245166 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
** *
245212 ATATCTCGACACTTTGTTGATATAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTACTAA
1 ATATCTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
245277 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
245323 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
245388 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
245434 TTTTTGGAAT
Statistics
Matches: 213, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 213 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.46
Consensus pattern (111 bp):
ATATCTCGACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:246963 original size:18 final size:18
Alignment explanation
Indices: 246940--246979 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
246930 ACAGCAGCCA
*
246940 CCGCAGCCATTTATGATG
1 CCGCAGCCATATATGATG
246958 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
246976 CCGC
1 CCGC
246980 CATCGCCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.23
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:247326 original size:3 final size:3
Alignment explanation
Indices: 247318--247367 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
247308 ACCTGCTCAG
* * ** *
247318 GAC GAC GAC GAT GAC GAC GAC GAC GAT GGT GAC GAC GAC GAC GAT GAC
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC
247366 GA
1 GA
247368 TGATGACAGC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.24, G:0.36, T:0.08
Consensus pattern (3 bp):
GAC
Found at i:247338 original size:15 final size:15
Alignment explanation
Indices: 247318--247367 Score: 73
Period size: 15 Copynumber: 3.1 Consensus size: 15
247308 ACCTGCTCAG
247318 GACGACGACGATGAC
1 GACGACGACGATGAC
247333 GACGACGACGATGGTGAC
1 GACGACGACGA---TGAC
247351 GACGACGACGATGAC
1 GACGACGACGATGAC
247366 GA
1 GA
247368 TGATGACAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 17 0.53
18 15 0.47
ACGTcount: A:0.32, C:0.24, G:0.36, T:0.08
Consensus pattern (15 bp):
GACGACGACGATGAC
Found at i:247362 original size:18 final size:18
Alignment explanation
Indices: 247318--247364 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
247308 ACCTGCTCAG
*
247318 GACGACGACGATGACGAC
1 GACGACGATGATGACGAC
*
247336 GACGACGATGGTGACGAC
1 GACGACGATGATGACGAC
247354 GACGACGATGA
1 GACGACGATGA
247365 CGATGATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.36, T:0.09
Consensus pattern (18 bp):
GACGACGATGATGACGAC
Found at i:247627 original size:35 final size:33
Alignment explanation
Indices: 247588--247672 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
247578 ATTTTTGAGT
247588 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAAT-TC--TTATTG
*
247623 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATTCTTATTG
* *
247658 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
247673 TAAATACCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 3 0.07
38 12 0.28
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATTCTTATTG
Found at i:251399 original size:51 final size:50
Alignment explanation
Indices: 251295--251424 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 50
251285 CTACGTGGCG
* * *
251295 TATAGCGCGG-AGCA-GGGG-GCGCTATACCCCACGTGTAACCCAGTCAGCG
1 TATAGCGCGGTA-CAGGGGGCGCGCTATACTCCACGTG-AACCCAGTCAACA
*
251344 TATAGCGCGGTACAGGGGGCGCGCTATACTCCACGTG-ACGCCAATTCAACA
1 TATAGCGCGGTACAGGGGGCGCGCTATACTCCACGTGAAC-CC-AGTCAACA
* *
251395 TATAGCGCGGTTCAGGGGGCGCGCTTTACT
1 TATAGCGCGGTACAGGGGGCGCGCTATACT
251425 GCTACGGGTG
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
49 14 0.20
50 7 0.10
51 49 0.70
ACGTcount: A:0.22, C:0.28, G:0.32, T:0.18
Consensus pattern (50 bp):
TATAGCGCGGTACAGGGGGCGCGCTATACTCCACGTGAACCCAGTCAACA
Found at i:257318 original size:19 final size:20
Alignment explanation
Indices: 257278--257315 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
257268 TTATATGATA
257278 GGGGTATCGGTACCCATAAG
1 GGGGTATCGGTACCCATAAG
257298 GGGGTATCGGTACCCATA
1 GGGGTATCGGTACCCATA
257316 GGGCATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.34, T:0.21
Consensus pattern (20 bp):
GGGGTATCGGTACCCATAAG
Found at i:257727 original size:13 final size:13
Alignment explanation
Indices: 257711--257737 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
257701 AAAATCATTT
257711 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
257724 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
257737 T
1 T
257738 ACTTCCCCTT
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:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (13 bp):
TTGAAAAAAAAAA
Found at i:260011 original size:22 final size:23
Alignment explanation
Indices: 259963--260024 Score: 101
Period size: 23 Copynumber: 2.7 Consensus size: 23
259953 CCAGAACACG
259963 AAGGGGGTATC-AGTACCCATTCA
1 AAGGGGGTATCGA-TACCCATTCA
259986 AAGGGGGTATCGATACCCATTC-
1 AAGGGGGTATCGATACCCATTCA
260008 AAGGGGGTATCGATACC
1 AAGGGGGTATCGATACC
260025 TGGCGCACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
22 17 0.45
23 20 0.53
24 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (23 bp):
AAGGGGGTATCGATACCCATTCA
Found at i:268430 original size:83 final size:82
Alignment explanation
Indices: 268261--268552 Score: 203
Period size: 83 Copynumber: 3.5 Consensus size: 82
268251 TACAACTTTT
* * * * * *
268261 TTATACAAACT-CCGCAATATGATTCATCTATAGTGGCGTTTTTTAACAAACGCCGCAACAGAGT
1 TTATACAAA-TGCCACAATAGGGTTCATATATAGTGGCATTTTTTAACAAACGCCACAACAGAGT
*
268325 AGTACTTTAGCGGCGTTG
65 AATACTTTAGCGGCGTTG
* ** * *
268343 TTATATAAATGCCGTAATAGGGTTCATATATAGTGGCATTTTTTCAACAAACGTCACACCAGAGT
1 TTATACAAATGCCACAATAGGGTTCATATATAGTGGCATTTTTT-AACAAACGCCACAACAGAGT
* *
268408 AATACTATT-GTGGTGATT-
65 AATACT-TTAGCGGCG-TTG
* * *** * * ** *
268426 TTATACAAATGCTACAATAGGGTTCGTATATAGTGATTTTTTTTTTAACAAATGTCGTAATAGAG
1 TTATACAAATGCCACAATAGGGTTCATATATAGTG--GCATTTTTTAACAAACGCCACAACAGAG
* * * *
268491 TAGTAATTTAGCGGTGTTT
64 TAATACTTTAGCGGCGTTG
* * * * * *
268510 TTATTCAAACGACATAATAGGGTTCATCTATAATGGCATTTTT
1 TTATACAAATGCCACAATAGGGTTCATATATAGTGGCATTTTT
268553 ATTAGGAAAA
Statistics
Matches: 163, Mismatches: 39, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
81 1 0.01
82 41 0.25
83 60 0.37
84 55 0.34
85 6 0.04
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.36
Consensus pattern (82 bp):
TTATACAAATGCCACAATAGGGTTCATATATAGTGGCATTTTTTAACAAACGCCACAACAGAGTA
ATACTTTAGCGGCGTTG
Found at i:278115 original size:171 final size:170
Alignment explanation
Indices: 277886--278225 Score: 639
Period size: 173 Copynumber: 2.0 Consensus size: 170
277876 AATGAGAATT
277886 GACCTATAGGAAGTTCCTTGGATAATCAGACTGGAATTCCAATTGTTCAGTTAAGCTTCCTGGTA
1 GACCTATAGGAAGTTCCTTGGATAATCAGACTGGAATTCCAATTGTTCAGTTAAGCTTCCTGGTA
277951 ACCTTAA-GGAAATTTCCAAGACCCTTTTGAGCAAGCAATTC-AAAATGCAAGATAAAAGAAGGG
66 ACCTTAAGGGAAATTTCCAAGACCCTTTTGAGCAAGCAATTCAAAAATGCAAGATAAAAGAAGGG
278014 GTTAAGGTTCAATGTTCAGAAACCATTATTGCAACAAAAG
131 GTTAAGGTTCAATGTTCAGAAACCATTATTGCAACAAAAG
278054 GACCTATAAGGAAGTTCCTTGGATAAATCAGACTGGAATTCCAAATTGTTCAGTTAAGCTTCCTG
1 GACCTAT-AGGAAGTTCCTTGGAT-AATCAGACTGGAATTCC-AATTGTTCAGTTAAGCTTCCTG
278119 GTAACCTTAAGGGAAATTTCCAAGACCCTTTTGAGCAAGCAATTCAAAAATGCAAGATAAAAGAA
63 GTAACCTTAAGGGAAATTTCCAAGACCCTTTTGAGCAAGCAATTCAAAAATGCAAGATAAAAGAA
278184 GGGGTTAAGGTTCAATGTTCAGAAACCATTATTGCAACAAAA
128 GGGGTTAAGGTTCAATGTTCAGAAACCATTATTGCAACAAAA
278226 ACTAATGTAA
Statistics
Matches: 167, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
168 7 0.04
169 16 0.10
170 17 0.10
171 32 0.19
172 34 0.20
173 61 0.37
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (170 bp):
GACCTATAGGAAGTTCCTTGGATAATCAGACTGGAATTCCAATTGTTCAGTTAAGCTTCCTGGTA
ACCTTAAGGGAAATTTCCAAGACCCTTTTGAGCAAGCAATTCAAAAATGCAAGATAAAAGAAGGG
GTTAAGGTTCAATGTTCAGAAACCATTATTGCAACAAAAG
Found at i:279881 original size:13 final size:11
Alignment explanation
Indices: 279863--279905 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
279853 CTCATCCAGC
279863 AAAGAAAGAAGAA
1 AAAGAAA-AA-AA
279876 AAAG-AAAAAA
1 AAAGAAAAAAA
279886 AAAGAAAAAAA
1 AAAGAAAAAAA
279897 AAAGGAAAA
1 AAA-GAAAA
279906 TTGAATCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 6 0.21
11 11 0.39
12 7 0.25
13 4 0.14
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:279905 original size:10 final size:10
Alignment explanation
Indices: 279874--279898 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
279864 AAGAAAGAAG
279874 AAAAAGAAAA
1 AAAAAGAAAA
279884 AAAAAGAAAA
1 AAAAAGAAAA
279894 AAAAA
1 AAAAA
279899 AGGAAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:284628 original size:22 final size:22
Alignment explanation
Indices: 284597--284651 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
284587 ATCTACACTC
*
284597 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
284619 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
284641 TTCAAAGATGA
1 TTCAAAGATGA
284652 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:285289 original size:112 final size:112
Alignment explanation
Indices: 285055--286636 Score: 2032
Period size: 115 Copynumber: 14.0 Consensus size: 112
285045 GCAAAAAGTC
* * * * * *
285055 AAATTCATCACTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCT
1 AAATTCATCATTTGATGGATTAACATTGCCA-AGTAGAGTTCATAATGAGAAGAACTCGTCATCT
* *
285116 GAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAGCCTTTTGTTT
65 GAAGAA-GAA-AA-AA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
285168 AAATTCATCATTTGATGGATTAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
* * *
285233 AAGAAGAAAAAATTCATAATGAGAAGAATTTGTTCAATCTTTTGCTC
66 AAGAAGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * * * *
285280 AAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCT
1 AAATTCATCATTTGATGGATTAACATTGCCA-AGTAGAGTTCATAATGAGAAGAACTCGTCATCT
*
285341 GAAGAATGAAGAAGAAATTCATAATGAGAAGAATCTGTTCAACCTTTTGTTT
65 GAAGAA-G-A-AA-AAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
285393 AAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
*
285458 AAGAGGAAGAAGAAGTTCATAA-GAAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGAAGAA-AA-AA-TTCATAATG-AGAAGAATTTGTTCAACCTTTTGTTT
*
285508 AAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
* *
285573 AAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGAAGAA-AA-AA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
285623 AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
* * * *
285688 AAGAAGAAGAAGTTCATAATAAGAAGAAATTGTTCAACCTTTTGTTT
66 AAGAAGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
285735 AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
* * * *
285800 AAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTGCTC
66 AAGAAGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * * * * *
285847 AAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATTATGAGAAGAA--C-TCATCT
1 AAATTCATCATTTGATGGATTAACATTGCCA-AGTAGAGTTCATAATGAGAAGAACTCGTCATCT
285908 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
65 GAAGAA-G-A-AA-AAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
285960 AAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
* *
286025 AAGAGGAAGAATAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGAAGAA-AA-AA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
286075 AAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
* *
286140 AAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGAAGAA-AA-AA-TTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
286190 AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
* * * *
286255 AAGACGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGAAGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* *
286302 AAATTCATCATTTGATGGATTAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
* * *
286367 AAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGAAGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * * * *
286414 AAATCCATCACTCGATGGATCAACATTGCCAGGTAGAAGGTCATAATAAGAAGAA--C-TCATCT
1 AAATTCATCATTTGATGGATTAACATTGCCAAGTAG-AGTTCATAATGAGAAGAACTCGTCATCT
*
286476 GAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
65 G-A-A-GAAGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * * * *
286527 CAATTCATCACTCGATGGATCAACATTGTCAGGTAGAAGGTCATAATGAGAAGAA--C-TCATCT
1 AAATTCATCATTTGATGGATTAACATTGCCAAGTAG-AGTTCATAATGAGAAGAACTCGTCATCT
* *
286589 GAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
65 GAAGAAGAA-AA-AA-TTCATAATGAGAAGAATTTGTTCAACCTTTTG
286637 CATGACTCTA
Statistics
Matches: 1335, Mismatches: 97, Indels: 74
0.89 0.06 0.05
Matches are distributed among these distances:
109 24 0.02
110 16 0.01
111 6 0.00
112 440 0.33
113 361 0.27
114 13 0.01
115 441 0.33
116 34 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (112 bp):
AAATTCATCATTTGATGGATTAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
AAGAAGAAAAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
Found at i:285502 original size:115 final size:115
Alignment explanation
Indices: 285055--286636 Score: 2211
Period size: 112 Copynumber: 14.0 Consensus size: 115
285045 GCAAAAAGTC
* * * * * * *
285055 AAATTCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTG
* *
285117 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAGCCTTTTGTTT
66 AAG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
285168 AAATTCATCATTTGATGGATTAACATTGCCA-AGTAGAGTTCATAATGAGAAGAACTCGTCATCT
1 AAATTCATCATTTGATGGATTAACATTGCCAGA-TAGAGTTCATAATGAGAAGAACTCGTCATCT
* * * *
285232 GAAGAAGAA-AA-AA-TTCATAATGAGAAGAATTTGTTCAATCTTTTGCTC
65 GAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * * * * *
285280 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA--C-TCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTG
* * *
285342 AAGAATGAAGAAGAAATTCATAATGAGAAGAATCTGTTCAACCTTTTGTTT
66 AAG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
285393 AAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTG
285458 AAGAGGAAGAAGAAGTTCATAA-GAAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGAGGAAGAAGAAGTTCATAATG-AGAAGAATTTGTTCAACCTTTTGTTT
*
285508 AAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTG
*
285573 AAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
285623 AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTG
* *
285688 -A-A-GAAGAAGAAGTTCATAATAAGAAGAAATTGTTCAACCTTTTGTTT
66 AAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
285735 AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTG
* * * *
285800 -A-A-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTGCTC
66 AAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * * * * * *
285847 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATTATGAGAAGAA--C-TCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTG
*
285909 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
66 AAG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
285960 AAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTG
* *
286025 AAGAGGAAGAATAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
286075 AAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTG
*
286140 AAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
*
286190 AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTG
* *
286255 -A-A-GACGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* *
286302 AAATTCATCATTTGATGGATTAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTG
* * *
286367 -A-A-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * * * *
286414 AAATCCATCACTCGATGGATCAACATTGCCAGGTAGAAGGTCATAATAAGAAGAA--C-TCATCT
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAG-AGTTCATAATGAGAAGAACTCGTCATCT
*
286476 GAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
65 GAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * * * *
286527 CAATTCATCACTCGATGGATCAACATTGTCAGGTAGAAGGTCATAATGAGAAGAA--C-TCATCT
1 AAATTCATCATTTGATGGATTAACATTGCCAGATAG-AGTTCATAATGAGAAGAACTCGTCATCT
*
286589 GAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
65 GAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
286637 CATGACTCTA
Statistics
Matches: 1345, Mismatches: 99, Indels: 50
0.90 0.07 0.03
Matches are distributed among these distances:
109 17 0.01
110 14 0.01
111 4 0.00
112 454 0.34
113 375 0.28
114 5 0.00
115 446 0.33
116 30 0.02
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (115 bp):
AAATTCATCATTTGATGGATTAACATTGCCAGATAGAGTTCATAATGAGAAGAACTCGTCATCTG
AAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
Found at i:286197 original size:567 final size:567
Alignment explanation
Indices: 285055--286636 Score: 2728
Period size: 567 Copynumber: 2.8 Consensus size: 567
285045 GCAAAAAGTC
* * * * * * * *
285055 AAATTCATCACTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATC-TGA
1 AAATTCATCATTTGATGGATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCAT-C
* *
285118 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAGCCTTTTGTTTAAATTCATCATTTGA
64 TGAA-GAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
* *
285183 TGGATTAACATTGCCAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAAAAATTC
128 TGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTC
285248 ATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGA
193 ATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGA
* *
285313 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAATGAAGAAGAAATTCATAATGAGAAGAATCTG
258 GAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTG
285378 TTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGA
323 TTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGA
*
285443 AGAACTCGTCATCTGAAGAGGAAGAAGAAGTTCATAAGAAGAAGAATTTGTTCAACCTTTTGTTT
388 AGAACTCGTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
285508 AAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTG
453 AAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTG
285573 AAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
518 AAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
285623 AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
*
285688 AAGAAGAAGAAGTTCATAATAAGAAGAAATTGTTCAACCTTTTGTTTAAATTCATCATTTGATGG
66 AAGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGG
285753 ATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATA
131 ATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATA
285818 ATGAGAAGAATTTGTTCAATCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
196 ATGAGAAGAATTTGTTCAATCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
*
285883 AGTTCATTATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
261 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
285948 AACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGA
326 AACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGA
*
286013 ACTCGTCATCTGAAGAGGAAGAATAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAA
391 ACTCGTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAA
286078 TTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTGAAG
456 TTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTGAAG
286143 AGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
521 AGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
286190 AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
*
286255 AAGACGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGG
66 AAGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGG
*
286320 ATTAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATA
131 ATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATA
* * * * *
286385 ATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTGCCAG-GTA
196 ATGAGAAGAATTTGTTCAATCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-A
* *
286449 GAAGGTCATAATAAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGT
260 -AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
* * * * * ** *
286513 TCAACCTTTTGTTTCAATTCATCACTCGATGGATCAACATTGTCAGGTAGAAGGTCATAATGAGA
324 TCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAAATAG-AGTTCATAATGAGA
* *
286578 AGAA--C-TCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
388 AGAACTCGTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTG
286637 CATGACTCTA
Statistics
Matches: 969, Mismatches: 40, Indels: 13
0.95 0.04 0.01
Matches are distributed among these distances:
565 51 0.05
566 2 0.00
567 817 0.84
568 98 0.10
569 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (567 bp):
AAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
AAGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGG
ATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTCATA
ATGAGAAGAATTTGTTCAATCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
AACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGA
ACTCGTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAA
TTCATCATTTGATGGATTAACATTGCCAAATAGAGTTCATAATGAGAAGAACTCGTCATCTGAAG
AGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
Found at i:297049 original size:46 final size:46
Alignment explanation
Indices: 296982--297074 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
296972 TTTTAGCAAC
296982 TATAAAAAATCTCTTTATTCCTGTTCGAATTTAAACACAATATTAG
1 TATAAAAAATCTCTTTATTCCTGTTCGAATTTAAACACAATATTAG
297028 TATAAAAAATCTCTTTATTCCTGTTCGAATTTAAACACAATATTAG
1 TATAAAAAATCTCTTTATTCCTGTTCGAATTTAAACACAATATTAG
297074 T
1 T
297075 GTAAGTGTGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (46 bp):
TATAAAAAATCTCTTTATTCCTGTTCGAATTTAAACACAATATTAG
Found at i:297596 original size:20 final size:21
Alignment explanation
Indices: 297571--297622 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
297561 TTTTCCCAAT
*
297571 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
297591 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
297612 TCGCAATGCGA
1 TCGCAATGCGA
297623 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:297636 original size:20 final size:20
Alignment explanation
Indices: 297611--297745 Score: 112
Period size: 20 Copynumber: 6.7 Consensus size: 20
297601 AATTGGGAAA
297611 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
297631 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
297651 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
297672 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
297692 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * * *
297712 TTCTCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
297732 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
297746 TTTCAAAGCG
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.04
20 65 0.69
21 23 0.24
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:297655 original size:61 final size:61
Alignment explanation
Indices: 297608--297739 Score: 174
Period size: 61 Copynumber: 2.2 Consensus size: 61
297598 GCGAATTGGG
* * * * *
297608 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
297669 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCTCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
*
297730 ATAATCGCAA
1 AAAATCGCAA
297740 TGCGATTTTC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:297941 original size:22 final size:22
Alignment explanation
Indices: 297913--297956 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
297903 CACTCTCTCA
297913 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
297935 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
297957 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:298102 original size:17 final size:17
Alignment explanation
Indices: 298082--298117 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
298072 GTTTTTCATA
298082 TTGAAATTGATGATAAG
1 TTGAAATTGATGATAAG
298099 TTGAAATTGATGATAAG
1 TTGAAATTGATGATAAG
298116 TT
1 TT
298118 TACTGGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (17 bp):
TTGAAATTGATGATAAG
Found at i:298246 original size:20 final size:20
Alignment explanation
Indices: 298223--298260 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
298213 TTAGTTTCGC
298223 GTTGCGATAGTCATTTTCTT
1 GTTGCGATAGTCATTTTCTT
**
298243 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
298261 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.18, T:0.53
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCTT
Found at i:299606 original size:18 final size:18
Alignment explanation
Indices: 299580--299624 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
299570 TCCACTTCGG
*
299580 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
299598 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
299616 GAGCCATCA
1 GAGCCATCA
299625 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:300455 original size:21 final size:21
Alignment explanation
Indices: 300429--300471 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
300419 ATTCTGGGTT
* *
300429 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
300450 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
300471 A
1 A
300472 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:300547 original size:68 final size:67
Alignment explanation
Indices: 300451--300601 Score: 180
Period size: 69 Copynumber: 2.2 Consensus size: 67
300441 ACCCATTCAA
* *
300451 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGCTAGAGGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCTTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATA--CCCA
*
300515 GGGG
64 GAGG
* * * * *
300519 GGGGAACCGATACCTCC-TCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCAT
1 GGGGAACCGATACC-CCTTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCAG
300583 AGG
65 AGG
*
300586 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
300602 CATGAGAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
66 2 0.03
67 19 0.26
68 24 0.33
69 27 0.38
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (67 bp):
GGGGAACCGATACCCCTTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCAGA
GG
Found at i:300939 original size:29 final size:29
Alignment explanation
Indices: 300905--300974 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
300895 CATATTATGA
**
300905 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
**
300934 TACATGACATGAATTCATATTGTATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
300963 TACATGACATGA
1 TACATGACATGA
300975 TTATGCAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:301032 original size:30 final size:31
Alignment explanation
Indices: 300990--301049 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
300980 CAGAAAAGTT
*
300990 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
301021 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
301050 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:301343 original size:22 final size:22
Alignment explanation
Indices: 301269--301335 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
301259 TTATGGACAT
301269 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
301291 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
301313 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
301335 A
1 A
301336 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:306632 original size:21 final size:21
Alignment explanation
Indices: 306606--306648 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
306596 ATTCTGGGTT
* *
306606 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
306627 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
306648 A
1 A
306649 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:306723 original size:67 final size:69
Alignment explanation
Indices: 306628--306779 Score: 193
Period size: 68 Copynumber: 2.2 Consensus size: 69
306618 ACCCATTCAA
* * *
306628 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGCTAGAGGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCTTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCACA
306692 -GGG
66 GGGG
* * * * *
306695 GGGGAACCGATACCTCC-TCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCAT
1 GGGGAACCGATACC-CCTTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCAC
306759 AGGGG
65 AGGGG
*
306764 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
306780 CATGAGAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
67 24 0.33
68 33 0.45
69 16 0.22
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (69 bp):
GGGGAACCGATACCCCTTCAACGAATATGAAATTCCAGAATGCTAGAGGGGAATCGATACCCACA
GGGG
Found at i:307117 original size:29 final size:29
Alignment explanation
Indices: 307083--307152 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
307073 CATATTATGA
**
307083 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
**
307112 TACATGACATGAATTCATATTGTATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
307141 TACATGACATGA
1 TACATGACATGA
307153 TTATGCAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:307210 original size:30 final size:31
Alignment explanation
Indices: 307168--307227 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
307158 CAGAAAAGTT
*
307168 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
307199 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
307228 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:307521 original size:22 final size:22
Alignment explanation
Indices: 307447--307513 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
307437 TTATGGACAT
307447 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
307469 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
307491 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
307513 A
1 A
307514 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:308493 original size:20 final size:20
Alignment explanation
Indices: 308468--308513 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
308458 TAGTTTACTT
*
308468 TCGCAACATGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
308488 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
308508 TCGCAA
1 TCGCAA
308514 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:308522 original size:19 final size:20
Alignment explanation
Indices: 308479--308534 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
308469 CGCAACATGA
308479 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
308499 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
308518 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
308535 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:308542 original size:14 final size:14
Alignment explanation
Indices: 308523--308579 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
308513 ATGCGAAATG
308523 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
308537 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
308556 AAAATCGCAACGAC
1 AAAATCGCAACGAC
308570 AAAATCGCAA
1 AAAATCGCAA
308580 TGCGAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.51, C:0.23, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:308549 original size:33 final size:33
Alignment explanation
Indices: 308507--308598 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
308497 GGAAATGGCT
308507 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
308540 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
308573 ATCGCAATGCGAAAT-AAAAGTCGCAA
1 ATCGCAATGCGAAATGAAAA-TCGCAA
308599 TGCGATTTGT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
32 4 0.07
33 54 0.93
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:308561 original size:19 final size:19
Alignment explanation
Indices: 308507--308603 Score: 90
Period size: 19 Copynumber: 5.6 Consensus size: 19
308497 GGAAATGGCT
*
308507 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATCAAA
308526 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATCAAA
*
308540 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATCAAA
308559 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATCAAA
308573 ATCGCAATGCGAAAT-AAA
1 ATCGCAATGCGAAATCAAA
308591 AGTCGCAATGCGA
1 A-TCGCAATGCGA
308604 TTTGTGTTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 22
0.72 0.03 0.25
Matches are distributed among these distances:
14 20 0.31
15 2 0.03
16 4 0.06
17 4 0.06
18 6 0.09
19 28 0.44
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATCAAA
Found at i:308615 original size:19 final size:18
Alignment explanation
Indices: 308610--308768 Score: 118
Period size: 19 Copynumber: 8.9 Consensus size: 18
308600 GCGATTTGTG
*
308610 TTTCGCGTTGCGATTTCA
1 TTTCGCATTGCGATTTCA
308628 TTTCGCATTGCGATTT--
1 TTTCGCATTGCGATTTCA
*
308644 TGTCG--TTGCGATTTTCA
1 TTTCGCATTGCGA-TTTCA
308661 TTTCGCATTGCGATTTTCA
1 TTTCGCATTGCGA-TTTCA
*
308680 TTTCGTATTGCGATTT--
1 TTTCGCATTGCGATTTCA
*
308696 TGTCG--TTGCGATTTGCA
1 TTTCGCATTGCGATTT-CA
**
308713 TTTCGCATTGCGATAGCCA
1 TTTCGCATTGCGAT-TTCA
* *
308732 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCATTGCGAT-TTCA
*
308752 TTTTCGCGTTGCGATTT
1 -TTTCGCATTGCGATTT
308769 TAAGTTTCGT
Statistics
Matches: 117, Mismatches: 11, Indels: 25
0.76 0.07 0.16
Matches are distributed among these distances:
14 15 0.13
15 3 0.03
16 8 0.07
17 8 0.07
18 18 0.15
19 37 0.32
20 25 0.21
21 3 0.03
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.45
Consensus pattern (18 bp):
TTTCGCATTGCGATTTCA
Found at i:308656 original size:32 final size:33
Alignment explanation
Indices: 308615--308677 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
308605 TTGTGTTTCG
308615 CGTTGCGA-TTTCATTTCGCATTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
308647 CGTTGCGATTTTCATTTCGCATTGCGATTTT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTT
308678 CATTTCGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.27
33 22 0.73
ACGTcount: A:0.13, C:0.19, G:0.21, T:0.48
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:308698 original size:52 final size:52
Alignment explanation
Indices: 308599--308726 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
308589 AAAGTCGCAA
** *
308599 TGCGATTTGTGTTTCGCGTTGCGA-TTTCATTTCGCATTGCGATTTTGTCGT
1 TGCGATTTGCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTGTCGT
* *
308650 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCGATTTTGTCGT
1 TGCGATTTGCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTGTCGT
308702 TGCGATTTGCATTTCGCATTGCGAT
1 TGCGATTTGCATTTCGCATTGCGAT
308727 AGCCATTTCC
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
51 20 0.29
52 50 0.71
ACGTcount: A:0.12, C:0.18, G:0.23, T:0.47
Consensus pattern (52 bp):
TGCGATTTGCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTGTCGT
Found at i:308745 original size:20 final size:19
Alignment explanation
Indices: 308711--308766 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
308701 TTGCGATTTG
*
308711 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
308730 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
308750 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
308767 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:310642 original size:14 final size:14
Alignment explanation
Indices: 310608--310646 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
310598 TTGATTGTTT
310608 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
310622 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
310636 TGTTGATTTGT
1 AATTGATTTGT
310647 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:310772 original size:20 final size:20
Alignment explanation
Indices: 310744--310786 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
310734 GTTGAAGGCA
*
310744 AAACAGACTATCGCAACACG
1 AAACAGACTATCGCAACAAG
*
310764 AAACTGACTATCGCAACAAG
1 AAACAGACTATCGCAACAAG
310784 AAA
1 AAA
310787 ATCGCAATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.26, G:0.14, T:0.12
Consensus pattern (20 bp):
AAACAGACTATCGCAACAAG
Found at i:310807 original size:19 final size:19
Alignment explanation
Indices: 310783--310850 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
310773 ATCGCAACAA
310783 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
310802 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
310821 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
310835 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
310851 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:310911 original size:20 final size:20
Alignment explanation
Indices: 310888--310947 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
310878 TTGCGATAGA
*
310888 CATTTTCGCGTTGCGATTTT
1 CATTTTCGCGTTGCGATTTC
** **
310908 CA-TTTCGAATTGCGATAGC
1 CATTTTCGCGTTGCGATTTC
310927 CATTTTCGCGTTGCGATTTC
1 CATTTTCGCGTTGCGATTTC
310947 C
1 C
310948 CCGTTGCGAT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (20 bp):
CATTTTCGCGTTGCGATTTC
Found at i:311182 original size:20 final size:20
Alignment explanation
Indices: 311157--311248 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
311147 TTGAAGATGA
311157 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
311177 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
311197 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
311218 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
311238 TTGCGATTTTC
1 TTGCGATTTTC
311249 CAAATTCGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:311259 original size:21 final size:20
Alignment explanation
Indices: 311233--311284 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
311223 ATAGTCAGTA
*
311233 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACAAAT
* **
311254 TCGCATTGTGATTTACTTAT
1 TCGCATTGCGATTTACAAAT
311274 TCGCATTGCGA
1 TCGCATTGCGA
311285 ATTAGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACAAAT
Found at i:312071 original size:24 final size:24
Alignment explanation
Indices: 312044--312103 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
312034 TAGTCAGTAT
*
312044 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATATTGGTCAATAC
*
312068 TCGAACTTTGATATTGGTCAATAC
1 TCGAAATTTGATATTGGTCAATAC
* *
312092 TCGGATTTTGAT
1 TCGAAATTTGAT
312104 GATGTTTCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (24 bp):
TCGAAATTTGATATTGGTCAATAC
Found at i:312296 original size:12 final size:12
Alignment explanation
Indices: 312279--312303 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
312269 ATATAATCCT
312279 GAAGAAGAAAAA
1 GAAGAAGAAAAA
312291 GAAGAAGAAAAA
1 GAAGAAGAAAAA
312303 G
1 G
312304 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:314646 original size:19 final size:19
Alignment explanation
Indices: 314622--314687 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
314612 AAATCGCAAC
314622 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
**
314641 AATCGCAA--CG--A-GGG
1 AATCGCAATGCGAAATGAA
*
314655 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
*
314674 AATCGCAACGCGAA
1 AATCGCAATGCGAA
314688 TTTAATTTCG
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
14 9 0.26
15 1 0.03
16 1 0.03
17 2 0.06
18 1 0.03
19 21 0.60
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:314664 original size:33 final size:29
Alignment explanation
Indices: 314595--314683 Score: 126
Period size: 28 Copynumber: 3.0 Consensus size: 29
314585 GGAAATTACT
314595 ATCGCAATGCGAAATGAAAATCGCAAC-A
1 ATCGCAATGCGAAATGAAAATCGCAACGA
314623 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAAC----GA
*
314656 ATCGCAATGCAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
314684 CGAATTTAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
28 27 0.49
29 1 0.02
33 27 0.49
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.13
Consensus pattern (29 bp):
ATCGCAATGCGAAATGAAAATCGCAACGA
Found at i:314698 original size:19 final size:19
Alignment explanation
Indices: 314676--314718 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
314666 AAAATGAAAA
314676 TCGCAACGCGAATTTAATT
1 TCGCAACGCGAATTTAATT
** * *
314695 TCGCATTGCGATTTTCATT
1 TCGCAACGCGAATTTAATT
314714 TCGCA
1 TCGCA
314719 TTGCGATAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (19 bp):
TCGCAACGCGAATTTAATT
Found at i:314851 original size:14 final size:14
Alignment explanation
Indices: 314832--314868 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
314822 CATCAATTAA
314832 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
314846 ACAAATCACCTTTT
1 ACAAATCAACTTTT
314860 ACAAATCAA
1 ACAAATCAA
314869 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:316292 original size:21 final size:21
Alignment explanation
Indices: 316226--316292 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
316216 GTGAATCGGG
*
316226 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
316246 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
316268 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
316289 CTCT
1 CTCT
316293 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:316741 original size:91 final size:90
Alignment explanation
Indices: 316566--316750 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
316556 ATTTCAAACT
*
316566 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
316631 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
316659 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
316723 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
316750 T
1 T
316751 AAGCATCTAA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:318558 original size:33 final size:33
Alignment explanation
Indices: 318464--318562 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
318454 ACGAGATAAT
*
318464 GAGAATCGCAACGCGGAAATGACTATCACAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
318498 GAGAATCGCAACGCGAAATGACTATCGCAATGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
* **
318531 GAGAATCGCAACACGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
318563 CGAAATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:318564 original size:52 final size:52
Alignment explanation
Indices: 318501--318617 Score: 189
Period size: 52 Copynumber: 2.2 Consensus size: 52
318491 ACAACGAGAG
** *
318501 AATCGCAACGCGAAATGACTATCGCAATGAGAGAATCGCAACACGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACACGAAATGAA
*
318553 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACACGAAATGAA
*
318605 AATCGCAATGCGA
1 AATCGCAACGCGA
318618 TTTTGGTTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.12
Consensus pattern (52 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACACGAAATGAA
Found at i:318581 original size:85 final size:87
Alignment explanation
Indices: 318447--318614 Score: 252
Period size: 85 Copynumber: 2.0 Consensus size: 87
318437 TTGAAATGAA
* **
318447 AATCGCAACGAGATAATGAGAATCGCAACGCGGAAATGACTATCACAACGAGAGAATCGCAACGC
1 AATCGCAACGAGATAATGAAAATCGCAACGCGGAAATGAAAATCACAACGAGAGAATCGCAACGC
**
318512 GAAATGACTATCGCAATGAGAG
66 GAAATGAAAATCGCAATGAGAG
*
318534 AATCGCAAC-ACGA-AATGAAAATCGCAACGC-GAAATGAAAATCGCAACGAGAGAATCGCAACG
1 AATCGCAACGA-GATAATGAAAATCGCAACGCGGAAATGAAAATCACAACGAGAGAATCGCAACG
318596 CGAAATGAAAATCGCAATG
65 CGAAATGAAAATCGCAATG
318615 CGATTTTGGT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
85 46 0.62
86 17 0.23
87 11 0.15
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (87 bp):
AATCGCAACGAGATAATGAAAATCGCAACGCGGAAATGAAAATCACAACGAGAGAATCGCAACGC
GAAATGAAAATCGCAATGAGAG
Found at i:319191 original size:20 final size:19
Alignment explanation
Indices: 319150--319203 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
319140 GCTATGTAAA
*
319150 TCGCATTGCGATGGTAAGAT
1 TCGCATTGCGAT-TTAAGAT
*
319170 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTAAG-AT
*
319190 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
319204 TCATAATTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (19 bp):
TCGCATTGCGATTTAAGAT
Found at i:319214 original size:21 final size:20
Alignment explanation
Indices: 319150--319215 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
319140 GCTATGTAAA
* *
319150 TCGCATTGCGATGGTA-AGAT
1 TCGCATTGCGAT-TTACATAT
*
319170 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACATAT
* *
319190 TCGCGTTGCGATTTTCATAAT
1 TCGCATTGCGATTTACAT-AT
319211 TCGCA
1 TCGCA
319216 AATGCGAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.05
20 29 0.78
21 6 0.16
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:319245 original size:21 final size:21
Alignment explanation
Indices: 319219--319274 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
319209 ATTCGCAAAT
*
319219 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* * *
319240 GCGAA-TACGTAAACCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
319260 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
319275 TGCATTGCGA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.18
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:319338 original size:20 final size:21
Alignment explanation
Indices: 319294--319345 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
319284 ATAGTCAGTA
*
319294 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
319315 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
319335 TCGCATTGCGA
1 TCGCATTGCGA
319346 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:319360 original size:41 final size:41
Alignment explanation
Indices: 319254--319360 Score: 92
Period size: 41 Copynumber: 2.6 Consensus size: 41
319244 ATACGTAAAC
* * *
319254 CGCAATGCGAATTAGGAAAATTGCATTGCGATAGTCAGTAT
1 CGCATTGCGAATTAGGAAAATCGCATTGCGATACTCAGTAT
* *** * *
319295 CGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTTA-T-T
1 CGCATTGCGAATTAGGAAAATCGCATTGCGA--TACTCAGTAT
*
319336 CGCATTGCGAATTGGGAAAATCGCA
1 CGCATTGCGAATTAGGAAAATCGCA
319361 ACGCGAAATT
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
41 45 0.90
42 1 0.02
43 4 0.08
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (41 bp):
CGCATTGCGAATTAGGAAAATCGCATTGCGATACTCAGTAT
Found at i:319387 original size:21 final size:22
Alignment explanation
Indices: 319335--319387 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
319325 ATTTACTTAT
319335 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
319356 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
319377 TCGCATTGCGA
1 TCGCATTGCGA
319388 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:319459 original size:19 final size:19
Alignment explanation
Indices: 319435--319485 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
319425 CGATAATGGA
* *
319435 GATCGCGTTGCGAATTAGC
1 GATCGCATTGCGAATTAAC
319454 GATCGCATTGCGAATTAAC
1 GATCGCATTGCGAATTAAC
319473 GATCGCATTGCGA
1 GATCGCATTGCGA
319486 TTTTGTTGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (19 bp):
GATCGCATTGCGAATTAAC
Found at i:319935 original size:21 final size:21
Alignment explanation
Indices: 319910--319958 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
319900 TAGATAAGAA
319910 TTTAAAAGATAATTTATAATT
1 TTTAAAAGATAATTTATAATT
*
319931 TTTAAAATATAATTTATAATT
1 TTTAAAAGATAATTTATAATT
319952 TTTAAAA
1 TTTAAAA
319959 ATGGTATAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAAAAGATAATTTATAATT
Found at i:321199 original size:2 final size:2
Alignment explanation
Indices: 321194--321261 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
321184 TACTTTACCC
321194 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
321236 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
321262 TCATAATATT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:322290 original size:22 final size:22
Alignment explanation
Indices: 322252--322293 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
322242 TTTTAACTAA
*
322252 TTTATAATTATATGTTTTATTC
1 TTTATAATTATACGTTTTATTC
322274 TTTATAATT-TAACGTTTTAT
1 TTTATAATTAT-ACGTTTTAT
322294 AAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (22 bp):
TTTATAATTATACGTTTTATTC
Found at i:326515 original size:2 final size:2
Alignment explanation
Indices: 326508--326541 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
326498 ATTCATCTAT
326508 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
326542 AAATAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.