Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008986.1 Hibiscus syriacus cultivar Beakdansim tig00112350_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: 401385
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 2 of 2
Found at i:212827 original size:67 final size:69
Alignment explanation
Indices: 212711--212893 Score: 193
Period size: 72 Copynumber: 2.7 Consensus size: 69
212701 TGCAGATTGA
*
212711 AATT-AACAAATCAACTTTTACATTTCAATCAATTAAACAAGC---ACAAATAAGAA-TTA-TTT
1 AATTAAACAAATCAACTTTTACA--T-AATCAATTAAACAAGCAAAAAAAATAAGAATTTATTTT
212770 ACACATC
63 ACACATC
*
212777 AATTAAACAAATCAACTTTTACA-AATCAATTAAACAAGCAAAAAATAATAATAATTCTTATTTT
1 AATTAAACAAATCAACTTTTACATAATCAATTAAACAAGCAAAAAA-AATAAGAA-T-TTATTTT
* *
212841 CCTCATC
63 ACACATC
* *
212848 AATTAAACAAATCAGACTTTTA-AGAATCAATTAAACAATCAAAAAA
1 AATTAAACAAATCA-ACTTTTACATAATCAATTAAACAAGCAAAAAA
212894 GTGTACCCCA
Statistics
Matches: 101, Mismatches: 5, Indels: 16
0.83 0.04 0.13
Matches are distributed among these distances:
63 16 0.16
66 6 0.06
67 25 0.25
70 3 0.03
71 23 0.23
72 28 0.28
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (69 bp):
AATTAAACAAATCAACTTTTACATAATCAATTAAACAAGCAAAAAAAATAAGAATTTATTTTACA
CATC
Found at i:214877 original size:19 final size:20
Alignment explanation
Indices: 214853--214891 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
214843 GCAACAGGAT
*
214853 AATCGCAATGCGAAA-TAAA
1 AATCGCAACGCGAAACTAAA
214872 AATCGCAACGCGAAACTAAA
1 AATCGCAACGCGAAACTAAA
214892 TTCGCGTTGC
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:0.51, C:0.21, G:0.15, T:0.13
Consensus pattern (20 bp):
AATCGCAACGCGAAACTAAA
Found at i:214969 original size:33 final size:33
Alignment explanation
Indices: 214896--214992 Score: 97
Period size: 33 Copynumber: 2.9 Consensus size: 33
214886 ACTAAATTCG
*
214896 CGTTGCGATTTTCATTTTCGTATTGCGATTTTCA
1 CGTTGCGATTTTCATTTTCG-ATTGCGATTATCA
* * *
214930 CATTGCGATTTTTATTTCTC-ATTGCGATTATCC
1 CGTTGCGATTTTCATTT-TCGATTGCGATTATCA
** *
214963 CGTTGCGATAGTCATTTTCGCGTTGCGATT
1 CGTTGCGATTTTCATTTTCG-ATTGCGATT
214993 TTAAGTTTCG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
32 2 0.04
33 24 0.47
34 23 0.45
35 2 0.04
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTTCGATTGCGATTATCA
Found at i:216928 original size:20 final size:20
Alignment explanation
Indices: 216905--216958 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
216895 GAAACTTAAA
*
216905 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
216925 ATCGTAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
216945 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
216959 CTAAAATCGC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:217584 original size:20 final size:20
Alignment explanation
Indices: 217561--217614 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
217551 ATAGTCAGAA
* *
217561 TCGCGTTGCGATTTAGATAT
1 TCGCATTGCGATTTACATAT
217581 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
217601 TCGCATTGCGATTT
1 TCGCATTGCGATTT
217615 TCCAAATTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:217625 original size:21 final size:20
Alignment explanation
Indices: 217561--217632 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
217551 ATAGTCAGAA
* * *
217561 TCGCGTTGCGATTTAGATAT
1 TCGCATTGCGATTTACAAAT
*
217581 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACAAAT
*
217601 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACAAAT
*
217622 TCGCGTTGCGA
1 TCGCATTGCGA
217633 ATCTGGAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 29 0.63
21 17 0.37
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACAAAT
Found at i:218660 original size:158 final size:158
Alignment explanation
Indices: 218372--218693 Score: 617
Period size: 158 Copynumber: 2.0 Consensus size: 158
218362 CAATCATCTT
*
218372 ATATTTGATTTAGAAGTTTGCTCGATCTTTCGTTATAAGGTAATTTTGTTATAATATTTATTTTA
1 ATATTTGATTCAGAAGTTTGCTCGATCTTTCGTTATAAGGTAATTTTGTTATAATATTTATTTTA
218437 TAGTTATATATGATTATTTGAAAAAATATTATACTAATTGATTTCAATTAATTTATGTGTTTGTA
66 TAGTTATATATGATTATTTGAAAAAATATTATACTAATTGATTTCAATTAATTTATGTGTTTGTA
218502 GAATTAGAAAGTGGGAGCATACGTAGAA
131 GAATTAGAAAGTGGGAGCATACGTAGAA
218530 ATATTTGATTCAGAAGTTTGCTCGATCTTTCGTTATAAGGTAATTTTGTTATAATATTTATTTTA
1 ATATTTGATTCAGAAGTTTGCTCGATCTTTCGTTATAAGGTAATTTTGTTATAATATTTATTTTA
*
218595 TAGTTATATATGATTATTTGAAAAAATATTATACTAATTGTTTTCAATTAATTTATGTGTTTGTA
66 TAGTTATATATGATTATTTGAAAAAATATTATACTAATTGATTTCAATTAATTTATGTGTTTGTA
*
218660 GAATTAGAAAGTGGGAGCATACGTCGAA
131 GAATTAGAAAGTGGGAGCATACGTAGAA
218688 ATATTT
1 ATATTT
218694 TAGCGGTGCA
Statistics
Matches: 161, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
158 161 1.00
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.45
Consensus pattern (158 bp):
ATATTTGATTCAGAAGTTTGCTCGATCTTTCGTTATAAGGTAATTTTGTTATAATATTTATTTTA
TAGTTATATATGATTATTTGAAAAAATATTATACTAATTGATTTCAATTAATTTATGTGTTTGTA
GAATTAGAAAGTGGGAGCATACGTAGAA
Found at i:223341 original size:2 final size:2
Alignment explanation
Indices: 223334--223368 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
223324 ATACATTGAA
223334 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
223369 ATGCCGTGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:224965 original size:29 final size:29
Alignment explanation
Indices: 224923--224978 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
224913 GTTATCGTAA
224923 CTCTGCATCATGAGCCATGCCGACTATAC
1 CTCTGCATCATGAGCCATGCCGACTATAC
224952 CTCTGCATCATGAGCCATGCCGACTAT
1 CTCTGCATCATGAGCCATGCCGACTAT
224979 CACTTTCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (29 bp):
CTCTGCATCATGAGCCATGCCGACTATAC
Found at i:227714 original size:2 final size:2
Alignment explanation
Indices: 227707--227788 Score: 59
Period size: 2 Copynumber: 44.0 Consensus size: 2
227697 TCGGGCCGGG
* * * * *
227707 TA TA TA TA TA TA TA AA T- TA AA TA TA TA TA T- TT TA TT TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
227747 T- TA AA TT TA T- TA -A TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
227785 TA TA
1 TA TA
227789 ATTATTTTTA
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
1 6 0.10
2 55 0.90
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:227765 original size:24 final size:24
Alignment explanation
Indices: 227707--227787 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
227697 TCGGGCCGGG
227707 TATATATA-TATATAAATTAAATA
1 TATATATATTATATAAATTAAATA
* * *
227730 TATATATTTTATTTAAATTAAATT
1 TATATATATTATATAAATTAAATA
* *
227754 TAT-TAATATTATATATATATATATA
1 TATAT-ATATTATATAAAT-TAAATA
227779 TATATATAT
1 TATATATAT
227788 AATTATTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
23 8 0.17
24 26 0.57
25 11 0.24
26 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TATATATATTATATAAATTAAATA
Found at i:227835 original size:13 final size:12
Alignment explanation
Indices: 227804--227840 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
227794 TTTTAATATT
*
227804 TATCGGGTCGGG
1 TATCGGGGCGGG
227816 TATCGGGGCGGG
1 TATCGGGGCGGG
227828 TAATCGGGGCGGG
1 T-ATCGGGGCGGG
227841 GATTACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.11, C:0.16, G:0.54, T:0.19
Consensus pattern (12 bp):
TATCGGGGCGGG
Found at i:228725 original size:2 final size:2
Alignment explanation
Indices: 228718--228745 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
228708 TATTGGCATG
228718 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
228746 TTCAGTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:236012 original size:66 final size:65
Alignment explanation
Indices: 235887--236012 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 65
235877 TGGTCCCTTT
* * * *
235887 TCTTCTTCTGGTTGGTGGGTGCAACTCTCTCCCACGTTCTTCGGTAACAGTTGACTCGTTGGTGC
1 TCTTCTTCGGGTTGGTGGGTGCAACTCTCTCCCACGTCCCTCGGTAACAGTCGACTCGTTGGTGC
* ** * * *
235952 TCTTCTTCGGGTTGGTGGGTGTAGTTTCTTTTCCACGTCCCTCGGTAGCAGTCGACTCGTT
1 TCTTCTTCGGGTTGGTGGGTGCA-ACTCTCTCCCACGTCCCTCGGTAACAGTCGACTCGTT
236013 CGAGTTCCCG
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
65 21 0.42
66 29 0.58
ACGTcount: A:0.10, C:0.25, G:0.27, T:0.38
Consensus pattern (65 bp):
TCTTCTTCGGGTTGGTGGGTGCAACTCTCTCCCACGTCCCTCGGTAACAGTCGACTCGTTGGTGC
Found at i:247403 original size:32 final size:32
Alignment explanation
Indices: 247316--247407 Score: 107
Period size: 31 Copynumber: 2.8 Consensus size: 32
247306 TAGATTTTAT
*
247316 ATAATTATCGTTAAATTTATCAAATTATT-ATAAA
1 ATAATT-TC-TTAAATTAATCAAATT-TTAATAAA
* *
247350 ATAA-TTATTAAATCAATCAAATTTTAATAAA
1 ATAATTTCTTAAATTAATCAAATTTTAATAAA
*
247381 ATAATTTCTTAAATTAAACAAATTTTA
1 ATAATTTCTTAAATTAATCAAATTTTA
247408 TGACTATAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
30 2 0.04
31 23 0.46
32 20 0.40
33 1 0.02
34 4 0.08
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (32 bp):
ATAATTTCTTAAATTAATCAAATTTTAATAAA
Found at i:250740 original size:60 final size:59
Alignment explanation
Indices: 250632--250797 Score: 167
Period size: 60 Copynumber: 2.8 Consensus size: 59
250622 TTTTAGTTTA
* * ** * *
250632 AAATGATCCTTATACTTTTAAATATTAT-AATTTCATCCTTAAATTATGA-TTATCATTCT
1 AAATTATCCTTAAACTTTTAAATATT-TCAATTTCATCCCCAAACTATGACCT-TCATTCT
*
250691 AAATTAGTCCTTAAACTTTTAAACATTTCAATTTCATCCCCAAACTATGACCTTCATTCT
1 AAATTA-TCCTTAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGACCTTCATTCT
* * * * *
250751 AAATTAACCCTAAACTTTTTGAATATTCCAACTTCAT-CCCAAACTAT
1 AAATTATCCTTAAAC-TTTTAAATATTTCAATTTCATCCCCAAACTAT
250798 ATGTATATAC
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
59 23 0.26
60 66 0.73
61 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (59 bp):
AAATTATCCTTAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGACCTTCATTCT
Found at i:251941 original size:206 final size:203
Alignment explanation
Indices: 251604--252010 Score: 724
Period size: 206 Copynumber: 2.0 Consensus size: 203
251594 ATAATTTTAC
* *
251604 TTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATTATTTTTTTCAATTAAGTCACT
1 TTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATTATTTTATCCAATTAAGTCACT
*
251669 GTTTTTATTGAATAAAAATATTTTATTATTATTTCGGATCGGGTTTTTAAGTTATATATCGGTCG
66 GTTTTTATTGAATAAAAATATTTTATTATTATTTCAGATCGGGTTTTTAAGTTATATATCGGTCG
*
251734 AGTGAAAACTTGTTTTGGTCGGGTCGAGTCTCGGGTGGAGGACTCCTTATTCTCGGGTCGAGTCG
131 AGTAAAAACTTGTTTTGGTCGGGTCGAGTCTCGGGTGGAGGACTCCTTATTCTCGGGTCGAGTCG
251799 GGTGGATA
196 GGTGGATA
*
251807 TTTATATATTTAGGAATAATTACAATAATACCCCCTCTATATATTATTTTATCCAATTAAGTTAC
1 TTTATATATTTAGGAATAATTACAATAATA-CCCCTCTATATATTATTTTATCCAATTAAGTCAC
251872 TGTTTTTATTGAATAAAAATATTTTTTATTATTATTTCAGATCGGGTTTTTAAGTTATATATCGG
65 TGTTTTTATTGAATAAAAATA--TTTTATTATTATTTCAGATCGGGTTTTTAAGTTATATATCGG
*
251937 TCGAGTAAAAACTTGTTTTGGTCGGGTCGAGTCTCGGGTGGAGGACTCCTTATTCTCGGGTCGGG
128 TCGAGTAAAAACTTGTTTTGGTCGGGTCGAGTCTCGGGTGGAGGACTCCTTATTCTCGGGTCGAG
*
252002 TTGGGTGGA
193 TCGGGTGGA
252011 CCAAACACTC
Statistics
Matches: 194, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
203 30 0.15
204 52 0.27
206 112 0.58
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (203 bp):
TTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATTATTTTATCCAATTAAGTCACT
GTTTTTATTGAATAAAAATATTTTATTATTATTTCAGATCGGGTTTTTAAGTTATATATCGGTCG
AGTAAAAACTTGTTTTGGTCGGGTCGAGTCTCGGGTGGAGGACTCCTTATTCTCGGGTCGAGTCG
GGTGGATA
Found at i:274742 original size:60 final size:59
Alignment explanation
Indices: 274678--274857 Score: 177
Period size: 60 Copynumber: 3.0 Consensus size: 59
274668 TATGATCCTT
* * * * *
274678 ATTTTAAATTGATCCCTAAACTTTTAAATGTTTTAATTTGATCTCTAAACTATGACAATC
1 ATTTTAAATTGATCCCTAAACTTTTAAATATTTCAATTTCACCAC-AAACTATGACAATC
* * * *
274738 ATTTTAAATT-AGTCCTTAAAATTTTAAATATTTCAATTTCACCACAAACTGTGACATTC
1 ATTTTAAATTGA-TCCCTAAACTTTTAAATATTTCAATTTCACCACAAACTATGACAATC
* * * *
274797 ATTCTAAATTGGTCCCCAAACCTTTTAAATATTCCAATTTCATCC-CAAACTAT-ACATATC
1 ATTTTAAATTGATCCCTAAA-CTTTTAAATATTTCAATTTCA-CCACAAACTATGACA-ATC
274857 A
1 A
274858 CTACAGTAAA
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
59 31 0.32
60 65 0.66
61 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.39
Consensus pattern (59 bp):
ATTTTAAATTGATCCCTAAACTTTTAAATATTTCAATTTCACCACAAACTATGACAATC
Found at i:275114 original size:39 final size:40
Alignment explanation
Indices: 275056--275167 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 40
275046 ACGCACTATA
* * **
275056 GTGGCGTTTTTATATAAACGCCAATAAATA-TTGTACAAAC
1 GTGGCG-TTTTATACAAACGCCGATAAATACACGTACAAAC
* * *
275096 GTGGCGTTTTATACAAACGCCGCTAATTACACGTACATAC
1 GTGGCGTTTTATACAAACGCCGATAAATACACGTACAAAC
275136 GTGGCGTTTTATGCACAAACGCCGATAAATAC
1 GTGGCGTTTTAT--ACAAACGCCGATAAATAC
275168 TATACTTTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 19 0.32
40 25 0.42
42 16 0.27
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (40 bp):
GTGGCGTTTTATACAAACGCCGATAAATACACGTACAAAC
Found at i:275126 original size:80 final size:81
Alignment explanation
Indices: 275027--275203 Score: 209
Period size: 80 Copynumber: 2.2 Consensus size: 81
275017 GCGTTTAACG
* * * *
275027 TACAAACGCCGCTACTTACACGCACTATA-GTGGCGTTTTTAT-ATAAACGCCAATAAATATTGT
1 TACAAACGCCGCTAATTACACGCAC-ATACGTGGCG-TTTTATCACAAACGCCAATAAATACTAT
*
275090 AC-AAACGTGGCG-TTTTA
64 ACTAAA-GAGGCGTTTTTA
* *
275107 TACAAACGCCGCTAATTACACGTACATACGTGGCGTTTTATGCACAAACGCCGATAAATACTATA
1 TACAAACGCCGCTAATTACACGCACATACGTGGCGTTTTAT-CACAAACGCCAATAAATACTATA
**
275172 CTTTAGAGGCGTTTTTA
65 CTAAAGAGGCGTTTTTA
275189 TACAAACGCCGCTAA
1 TACAAACGCCGCTAA
275204 AGGACGTACT
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
79 9 0.11
80 29 0.35
81 24 0.29
82 21 0.25
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (81 bp):
TACAAACGCCGCTAATTACACGCACATACGTGGCGTTTTATCACAAACGCCAATAAATACTATAC
TAAAGAGGCGTTTTTA
Found at i:275430 original size:41 final size:41
Alignment explanation
Indices: 274924--275453 Score: 325
Period size: 42 Copynumber: 12.9 Consensus size: 41
274914 GAAAAATAAT
* * **
274924 GTACTTTAGTGGAGTTTTTATACAAACGCCGCTAA--AGGTC
1 GTACTTTAGTGGCGTTTTAATACAAACGCCGCTAATTA-CAC
* * *
274964 GTACTTTAGTGGCATTTTAAGCACAAACGCCGCTAATTCCAC
1 GTACTTTAGTGGCGTTTTAA-TACAAACGCCGCTAATTACAC
* *
275006 GTACTTCAGTGGCG-TTTAACGTACAAACGCCGCTACTTACAC
1 GTACTTTAGTGGCGTTTTAA--TACAAACGCCGCTAATTACAC
* * * * ** * **
275048 GCACTATAGTGGCGTTTTTATATAAACGCCAATAAATA-TT
1 GTACTTTAGTGGCGTTTTAATACAAACGCCGCTAATTACAC
**
275088 GTAC-AAACGTGGCGTTTT-ATACAAACGCCGCTAATTACAC
1 GTACTTTA-GTGGCGTTTTAATACAAACGCCGCTAATTACAC
* * *
275128 GTAC-ATACGTGGCGTTTT-ATGCACAAACGCCGATAAATACTA-
1 GTACTTTA-GTGGCGTTTTAAT--ACAAACGCCGCTAATTAC-AC
* * *
275170 -TACTTTAGAGGCGTTTTTATACAAACGCCGCTAA--AGGAC
1 GTACTTTAGTGGCGTTTTAATACAAACGCCGCTAATTA-CAC
*
275209 GTACTTTAATGGCGTTTTAAGTACAAACGCCGCTAATTACAC
1 GTACTTTAGTGGCGTTTTAA-TACAAACGCCGCTAATTACAC
* * * *
275251 GTTCTTTAGTGGCGTTTTATGCAAAAAAATGCCGCTAATTACAC
1 GTACTTTAGTGGCGTTTTA---ATACAAACGCCGCTAATTACAC
* * ** * * * ** * *
275295 GTACTCTAGTTGTATTTTTATATAAACACCGAGAAATATTA-
1 GTACTTTAGTGGCGTTTTAATACAAACGCCGCTAATTA-CAC
* ** *
275336 -TACTTTAATGGCGTTGCAAGCACAAACGCCGCTAATTACAC
1 GTACTTTAGTGGCGTTTTAA-TACAAACGCCGCTAATTACAC
* * *
275377 GTATTTTTGTGGCGTTTTACACACAAACGCCGC-AATTACAC
1 GTACTTTAGTGGCGTTTTA-ATACAAACGCCGCTAATTACAC
* * *
275418 GTACTTTAGTGGCATTTTTAACATAAACGCCGCTAA
1 GTACTTTAGTGGC-GTTTTAATACAAACGCCGCTAA
275454 AGGTAGTCTT
Statistics
Matches: 377, Mismatches: 85, Indels: 54
0.73 0.16 0.10
Matches are distributed among these distances:
38 2 0.01
39 17 0.05
40 90 0.24
41 114 0.30
42 115 0.31
43 7 0.02
44 31 0.08
45 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (41 bp):
GTACTTTAGTGGCGTTTTAATACAAACGCCGCTAATTACAC
Found at i:276593 original size:21 final size:21
Alignment explanation
Indices: 276569--276608 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
276559 TTCTGAGATC
*
276569 AAGGGACTATTTCTATAATGG
1 AAGGCACTATTTCTATAATGG
276590 AAGGCACTATTTCTATAAT
1 AAGGCACTATTTCTATAAT
276609 CAAGCAGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (21 bp):
AAGGCACTATTTCTATAATGG
Found at i:278651 original size:21 final size:21
Alignment explanation
Indices: 278627--278685 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
278617 TGATTTATTA
**
278627 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
278648 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
278669 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
278686 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:278902 original size:44 final size:42
Alignment explanation
Indices: 278813--278910 Score: 99
Period size: 44 Copynumber: 2.3 Consensus size: 42
278803 TTTGTATCTT
* **
278813 AAAACGCCGCTATAGATAGACCTTTTACGGCGTTTGTTTATAAA
1 AAAACGCCGCTATAGACAGACCTTTTACGGCGTTTG-TGGT-AA
* * * *
278857 AAAACGCCGCTATATACCAGATCTTTTGCGGTGTTTGTGG-AA
1 AAAACGCCGCTATAGA-CAGACCTTTTACGGCGTTTGTGGTAA
278899 AAAACGCCGCTA
1 AAAACGCCGCTA
278911 AATCTCAACA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 14 0.30
44 16 0.35
45 16 0.35
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (42 bp):
AAAACGCCGCTATAGACAGACCTTTTACGGCGTTTGTGGTAA
Found at i:279112 original size:19 final size:20
Alignment explanation
Indices: 279074--279113 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
279064 TGCAGCGCTT
*
279074 AAAAACGCCGCTATAGGTAA
1 AAAAACGCCGCTAAAGGTAA
*
279094 AAAAACGCCGC-AAATGTAA
1 AAAAACGCCGCTAAAGGTAA
279113 A
1 A
279114 GTTTTGCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.50, C:0.20, G:0.17, T:0.12
Consensus pattern (20 bp):
AAAAACGCCGCTAAAGGTAA
Found at i:279363 original size:60 final size:60
Alignment explanation
Indices: 279250--279427 Score: 180
Period size: 60 Copynumber: 3.0 Consensus size: 60
279240 ATGAATTTGG
* ** * *
279250 GGATGTAATTGAAATATTCAAAAGTTTGGGGACTAATATAGAAAGAGGGTCATAGTTTAA
1 GGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGGGTCATAGTTTAA
* * **
279310 GGATGAAATT-AGAATGTTCAAAAGTTTAAGGACTAATTTAGAATG-GGATTCATAGTTTGG
1 GGATGAAATTGA-AATATTCAAAAGTTTAAGGACTAATTTAGAATGAGG-GTCATAGTTTAA
* * * * * * *
279370 GGGTGAAATTGAAATATTAAAAAATTTAAAGACCAATTTAGAATGAAGGTTATAGTTT
1 GGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGGGTCATAGTTT
279428 GGGAACATAT
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
59 3 0.03
60 91 0.95
61 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.32
Consensus pattern (60 bp):
GGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGGGTCATAGTTTAA
Found at i:281142 original size:30 final size:29
Alignment explanation
Indices: 281108--281202 Score: 100
Period size: 30 Copynumber: 3.2 Consensus size: 29
281098 GTGGGGTGGG
* *
281108 GGTGGTTTTGGTGGAGGTGGAGGTCTTGGA
1 GGTGGTGTTGGTGCAGGTGGAGGT-TTGGA
* * *
281138 GGTGGTGCTGGTGCAGGAGGTGGTTTTGGA
1 GGTGGTGTTGGTGCAGGTGGAGG-TTTGGA
* *
281168 GGAGGTGTTGGTGCTGGTGGAGGGTTTGGA
1 GGTGGTGTTGGTGCAGGTGGA-GGTTTGGA
281198 GGTGG
1 GGTGG
281203 CGGCGGAGCT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
30 49 0.94
31 3 0.06
ACGTcount: A:0.09, C:0.04, G:0.56, T:0.31
Consensus pattern (29 bp):
GGTGGTGTTGGTGCAGGTGGAGGTTTGGA
Found at i:281189 original size:18 final size:18
Alignment explanation
Indices: 281135--281190 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
281125 TGGAGGTCTT
*
281135 GGAGGTGGTGCTGGTGCA
1 GGAGGTGGTGCTGGTGGA
** *
281153 GGAGGTGGTTTTGGAGGA
1 GGAGGTGGTGCTGGTGGA
* *
281171 GGTGTTGGTGCTGGTGGA
1 GGAGGTGGTGCTGGTGGA
281189 GG
1 GG
281191 GTTTGGAGGT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.11, C:0.05, G:0.57, T:0.27
Consensus pattern (18 bp):
GGAGGTGGTGCTGGTGGA
Found at i:281246 original size:30 final size:30
Alignment explanation
Indices: 281212--281546 Score: 225
Period size: 30 Copynumber: 11.3 Consensus size: 30
281202 GCGGCGGAGC
* * *
281212 TGGTGGTGGGTTTGGTAAGGGTGGAGGCCT
1 TGGTGGTGGGATTGGAAAGGGTGGAGGACT
** * * *
281242 TGGTGG-GGGAATAAGAAAAGGTGGCGGAGT
1 TGGTGGTGGG-ATTGGAAAGGGTGGAGGACT
* * *
281272 TGGTGGTGGCATTGGAAAGGGAGGAGGCCT
1 TGGTGGTGGGATTGGAAAGGGTGGAGGACT
* * * * *
281302 TGGAGGTGGTATAGGAAAAGGTGGTGGACT
1 TGGTGGTGGGATTGGAAAGGGTGGAGGACT
* * * **
281332 GGGTGGTGGCATTGGAAAGGGCGG-GGGGT
1 TGGTGGTGGGATTGGAAAGGGTGGAGGACT
* * *
281361 TGGTGG-CGGAGTTGGCAAGGGTGGAGGCCT
1 TGGTGGTGGGA-TTGGAAAGGGTGGAGGACT
* *
281391 TGGTGGTGGCATTGGTAAGGGTGG-GGACT
1 TGGTGGTGGGATTGGAAAGGGTGGAGGACT
* * *
281420 TGGTGGTGGAATTGGCAAGGGTGGAGGCCT
1 TGGTGGTGGGATTGGAAAGGGTGGAGGACT
* * * *
281450 TGGAGG-GGGTATAGGAAAAGGTGGTGGACT
1 TGGTGGTGGG-ATTGGAAAGGGTGGAGGACT
* * * *
281480 TGGTGGCGGCATTGG-TAGGGTGGGGGACT
1 TGGTGGTGGGATTGGAAAGGGTGGAGGACT
* * * *
281509 AGGTGGTGGAATTGGCAAGGGTGGAGG-CC
1 TGGTGGTGGGATTGGAAAGGGTGGAGGACT
281538 TGGTGGTGG
1 TGGTGGTGG
281547 ACATGGCGGT
Statistics
Matches: 231, Mismatches: 65, Indels: 19
0.73 0.21 0.06
Matches are distributed among these distances:
28 2 0.01
29 82 0.35
30 141 0.61
31 6 0.03
ACGTcount: A:0.18, C:0.07, G:0.53, T:0.22
Consensus pattern (30 bp):
TGGTGGTGGGATTGGAAAGGGTGGAGGACT
Found at i:281411 original size:59 final size:59
Alignment explanation
Indices: 281271--281647 Score: 229
Period size: 59 Copynumber: 6.2 Consensus size: 59
281261 GGTGGCGGAG
* * * * * * * * * *
281271 TTGGTGGTGGCATTGGAAAGGGAGGAGGCCTTGGAGGTGGTATAGGAAAAGGTGGTGGAC
1 TTGGTGGTGGCATTGGAAAGGGCGG-GGACTTGGTGGCGGAATTGGCAAGGGTGGAGGCC
* ** *
281331 TGGGTGGTGGCATTGGAAAGGGCGGGGGGTTGGTGGCGGAGTTGGCAAGGGTGGAGGCC
1 TTGGTGGTGGCATTGGAAAGGGCGGGGACTTGGTGGCGGAATTGGCAAGGGTGGAGGCC
* * *
281390 TTGGTGGTGGCATTGGTAAGGGTGGGGACTTGGTGGTGGAATTGGCAAGGGTGGAGGCC
1 TTGGTGGTGGCATTGGAAAGGGCGGGGACTTGGTGGCGGAATTGGCAAGGGTGGAGGCC
* * * * * * * * * *
281449 TTGGAGGGGGTATAGGAAAAGGTGGTGGACTTGGTGGCGGCATTGG-TAGGGTGGGGGAC
1 TTGGTGGTGGCATTGGAAAGGGCGG-GGACTTGGTGGCGGAATTGGCAAGGGTGGAGGCC
* * * * * * *
281508 TAGGTGGTGGAATTGGCAAGGGTGGAGG-CCTGGTGGTGGACATGGCGGTGGCATTGGAAGGGAG
1 TTGGTGGTGGCATTGGAAAGGGCGG-GGACTTGGTGGCGGA-AT-----TGGC-----AAGGGTG
281572 GAGGCC
54 GAGGCC
* * * * * *
281578 TTGGTGGTGGCATTGGAAAAGGTG-GGGGCCTTGGTGGTGGCATCGGTAAGGGCGGAGGCC
1 TTGGTGGTGGCATTGG-AAAGG-GCGGGGACTTGGTGGCGGAATTGGCAAGGGTGGAGGCC
281638 TTGGTGGTGG
1 TTGGTGGTGG
281648 AACAGGAAAA
Statistics
Matches: 247, Mismatches: 54, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
58 9 0.04
59 126 0.51
60 63 0.26
64 3 0.01
65 2 0.01
70 27 0.11
71 16 0.06
72 1 0.00
ACGTcount: A:0.17, C:0.09, G:0.52, T:0.22
Consensus pattern (59 bp):
TTGGTGGTGGCATTGGAAAGGGCGGGGACTTGGTGGCGGAATTGGCAAGGGTGGAGGCC
Found at i:281452 original size:148 final size:149
Alignment explanation
Indices: 281223--281547 Score: 440
Period size: 148 Copynumber: 2.2 Consensus size: 149
281213 GGTGGTGGGT
* * * *
281223 TTGGTAAGGGTGGAGGCCTTGGTGGGGGAATAAGAAAAGGTGGCGGAGTTGGTGGTGGCATTGGA
1 TTGGCAAGGGTGGAGGCCTTGGTGGTGGAATAAGAAAAGGTGGCGGACTTGGTGGTGGAATTGGA
* *
281288 AAGGGAGGAGGCCTTGGAGGTGGTATAGGAAAAGGTGGTGGACTGGGTGGTGGCATTGGAAAGGG
66 AAGGGAGGAGGCCTTGGAGGGGGTATAGGAAAAGGTGGTGGACTGGGTGGCGGCATTGG-AAGGG
* * *
281353 CGGGGG-GTTGGTGGCGGAG
130 CGGGGGACTAGGTGGCGGAA
* ** * * *
281372 TTGGCAAGGGTGGAGGCCTTGGTGGTGGCATTGGTAAGGGTGG-GGACTTGGTGGTGGAATTGGC
1 TTGGCAAGGGTGGAGGCCTTGGTGGTGGAATAAGAAAAGGTGGCGGACTTGGTGGTGGAATTGGA
* * * *
281436 AAGGGTGGAGGCCTTGGAGGGGGTATAGGAAAAGGTGGTGGACTTGGTGGCGGCATTGGTAGGGT
66 AAGGGAGGAGGCCTTGGAGGGGGTATAGGAAAAGGTGGTGGACTGGGTGGCGGCATTGGAAGGGC
*
281501 GGGGGACTAGGTGGTGGAA
131 GGGGGACTAGGTGGCGGAA
281520 TTGGCAAGGGTGGAGGCC-TGGTGGTGGA
1 TTGGCAAGGGTGGAGGCCTTGGTGGTGGA
281548 CATGGCGGTG
Statistics
Matches: 154, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
147 18 0.12
148 100 0.65
149 36 0.23
ACGTcount: A:0.19, C:0.08, G:0.52, T:0.22
Consensus pattern (149 bp):
TTGGCAAGGGTGGAGGCCTTGGTGGTGGAATAAGAAAAGGTGGCGGACTTGGTGGTGGAATTGGA
AAGGGAGGAGGCCTTGGAGGGGGTATAGGAAAAGGTGGTGGACTGGGTGGCGGCATTGGAAGGGC
GGGGGACTAGGTGGCGGAA
Found at i:281543 original size:41 final size:41
Alignment explanation
Indices: 281498--281584 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
281488 GCATTGGTAG
* *
281498 GGTGGGGGAC-TAGGTGGTGGAATTGGCAAGGGTGGAGGCC-T
1 GGTGGGGGACAT-GGCGGTGGAATTGG-AAGGGAGGAGGCCTT
* *
281539 GGTGGTGGACATGGCGGTGGCATTGGAAGGGAGGAGGCCTT
1 GGTGGGGGACATGGCGGTGGAATTGGAAGGGAGGAGGCCTT
281580 GGTGG
1 GGTGG
281585 TGGCATTGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
40 12 0.30
41 27 0.68
42 1 0.03
ACGTcount: A:0.16, C:0.10, G:0.54, T:0.20
Consensus pattern (41 bp):
GGTGGGGGACATGGCGGTGGAATTGGAAGGGAGGAGGCCTT
Found at i:281553 original size:29 final size:30
Alignment explanation
Indices: 281272--281648 Score: 150
Period size: 30 Copynumber: 12.3 Consensus size: 30
281262 GTGGCGGAGT
* *
281272 TGGTGGTGG-CATTGGAAAGGGAGGAGGCC
1 TGGTGGTGGACATTGGCAAGGGTGGAGGCC
* * * * * * *
281301 TTGGAGGTGG-TATAGGAAAAGGTGGTGGAC
1 -TGGTGGTGGACATTGGCAAGGGTGGAGGCC
* * * **
281331 TGGGTGGTGG-CATTGGAAAGGGCGGGGGGT
1 T-GGTGGTGGACATTGGCAAGGGTGGAGGCC
* *
281361 TGGTGGCGGA-GTTGGCAAGGGTGGAGGCC
1 TGGTGGTGGACATTGGCAAGGGTGGAGGCC
* *
281390 TTGGTGGTGG-CATTGGTAAGGGTGG-GGACT
1 -TGGTGGTGGACATTGGCAAGGGTGGAGG-CC
281420 TGGTGGTGGA-ATTGGCAAGGGTGGAGGCC
1 TGGTGGTGGACATTGGCAAGGGTGGAGGCC
* ** * * * * *
281449 TTGGAGG-GGGTATAGGAAAAGGTGGTGGACT
1 -TGGTGGTGGACATTGGCAAGGGTGGAGG-CC
* * * *
281480 TGGTGGCGG-CATTGG-TAGGGTGGGGGAC
1 TGGTGGTGGACATTGGCAAGGGTGGAGGCC
281508 TAGGTGGTGGA-ATTGGCAAGGGTGGAGGCC
1 T-GGTGGTGGACATTGGCAAGGGTGGAGGCC
*
281538 TGGTGGTGGACATGGCGGTGGCATTGGAAGGGAGGAGGCC
1 TGGTGGTGGACAT-----TGGC-----AAGGGTGGAGGCC
* * *
281578 TTGGTGGTGG-CATTGGAAAAGGTGGGGGCC
1 -TGGTGGTGGACATTGGCAAGGGTGGAGGCC
* * *
281608 TTGGTGGTGG-CATCGGTAAGGGCGGAGGCC
1 -TGGTGGTGGACATTGGCAAGGGTGGAGGCC
281638 TTGGTGGTGGA
1 -TGGTGGTGGA
281649 ACAGGAAAAG
Statistics
Matches: 263, Mismatches: 57, Indels: 53
0.71 0.15 0.14
Matches are distributed among these distances:
28 1 0.00
29 77 0.29
30 151 0.57
31 3 0.01
35 7 0.03
40 15 0.06
41 9 0.03
ACGTcount: A:0.17, C:0.09, G:0.52, T:0.21
Consensus pattern (30 bp):
TGGTGGTGGACATTGGCAAGGGTGGAGGCC
Found at i:281561 original size:70 final size:71
Alignment explanation
Indices: 281469--281617 Score: 183
Period size: 70 Copynumber: 2.1 Consensus size: 71
281459 TATAGGAAAA
* * * * * * *
281469 GGTGGTGGACTTGGTGGCGGCATTGGTAGGGTGGGGGACTAGGTGGTGGAATTGGCAAGGGTGGA
1 GGTGGTGGACATGGCGGCGGCATTGGAAGGGAGGAGGACTAGGTGGTGGAATTGGAAAAGGTGGA
281534 GGCC-T
66 GGCCTT
* * * * *
281539 GGTGGTGGACATGGCGGTGGCATTGGAAGGGAGGAGGCCTTGGTGGTGGCATTGGAAAAGGTGGG
1 GGTGGTGGACATGGCGGCGGCATTGGAAGGGAGGAGGACTAGGTGGTGGAATTGGAAAAGGTGGA
281604 GGCCTT
66 GGCCTT
281610 GGTGGTGG
1 GGTGGTGG
281618 CATCGGTAAG
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
70 57 0.86
71 9 0.14
ACGTcount: A:0.15, C:0.10, G:0.53, T:0.22
Consensus pattern (71 bp):
GGTGGTGGACATGGCGGCGGCATTGGAAGGGAGGAGGACTAGGTGGTGGAATTGGAAAAGGTGGA
GGCCTT
Found at i:281777 original size:24 final size:24
Alignment explanation
Indices: 281746--281804 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
281736 GATCGGAAAA
281746 AGGT-GTGGTGTTGGAGGCGGAGC
1 AGGTGGTGGTGTTGGAGGCGGAGC
* ** * *
281769 TGGTGGTGGACTTGGAGGTGGTGC
1 AGGTGGTGGTGTTGGAGGCGGAGC
*
281793 AGGTGGGGGTGT
1 AGGTGGTGGTGT
281805 GGATTTGGAG
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.10, C:0.07, G:0.58, T:0.25
Consensus pattern (24 bp):
AGGTGGTGGTGTTGGAGGCGGAGC
Found at i:281790 original size:15 final size:15
Alignment explanation
Indices: 281770--281820 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
281760 AGGCGGAGCT
281770 GGTGGTGGACTTGGA
1 GGTGGTGGACTTGGA
* ** *
281785 GGTGGTGCAGGTGGG
1 GGTGGTGGACTTGGA
*
281800 GGT-GTGGATTTGGA
1 GGTGGTGGACTTGGA
281814 GGTGGTG
1 GGTGGTG
281821 CAGGGGCGGA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.10, C:0.04, G:0.59, T:0.27
Consensus pattern (15 bp):
GGTGGTGGACTTGGA
Found at i:281854 original size:42 final size:41
Alignment explanation
Indices: 281803--281898 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
281793 AGGTGGGGGT
* *
281803 GTGGATTTGGAGGTGGTGCAGG-GGCGGAGGTGGTGTCGTGTG
1 GTGGATTTGGAGG-GGTGCAGGAGGCGGAGGCGGTGCCG-GTG
* *
281845 GTGGATTTGGAGGGGTGCTGGAGGTGGAGGCGGTGCCGGTG
1 GTGGATTTGGAGGGGTGCAGGAGGCGGAGGCGGTGCCGGTG
*
281886 GTGGTTTTGGAGG
1 GTGGATTTGGAGG
281899 CGGATTTGGT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 22 0.46
42 26 0.54
ACGTcount: A:0.09, C:0.07, G:0.57, T:0.26
Consensus pattern (41 bp):
GTGGATTTGGAGGGGTGCAGGAGGCGGAGGCGGTGCCGGTG
Found at i:281927 original size:29 final size:29
Alignment explanation
Indices: 281893--281996 Score: 174
Period size: 29 Copynumber: 3.6 Consensus size: 29
281883 GTGGTGGTTT
*
281893 TGGAGGCGGATTTGGTGGGGGTGCAGGAG
1 TGGAGGTGGATTTGGTGGGGGTGCAGGAG
281922 TGGAGGTGGA-TTGGTGGGGGTGCAGGAGG
1 TGGAGGTGGATTTGGTGGGGGTGCAGGA-G
281951 TGGAGGTGGATTTGGTGGGGGTGCAGGAG
1 TGGAGGTGGATTTGGTGGGGGTGCAGGAG
*
281980 TGGAGGTGGTTTTGGTG
1 TGGAGGTGGATTTGGTG
281997 AGGAGCAGAT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
28 17 0.24
29 37 0.52
30 17 0.24
ACGTcount: A:0.12, C:0.04, G:0.59, T:0.25
Consensus pattern (29 bp):
TGGAGGTGGATTTGGTGGGGGTGCAGGAG
Found at i:284266 original size:24 final size:24
Alignment explanation
Indices: 284221--284267 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
284211 AACTAAGGGA
*
284221 GGTGGGTTTGGTGCCGGAGGTGGG
1 GGTGGGTTTGGTGCAGGAGGTGGG
* * *
284245 GGTGGTTTTGGTGGAGGTGGTGG
1 GGTGGGTTTGGTGCAGGAGGTGG
284268 TGCAGGAGGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.04, C:0.04, G:0.62, T:0.30
Consensus pattern (24 bp):
GGTGGGTTTGGTGCAGGAGGTGGG
Found at i:284275 original size:15 final size:15
Alignment explanation
Indices: 284257--284299 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
284247 TGGTTTTGGT
284257 GGAGGTGGTGGTGCA
1 GGAGGTGGTGGTGCA
** *
284272 GGAGGTGGTTTTGGA
1 GGAGGTGGTGGTGCA
*
284287 GGAGGTGCTGGTG
1 GGAGGTGGTGGTG
284300 GTGGTGGAGG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.12, C:0.05, G:0.58, T:0.26
Consensus pattern (15 bp):
GGAGGTGGTGGTGCA
Found at i:284371 original size:30 final size:30
Alignment explanation
Indices: 284301--284383 Score: 114
Period size: 30 Copynumber: 2.8 Consensus size: 30
284291 GTGCTGGTGG
* * *
284301 TGGTGGAGGGCTTGGAGGTGGAGTTGGAGC
1 TGGTGGAGGGTTTGGTGGTGGCGTTGGAGC
*
284331 TGGTAGAGGGTTTGGTGGTGGCGTTGGAGC
1 TGGTGGAGGGTTTGGTGGTGGCGTTGGAGC
284361 TGGTGGAGGGTTTGTGTGG-GGCG
1 TGGTGGAGGGTTTG-GTGGTGGCG
284384 GTGGGATTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 43 0.91
31 4 0.09
ACGTcount: A:0.10, C:0.06, G:0.57, T:0.28
Consensus pattern (30 bp):
TGGTGGAGGGTTTGGTGGTGGCGTTGGAGC
Found at i:284472 original size:28 final size:30
Alignment explanation
Indices: 284440--284497 Score: 102
Period size: 28 Copynumber: 2.0 Consensus size: 30
284430 TGGTAAGGGT
284440 GGAGGCCTTGGTGG-GGGAATA-GAAAAGG
1 GGAGGCCTTGGTGGTGGGAATAGGAAAAGG
284468 GGAGGCCTTGGTGGTGGGAATAGGAAAAGG
1 GGAGGCCTTGGTGGTGGGAATAGGAAAAGG
284498 TGGTGGACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 14 0.50
29 7 0.25
30 7 0.25
ACGTcount: A:0.28, C:0.07, G:0.50, T:0.16
Consensus pattern (30 bp):
GGAGGCCTTGGTGGTGGGAATAGGAAAAGG
Found at i:284661 original size:30 final size:30
Alignment explanation
Indices: 284417--284671 Score: 289
Period size: 30 Copynumber: 8.5 Consensus size: 30
284407 AAAGGAGGGA
* * * * *
284417 TTGGTGGGGGGATTGGTAAGGGTGGAGGCC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
* * * * * *
284447 TTGGTGGGGGAA-TAGAAAAGG-GGAGGCC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
* * * *
284475 TTGGTGGTGGGAATAGGAAAAGGTGGTGGAC
1 TTGGTGG-AGGAATTGGCAAGGGTGGTGGAC
*
284506 ATGGTGGAGGAATTGGCAAGGGTGGTGGAC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
*
284536 TTGGTGGAGGAATTGGCAAGGGTGGTGGCC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
*
284566 TTGGTGGAGGAATTGGCAAGGGCGGTGGAC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
*
284596 TTGGGGGAGGAATTGGCAAGGGTGGTGGAC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
*
284626 TTGGTGGAGGAATTGGCAAGGGTGGTGAAC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
* *
284656 ATGGTGGTGGAATTGG
1 TTGGTGGAGGAATTGG
284672 AATAGGTGTG
Statistics
Matches: 199, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
28 14 0.07
29 11 0.06
30 163 0.82
31 11 0.06
ACGTcount: A:0.21, C:0.07, G:0.51, T:0.22
Consensus pattern (30 bp):
TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
Found at i:284756 original size:47 final size:47
Alignment explanation
Indices: 284658--284759 Score: 118
Period size: 47 Copynumber: 2.2 Consensus size: 47
284648 TGGTGAACAT
* * *
284658 GGTGGTGGAATTGGAATAGGTGTGGACATGGTAGTGGCATTGGAAAA
1 GGTGGAGGAATTGGAATAGGTGTGGACATGGCAGTGGCATCGGAAAA
* * *
284705 GGTGGAGG-ATTGGCAAT-GGTGGTGGACATGGCGGTGGCATCGGTAAG
1 GGTGGAGGAATTGG-AATAGGT-GTGGACATGGCAGTGGCATCGGAAAA
284752 GGTGGAGG
1 GGTGGAGG
284760 CCTTGGTGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
46 8 0.17
47 39 0.83
ACGTcount: A:0.23, C:0.07, G:0.48, T:0.23
Consensus pattern (47 bp):
GGTGGAGGAATTGGAATAGGTGTGGACATGGCAGTGGCATCGGAAAA
Found at i:284855 original size:30 final size:30
Alignment explanation
Indices: 284722--284857 Score: 79
Period size: 30 Copynumber: 4.7 Consensus size: 30
284712 GATTGGCAAT
* * *
284722 GGTGGTGGACA-TGGCGGTGGCATCGGTAAG
1 GGTGGTGG-CATTGGAGGTGGAATCGGAAAG
* * *
284752 GGTGGAGGCCTTGG-TGTGGAATCGGAAA-
1 GGTGGTGGCATTGGAGGTGGAATCGGAAAG
* * *
284780 GGAGGTGAG-ATTGGA-GTGG-ATTGGAAAA
1 GGTGGTG-GCATTGGAGGTGGAATCGGAAAG
** **
284808 GAAGGTGGGC-TAAGAGGTGGAATCGGAAAG
1 GGTGGT-GGCATTGGAGGTGGAATCGGAAAG
284838 GGTGGTGGCATTGGAGGTGG
1 GGTGGTGGCATTGGAGGTGG
284858 GATTAGGAAA
Statistics
Matches: 79, Mismatches: 18, Indels: 18
0.69 0.16 0.16
Matches are distributed among these distances:
27 7 0.09
28 22 0.28
29 21 0.27
30 29 0.37
ACGTcount: A:0.24, C:0.07, G:0.49, T:0.20
Consensus pattern (30 bp):
GGTGGTGGCATTGGAGGTGGAATCGGAAAG
Found at i:286271 original size:43 final size:44
Alignment explanation
Indices: 286210--286335 Score: 173
Period size: 44 Copynumber: 2.9 Consensus size: 44
286200 ATACGAATAT
* * *
286210 TGAATACGACCATGTCGGATAC-TACACATCCCACACTCGAACC
1 TGAATACGCCCTTGTCGGATACATACACATCCGACACTCGAACC
*
286253 TGAATACGCCCTTGTCGGATACATACACATCTGACACTCGAACC
1 TGAATACGCCCTTGTCGGATACATACACATCCGACACTCGAACC
* * * *
286297 AGAATACTCCCTTGTTGGATACATACACATACGACACTC
1 TGAATACGCCCTTGTCGGATACATACACATCCGACACTC
286336 TCGAACCCGA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
43 20 0.27
44 53 0.73
ACGTcount: A:0.32, C:0.32, G:0.14, T:0.22
Consensus pattern (44 bp):
TGAATACGCCCTTGTCGGATACATACACATCCGACACTCGAACC
Found at i:293442 original size:42 final size:42
Alignment explanation
Indices: 293395--293477 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
293385 TATACTGACC
293395 CTATGTCCTAAACCATCTGAAACAGTTCATTTATGTATCTAG
1 CTATGTCCTAAACCATCTGAAACAGTTCATTTATGTATCTAG
293437 CTATGTCCTAAACCATCTGAAACAGTTCATTTATGTATCTA
1 CTATGTCCTAAACCATCTGAAACAGTTCATTTATGTATCTA
293478 ACGACGATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (42 bp):
CTATGTCCTAAACCATCTGAAACAGTTCATTTATGTATCTAG
Found at i:295937 original size:366 final size:366
Alignment explanation
Indices: 295208--295940 Score: 1377
Period size: 366 Copynumber: 2.0 Consensus size: 366
295198 TTGTATAAAA
295208 TATTAATATAAAAATGTCAATAATTGGACAAATCCATATGGCAATAGAATGCCGTGGCCCAACTA
1 TATTAATATAAAAATGTCAATAATTGGACAAATCCATATGGCAATAGAATGCCGTGGCCCAACTA
295273 TGGATAAAATTGTTTTGGGCCAATAAGAAAAGCCCAAAAGGCTCATGAAAAAATCCCTAATAATC
66 TGGATAAAATTGTTTTGGGCCAATAAGAAAAGCCCAAAAGGCTCATGAAAAAATCCCTAATAATC
295338 TATTGAGACTTTCATTTTGATCCATTTAAGATTGGTTTTCATATTATTTCTTTCTTTTCGATCCC
131 TATTGAGACTTTCATTTTGATCCATTTAAGATTGGTTTTCATATTATTTCTTTCTTTTCGATCCC
295403 TCGCTCTCAATCTCTTCTTTCTTTTTAGCTGCGGCTGCCTCTTCTTGCTCATTGAATAATTTTCG
196 TCGCTCTCAATCTCTTCTTTCTTTTTAGCTGCGGCTGCCTCTTCTTGCTCATTGAATAATTTTCG
295468 AGCATTGATTTCTGCAGTCATCAAAACCCTAATTCCTCTTTCACCATGAACTGTTCAAGTAAGCT
261 AGCATTGATTTCTGCAGTCATCAAAACCCTAATTCCTCTTTCACCATGAACTGTTCAAGTAAGCT
295533 CTCTAATCATTTATTTTCCTATTTTATTTTCTTTAGCGTTG
326 CTCTAATCATTTATTTTCCTATTTTATTTTCTTTAGCGTTG
*
295574 TATTAATAT-AAAATGTCAATAATTGGATAAATCCATATGGCAATAAGAATGCCGTGGCCCAACT
1 TATTAATATAAAAATGTCAATAATTGGACAAATCCATATGGCAAT-AGAATGCCGTGGCCCAACT
295638 ATGGATAAAAATTGTTTTGGGCCAATAAG-AAAGCCCAAAAGGCTCATG-AAAAATCCCTAATAA
65 ATGGAT-AAAATTGTTTTGGGCCAATAAGAAAAGCCCAAAAGGCTCATGAAAAAATCCCTAATAA
295701 TCTATTGAGACTTTCATTTTGATCCATTTAAGATTTGGTTTTCATATTATTTCTTTCTTTTCGAT
129 TCTATTGAGACTTTCATTTTGATCCATTTAAGA-TTGGTTTTCATATTATTTCTTTCTTTTCGAT
295766 CCCTCGCTCTCAATCTCTTCTTTCTTTTTAGCTGCGGCTGCCTCCTTCTTGCTCATTGAATAATT
193 CCCTCGCTCTCAATCTCTTCTTTCTTTTTAGCTGCGGCTGCCT-CTTCTTGCTCATTGAATAATT
295831 TTCGAGCATTGATTTCTGCAGTCATCAAAACCCTAATTCCTCTTTCACCATGAACTGTTTCAAGT
257 TTCGAGCATTGATTTCTGCAGTCATCAAAACCCTAATTCCTCTTTCACCATGAACTG-TTCAAGT
295896 AAGCTCTCTAATCATTTA-TTTCCTATTTTATTTTC-TTAGCGTTG
321 AAGCTCTCTAATCATTTATTTTCCTATTTTATTTTCTTTAGCGTTG
295940 T
1 T
295941 TGGATTTCCA
Statistics
Matches: 361, Mismatches: 1, Indels: 10
0.97 0.00 0.03
Matches are distributed among these distances:
365 82 0.23
366 137 0.38
367 117 0.32
368 25 0.07
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (366 bp):
TATTAATATAAAAATGTCAATAATTGGACAAATCCATATGGCAATAGAATGCCGTGGCCCAACTA
TGGATAAAATTGTTTTGGGCCAATAAGAAAAGCCCAAAAGGCTCATGAAAAAATCCCTAATAATC
TATTGAGACTTTCATTTTGATCCATTTAAGATTGGTTTTCATATTATTTCTTTCTTTTCGATCCC
TCGCTCTCAATCTCTTCTTTCTTTTTAGCTGCGGCTGCCTCTTCTTGCTCATTGAATAATTTTCG
AGCATTGATTTCTGCAGTCATCAAAACCCTAATTCCTCTTTCACCATGAACTGTTCAAGTAAGCT
CTCTAATCATTTATTTTCCTATTTTATTTTCTTTAGCGTTG
Found at i:307149 original size:60 final size:60
Alignment explanation
Indices: 307062--307189 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 60
307052 GCATCACATG
* * *
307062 CCCTCAAAGCATGACTCTCATTTTAAATCGA-TCATTAAACTTTTAAATATTTAAATTTCAT
1 CCCT-AAAGCATGACTATCATTCTAAAT-GATTCATCAAACTTTTAAATATTTAAATTTCAT
* * * * *
307123 CCCTAAATCATGACTATCATTCTAAATTATTCCTCAAACTTTTGAATATTTCAATTTCAT
1 CCCTAAAGCATGACTATCATTCTAAATGATTCATCAAACTTTTAAATATTTAAATTTCAT
307183 CCCTAAA
1 CCCTAAA
307190 CTATGAACTT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.02
60 53 0.91
61 4 0.07
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (60 bp):
CCCTAAAGCATGACTATCATTCTAAATGATTCATCAAACTTTTAAATATTTAAATTTCAT
Found at i:307370 original size:111 final size:111
Alignment explanation
Indices: 307148--307369 Score: 412
Period size: 111 Copynumber: 2.0 Consensus size: 111
307138 ATCATTCTAA
307148 ATTATTCCTCAAACTTTTGAATATTTCAATTTCATCCCTAAACTATGAACTTATTCTAAATTGGT
1 ATTATTCCTCAAACTTTTGAATATTTCAATTTCATCCCTAAACTATGAACTTATTCTAAATTGGT
*
307213 CCCTAGATTTTTTTAACATTTCAATTTTACCCCAAAGTATACATAT
66 CCCTAGATTTTTTGAACATTTCAATTTTACCCCAAAGTATACATAT
*
307259 ATTATTGCTCAAACTTTTGAATATTTCAATTTCATCCCTAAACTATGAACTTATTCTAAATTGGT
1 ATTATTCCTCAAACTTTTGAATATTTCAATTTCATCCCTAAACTATGAACTTATTCTAAATTGGT
307324 -CCTAGA-TTTTTGAACATTTCAATTTTACCCCAAAGTATACATAT
66 CCCTAGATTTTTTGAACATTTCAATTTTACCCCAAAGTATACATAT
307368 AT
1 AT
307370 ACTAATCACA
Statistics
Matches: 109, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
109 39 0.36
110 6 0.06
111 64 0.59
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (111 bp):
ATTATTCCTCAAACTTTTGAATATTTCAATTTCATCCCTAAACTATGAACTTATTCTAAATTGGT
CCCTAGATTTTTTGAACATTTCAATTTTACCCCAAAGTATACATAT
Found at i:307600 original size:60 final size:59
Alignment explanation
Indices: 307473--307648 Score: 173
Period size: 60 Copynumber: 2.9 Consensus size: 59
307463 ATATTTGGAT
* * * * **
307473 TAATTTGGGGATGTAATTGGAAGATTCAAAAGTTTGGGGACTAATTTAGAAA-G-AGTGC
1 TAATTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTA-AAATGAAGTGC
307531 TATAGTTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGATAGT-C
1 TA-A-TTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGA-AGTGC
* * *
307592 GTAATTTAGAGATGAAATTA-AATTATT-AAAATGTTTAAGCACCAATTTAAAATGAAG
1 -TAATTTAGGGATGAAATTAGAA-TATTCAAAA-GTTTAAGGACTAATTTAAAATGAAG
307649 GTTATAGTTC
Statistics
Matches: 101, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
58 2 0.02
59 12 0.12
60 80 0.79
61 2 0.02
62 5 0.05
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.33
Consensus pattern (59 bp):
TAATTTAGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGAAGTGC
Found at i:318893 original size:218 final size:213
Alignment explanation
Indices: 318517--318951 Score: 825
Period size: 218 Copynumber: 2.0 Consensus size: 213
318507 AACTTGGACC
318517 TTTAACATCAATGGCATGACTTATCAGTGCATTTTTAATATAAAATGCGTGAAGATAGTGCATTT
1 TTTAACATCAATGGCATGACTTATCAGTGCATTTTTAATATAAAATGCGTGAAGATAGTGCATTT
318582 TAATAGTTTATATGAATGGCGGTCCCCATTAAGTGAGGACCATTTTAATAGTTTATTTAAAAATT
66 TAATAGTTTATATGAATGGCGGTCCCCATTAAGTGAGGACCATTTTAATAGTTTATTTAAAAATT
318647 TAAAAAAATTATGTATTCTTGATTTGTAATATCTCGTGGTTAATTTACTCAATCTTATAACATAC
131 TAAAAAAATTATGTATTCTTGATTTGT-A-ATCTCGTGGTT-ATTTACTCAATCTTATAACATAC
318712 TATCTGTACATTGATTCAAAT
193 TATCTGTACATTGATTCAAAT
318733 TTTAACATCAATGGCATGACTTATCAAGTGCATTTTTAATATATAAATGCGTGAAGATAGTGCAT
1 TTTAACATCAATGGCATGACTTATC-AGTGCATTTTTAATATA-AAATGCGTGAAGATAGTGCAT
318798 TTTAATAGTTTATATGAATGGCGGTCCCCATTAAGTGAGGACCATTTTAATAGTTTATTTAAAAA
64 TTTAATAGTTTATATGAATGGCGGTCCCCATTAAGTGAGGACCATTTTAATAGTTTATTTAAAAA
318863 TTTAAAAAAATTATGTATTCTTGATTTGTAATCTCGTGGTTATTTACTCAATCTTATAACATACT
129 TTTAAAAAAATTATGTATTCTTGATTTGTAATCTCGTGGTTATTTACTCAATCTTATAACATACT
318928 ATCTGTACATTGATTCAAAT
194 ATCTGTACATTGATTCAAAT
318948 TTTA
1 TTTA
318952 CAGGTTCAAC
Statistics
Matches: 217, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
215 48 0.22
216 36 0.17
217 18 0.08
218 115 0.53
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (213 bp):
TTTAACATCAATGGCATGACTTATCAGTGCATTTTTAATATAAAATGCGTGAAGATAGTGCATTT
TAATAGTTTATATGAATGGCGGTCCCCATTAAGTGAGGACCATTTTAATAGTTTATTTAAAAATT
TAAAAAAATTATGTATTCTTGATTTGTAATCTCGTGGTTATTTACTCAATCTTATAACATACTAT
CTGTACATTGATTCAAAT
Found at i:323267 original size:42 final size:40
Alignment explanation
Indices: 323198--323536 Score: 160
Period size: 40 Copynumber: 8.2 Consensus size: 40
323188 CGCTAAAGGT
* *
323198 CGTACTTTAGTGGCATTTTAAGCACAAACGCCGCTAATTCCA
1 CGTAC-TTAGTGGC-GTTTAAGCACAAACGCCGCTAATTACA
* *
323240 CGTACTTCAGTGGCGTTTAACGTACAAACGCCGCTACTTACA
1 CGTACTT-AGTGGCGTTTAA-GCACAAACGCCGCTAATTACA
* * * * ** * *
323282 CGCACTATAGTGGCGTTTTTA-TATAAACGCCAATAAATA-T
1 CGTACT-TAGTGGCG-TTTAAGCACAAACGCCGCTAATTACA
* * * *
323322 TGTA-TAAACGTGGCGTTTTA-TACAAACGCCGCTAATTACA
1 CGTACT-TA-GTGGCGTTTAAGCACAAACGCCGCTAATTACA
* * *
323362 CGTACATACGTGGCGTTTTATGCACAAACGCCGATAA-TACTA
1 CGTACTTA-GTGGCG-TTTAAGCACAAACGCCGCTAATTAC-A
* * * *
323404 --TACTTTAGAGGCGTTTTTA-TACAAACGCCGCTAA--AGGA
1 CGTAC-TTAGTGGCG-TTTAAGCACAAACGCCGCTAATTA-CA
* *
323442 CGTACTTTAATGGCGTTTTAAGTAC-AACGCCGCTAATTACA
1 CGTAC-TTAGTGGCG-TTTAAGCACAAACGCCGCTAATTACA
* * * *
323483 CGTTCTTTAGTGGCGTTTTATGCAAAAAATGCCGCTAATTACA
1 CGTAC-TTAGTGGCG-TTTAAGC-ACAAACGCCGCTAATTACA
323526 CGTACTCTAGT
1 CGTACT-TAGT
323537 TGTATTTTAT
Statistics
Matches: 232, Mismatches: 45, Indels: 39
0.73 0.14 0.12
Matches are distributed among these distances:
38 2 0.01
39 35 0.15
40 58 0.25
41 51 0.22
42 58 0.25
43 28 0.12
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (40 bp):
CGTACTTAGTGGCGTTTAAGCACAAACGCCGCTAATTACA
Found at i:323373 original size:40 final size:40
Alignment explanation
Indices: 323160--323536 Score: 238
Period size: 41 Copynumber: 9.2 Consensus size: 40
323150 GAAAAATAAT
* * **
323160 GTACTTTAGTGGAGTTTTATACAAACGCCGCTAA--AGGTC
1 GTACTATAGTGGCGTTTTATACAAACGCCGCTAATTA-CAC
* * * *
323199 GTACTTTAGTGGCATTTTAAGCACAAACGCCGCTAATTCCAC
1 GTACTATAGTGGCGTTTT-A-TACAAACGCCGCTAATTACAC
* *
323241 GTACT-TCAGTGGCGTTTAACGTACAAACGCCGCTACTTACAC
1 GTACTAT-AGTGGCGTTTTA--TACAAACGCCGCTAATTACAC
* * ** * **
323283 GCACTATAGTGGCGTTTTTATATAAACGCCAATAAATA-TT
1 GTACTATAGTGGCG-TTTTATACAAACGCCGCTAATTACAC
*
323323 GTA-TAAACGTGGCGTTTTATACAAACGCCGCTAATTACAC
1 GTACTATA-GTGGCGTTTTATACAAACGCCGCTAATTACAC
*
323363 GTAC-ATACGTGGCGTTTTATGCACAAACGCCGATAA-TACTA-
1 GTACTATA-GTGGCGTTTTAT--ACAAACGCCGCTAATTAC-AC
* * *
323404 -TACTTTAGAGGCGTTTTTATACAAACGCCGCTAA--AGGAC
1 GTACTATAGTGGCG-TTTTATACAAACGCCGCTAATTA-CAC
* *
323443 GTACTTTAATGGCGTTTTAAGTAC-AACGCCGCTAATTACAC
1 GTACTATAGTGGCGTTTT-A-TACAAACGCCGCTAATTACAC
* * * *
323484 GTTCTTTAGTGGCGTTTTATGCAAAAAATGCCGCTAATTACAC
1 GTACTATAGTGGCGTTTTAT---ACAAACGCCGCTAATTACAC
*
323527 GTACTCTAGT
1 GTACTATAGT
323537 TGTATTTTAT
Statistics
Matches: 268, Mismatches: 43, Indels: 50
0.74 0.12 0.14
Matches are distributed among these distances:
38 2 0.01
39 56 0.21
40 59 0.22
41 61 0.23
42 61 0.23
43 29 0.11
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (40 bp):
GTACTATAGTGGCGTTTTATACAAACGCCGCTAATTACAC
Found at i:323417 original size:80 final size:79
Alignment explanation
Indices: 323132--323536 Score: 256
Period size: 80 Copynumber: 5.0 Consensus size: 79
323122 CATATTTAGC
* * * *
323132 GGCGTTTTA-GA-AAACGCCGAAAAATAATGTACTTTAGTGGAGTTTTATACAAACGCCGCTAA-
1 GGCGTTTTATGACAAACGCCG-ATAATACTATACTTTAGTGGCGTTTTATACAAACGCCGCTAAT
** *
323194 -AGGTCGTACTTTAGT
65 TA-CACGTACTATAGT
* * * * * * *
323209 GGCATTTTAAGCACAAACGCCGCTAATTCCACGTACTTCAGTGGCGTTTAACGTACAAACGCCGC
1 GGCGTTTTATG-ACAAACGCCGATAATACTA--TACTTTAGTGGCGTTTTA--TACAAACGCCGC
* *
323274 TACTTACACGCACTATAGT
61 TAATTACACGTACTATAGT
* * * * **
323293 GGCGTTTTTAT-ATAAACGCCAATAAATATTGTA-TAAACGTGGCGTTTTATACAAACGCCGCTA
1 GGCG-TTTTATGACAAACGCCGAT-AATACTATACTTTA-GTGGCGTTTTATACAAACGCCGCTA
323356 ATTACACGTAC-ATACGT
63 ATTACACGTACTATA-GT
*
323373 GGCGTTTTATGCACAAACGCCGATAATACTATACTTTAGAGGCGTTTTTATACAAACGCCGCTAA
1 GGCGTTTTATG-ACAAACGCCGATAATACTATACTTTAGTGGCG-TTTTATACAAACGCCGCTAA
* * *
323438 --AGGACGTACTTTAAT
64 TTA-CACGTACTATAGT
* * * * *
323453 GGCGTTTTAAGTAC-AACGCCGCTAATTAC-ACGTTCTTTAGTGGCGTTTTATGCAAAAAATGCC
1 GGCGTTTTATG-ACAAACGCCGATAA-TACTA--TACTTTAGTGGCGTTTTAT---ACAAACGCC
*
323516 GCTAATTACACGTACTCTAGT
59 GCTAATTACACGTACTATAGT
323537 TGTATTTTAT
Statistics
Matches: 252, Mismatches: 49, Indels: 47
0.72 0.14 0.14
Matches are distributed among these distances:
77 8 0.03
78 1 0.00
79 25 0.10
80 77 0.31
81 62 0.25
82 12 0.05
83 35 0.14
84 25 0.10
85 7 0.03
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (79 bp):
GGCGTTTTATGACAAACGCCGATAATACTATACTTTAGTGGCGTTTTATACAAACGCCGCTAATT
ACACGTACTATAGT
Found at i:323676 original size:41 final size:42
Alignment explanation
Indices: 323602--323699 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 42
323592 GCGTTGCAAG
* *
323602 CACAAACGCCGCTAATTACACGTATTTTTGTGGC-GTTTTACA
1 CACAAACGCCGCTAATTACACGTACTTTAGTGGCAGTTTTA-A
*
323644 CACAAACGCCGC-AATTACACGTACTTTAGTGGCATTTTTAA
1 CACAAACGCCGCTAATTACACGTACTTTAGTGGCAGTTTTAA
*
323685 CATAAACGCCGCTAA
1 CACAAACGCCGCTAA
323700 AGGTAGTCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 31 0.62
42 19 0.38
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
CACAAACGCCGCTAATTACACGTACTTTAGTGGCAGTTTTAA
Found at i:324836 original size:21 final size:21
Alignment explanation
Indices: 324812--324851 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
324802 TTCTGAGATC
*
324812 AAGGGACTATTTCTATAATGG
1 AAGGCACTATTTCTATAATGG
324833 AAGGCACTATTTCTATAAT
1 AAGGCACTATTTCTATAAT
324852 CAAGCAGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (21 bp):
AAGGCACTATTTCTATAATGG
Found at i:326920 original size:21 final size:21
Alignment explanation
Indices: 326896--326954 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
326886 TGATTTATTA
**
326896 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
326917 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
326938 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
326955 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:327152 original size:44 final size:42
Alignment explanation
Indices: 327082--327179 Score: 99
Period size: 44 Copynumber: 2.3 Consensus size: 42
327072 TTTGTATCTT
* *
327082 AAAACGCCGCTATAGATATGACCTTTTACGGCGTTTGTTATAAA
1 AAAACGCCGCTATAGACATGACCTTTTACGGCGTTTG-T-GAAA
* * * * *
327126 AAAACGCCGCTATATACCA-GATCTTTTGCGGTGTTTGTGGAA
1 AAAACGCCGCTATAGA-CATGACCTTTTACGGCGTTTGTGAAA
327168 AAAACGCCGCTA
1 AAAACGCCGCTA
327180 AATCTCAACA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 14 0.30
43 1 0.02
44 30 0.65
45 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (42 bp):
AAAACGCCGCTATAGACATGACCTTTTACGGCGTTTGTGAAA
Found at i:327381 original size:18 final size:19
Alignment explanation
Indices: 327344--327382 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
327334 TGCAGCGCTT
*
327344 AAAAACGCCGCTATAGGTA
1 AAAAACGCCGCTAAAGGTA
*
327363 AAAAACGCCGC-AAATGTA
1 AAAAACGCCGCTAAAGGTA
327381 AA
1 AA
327383 GTTTTGCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.13
Consensus pattern (19 bp):
AAAAACGCCGCTAAAGGTA
Found at i:327632 original size:60 final size:60
Alignment explanation
Indices: 327519--327696 Score: 180
Period size: 60 Copynumber: 3.0 Consensus size: 60
327509 ATGAATTTGG
* ** * *
327519 GGATGTAATTGAAATATTCAAAAGTTTGGGGACTAATATAGAAAGAGGGTCATAGTTTAA
1 GGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGGGTCATAGTTTAA
* * **
327579 GGATGAAATT-AGAATGTTCAAAAGTTTAAGGACTAATTTAGAATG-GGATTCATAGTTTGG
1 GGATGAAATTGA-AATATTCAAAAGTTTAAGGACTAATTTAGAATGAGG-GTCATAGTTTAA
* * * * * * *
327639 GGGTGAAATTGAAATATTAAAAAATTTAAAGACCAATTTAGAATGAAGGTTATAGTTT
1 GGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGGGTCATAGTTT
327697 GGGAACATAT
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
59 3 0.03
60 91 0.95
61 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.32
Consensus pattern (60 bp):
GGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAGAATGAGGGTCATAGTTTAA
Found at i:329438 original size:30 final size:29
Alignment explanation
Indices: 329404--329490 Score: 93
Period size: 30 Copynumber: 2.9 Consensus size: 29
329394 GGGGTGGTTT
*
329404 TGGTGGAGGTGGAGGTCTTGGAGGTGGTGC
1 TGGTGCAGGTGGAGGT-TTGGAGGTGGTGC
* * * *
329434 TGGTGCAGGAGGTGGTTTTGGAGGAGGTGT
1 TGGTGCAGGTGGAGG-TTTGGAGGTGGTGC
*
329464 TGGTGCTGGTGGAGGGTTTGGAGGTGG
1 TGGTGCAGGTGGA-GGTTTGGAGGTGG
329491 CGGCGGAGCT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
30 43 0.93
31 3 0.07
ACGTcount: A:0.10, C:0.05, G:0.56, T:0.29
Consensus pattern (29 bp):
TGGTGCAGGTGGAGGTTTGGAGGTGGTGC
Found at i:329477 original size:18 final size:18
Alignment explanation
Indices: 329423--329478 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
329413 TGGAGGTCTT
*
329423 GGAGGTGGTGCTGGTGCA
1 GGAGGTGGTGCTGGTGGA
** *
329441 GGAGGTGGTTTTGGAGGA
1 GGAGGTGGTGCTGGTGGA
* *
329459 GGTGTTGGTGCTGGTGGA
1 GGAGGTGGTGCTGGTGGA
329477 GG
1 GG
329479 GTTTGGAGGT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.11, C:0.05, G:0.57, T:0.27
Consensus pattern (18 bp):
GGAGGTGGTGCTGGTGGA
Found at i:329835 original size:42 final size:42
Alignment explanation
Indices: 329789--329877 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
329779 CATTGGTAAG
* *
329789 GGTGGGGGAC-TAGGTGGTGGAATTGGCAAGGGTGGAGGCCTT
1 GGTGGGGGACAT-GGCGGTGGAATTGGCAAGGGAGGAGGCCTT
* * *
329831 GGTGGTGGACATGGCGGTGGCATTGGGAAGGGAGGAGGCCTT
1 GGTGGGGGACATGGCGGTGGAATTGGCAAGGGAGGAGGCCTT
329873 GGTGG
1 GGTGG
329878 TGGCATTGGA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
42 40 0.98
43 1 0.02
ACGTcount: A:0.16, C:0.10, G:0.54, T:0.20
Consensus pattern (42 bp):
GGTGGGGGACATGGCGGTGGAATTGGCAAGGGAGGAGGCCTT
Found at i:329835 original size:72 final size:72
Alignment explanation
Indices: 329759--329910 Score: 196
Period size: 72 Copynumber: 2.1 Consensus size: 72
329749 TATAGGAAAA
* * * * * * *
329759 GGTGGTGGACTTGGTGGCGGCATTGGTAAGGGTGGGGGACTAGGTGGTGGAATTGGCAAGGGTGG
1 GGTGGTGGACATGGCGGCGGCATTGGGAAGGGAGGAGGACTAGGTGGTGGAATTGGAAAAGGTGG
329824 AGGCCTT
66 AGGCCTT
* * * *
329831 GGTGGTGGACATGGCGGTGGCATTGGGAAGGGAGGAGGCCTTGGTGGTGGCATTGGAAAAGGTGG
1 GGTGGTGGACATGGCGGCGGCATTGGGAAGGGAGGAGGACTAGGTGGTGGAATTGGAAAAGGTGG
*
329896 GGGCCTT
66 AGGCCTT
329903 GGTGGTGG
1 GGTGGTGG
329911 CATCGGTAAG
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.15, C:0.10, G:0.53, T:0.22
Consensus pattern (72 bp):
GGTGGTGGACATGGCGGCGGCATTGGGAAGGGAGGAGGACTAGGTGGTGGAATTGGAAAAGGTGG
AGGCCTT
Found at i:329839 original size:30 final size:30
Alignment explanation
Indices: 329500--329839 Score: 266
Period size: 30 Copynumber: 11.3 Consensus size: 30
329490 GCGGCGGAGC
** * *
329500 TGGTGGTGGGTTTGGTAAGGGTGGAGGCCT
1 TGGTGGTGGAATTGGAAAGGGTGGAGGACT
* ** * * *
329530 TGGTGGGGGAATAAGAAAAGGTGGCGGAGT
1 TGGTGGTGGAATTGGAAAGGGTGGAGGACT
* * *
329560 TGGTGGTGGCATTGGAAAGGGAGGAGGCCT
1 TGGTGGTGGAATTGGAAAGGGTGGAGGACT
* * * * *
329590 TGGAGGTGGTATAGGAAAAGGTGGTGGACT
1 TGGTGGTGGAATTGGAAAGGGTGGAGGACT
* * * * **
329620 GGGTGGTGGCATTGGAAAGGGCGGGGGGGT
1 TGGTGGTGGAATTGGAAAGGGTGGAGGACT
* * * *
329650 TGGTGGCGGAGTTGGCAAGGGTGGAGGCCT
1 TGGTGGTGGAATTGGAAAGGGTGGAGGACT
* * *
329680 TGGTGGTGGCATTGGTAAGGGTGGGGGACT
1 TGGTGGTGGAATTGGAAAGGGTGGAGGACT
* *
329710 TGGTGGTGGAATTGGCAAGGGTGGAGGCCT
1 TGGTGGTGGAATTGGAAAGGGTGGAGGACT
* * * * * *
329740 TGGAGGGGGTATAGGAAAAGGTGGTGGACT
1 TGGTGGTGGAATTGGAAAGGGTGGAGGACT
* * * *
329770 TGGTGGCGGCATTGGTAAGGGTGGGGGACT
1 TGGTGGTGGAATTGGAAAGGGTGGAGGACT
* * *
329800 AGGTGGTGGAATTGGCAAGGGTGGAGGCCT
1 TGGTGGTGGAATTGGAAAGGGTGGAGGACT
329830 TGGTGGTGGA
1 TGGTGGTGGA
329840 CATGGCGGTG
Statistics
Matches: 234, Mismatches: 76, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 234 1.00
ACGTcount: A:0.18, C:0.07, G:0.52, T:0.22
Consensus pattern (30 bp):
TGGTGGTGGAATTGGAAAGGGTGGAGGACT
Found at i:329880 original size:30 final size:30
Alignment explanation
Indices: 329846--330039 Score: 127
Period size: 30 Copynumber: 6.5 Consensus size: 30
329836 TGGACATGGC
*
329846 GGTGGCATTGGGAAGGGAGGAGGCCTTGGT
1 GGTGGCATTGGAAAGGGAGGAGGCCTTGGT
* * *
329876 GGTGGCATTGGAAAAGGTGGGGGCCTTGGT
1 GGTGGCATTGGAAAGGGAGGAGGCCTTGGT
* * *
329906 GGTGGCATCGGTAAGGGCGGAGGCCTTGGT
1 GGTGGCATTGGAAAGGGAGGAGGCCTTGGT
* ** * * * * *
329936 GGTGGAACAGGAAAAGGAGGTGGGCTAGGA
1 GGTGGCATTGGAAAGGGAGGAGGCCTTGGT
* * * * *
329966 GGTGGAATTGAAAAGGGTGGTGGACTTGGT
1 GGTGGCATTGGAAAGGGAGGAGGCCTTGGT
* * * * * * *
329996 GGAGGAATTGGGAAGGGTGGTGGCATTGGA
1 GGTGGCATTGGAAAGGGAGGAGGCCTTGGT
* *
330026 GGTGGGATCGGAAA
1 GGTGGCATTGGAAA
330040 AGGTGGTGGT
Statistics
Matches: 127, Mismatches: 37, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 127 1.00
ACGTcount: A:0.22, C:0.08, G:0.51, T:0.20
Consensus pattern (30 bp):
GGTGGCATTGGAAAGGGAGGAGGCCTTGGT
Found at i:329967 original size:102 final size:102
Alignment explanation
Indices: 329768--329952 Score: 228
Period size: 102 Copynumber: 1.8 Consensus size: 102
329758 AGGTGGTGGA
* * * *
329768 CTTGGTGGCGGCATTGGTAAGGGTGGGGGACTAGGTGGTGGAATTGGCAAGGGTGGAGGCCTTGG
1 CTTGGTGGCGGCATTGGAAAAGGTGGGGGACTAGGTGGTGGAATCGGCAAGGGCGGAGGCCTTGG
**** *
329833 TGGTGGACATGGCGGTGGCATTGGGAAGGGAGGAGGC
66 TGGTGGACATGGAAAAGGCAGTGGGAAGGGAGGAGGC
* * * * *
329870 CTTGGTGGTGGCATTGGAAAAGGTGGGGGCCTTGGTGGTGGCATCGGTAAGGGCGGAGGCCTTGG
1 CTTGGTGGCGGCATTGGAAAAGGTGGGGGACTAGGTGGTGGAATCGGCAAGGGCGGAGGCCTTGG
329935 TGGTGGAACA-GGAAAAGG
66 TGGTGG-ACATGGAAAAGG
329953 AGGTGGGCTA
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
102 66 0.96
103 3 0.04
ACGTcount: A:0.18, C:0.11, G:0.50, T:0.21
Consensus pattern (102 bp):
CTTGGTGGCGGCATTGGAAAAGGTGGGGGACTAGGTGGTGGAATCGGCAAGGGCGGAGGCCTTGG
TGGTGGACATGGAAAAGGCAGTGGGAAGGGAGGAGGC
Found at i:329970 original size:60 final size:60
Alignment explanation
Indices: 329846--329970 Score: 153
Period size: 60 Copynumber: 2.1 Consensus size: 60
329836 TGGACATGGC
* * ** * * *
329846 GGTGGCATTGGGAAGGGAGGAGGCCTTGGTGGTGGCATTGGAAAAGGTGGGGGCCTTGGT
1 GGTGGCATCGGGAAGGGAGGAGGCCTTGGTGGTGGAACAGGAAAAGGAGGGGGCCTAGGA
* *
329906 GGTGGCATCGGTAAGGGCGGAGGCCTTGGTGGTGGAACAGGAAAAGGAGGTGGG-CTAGGA
1 GGTGGCATCGGGAAGGGAGGAGGCCTTGGTGGTGGAACAGGAAAAGGAGG-GGGCCTAGGA
329966 GGTGG
1 GGTGG
329971 AATTGAAAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 52 0.95
61 3 0.05
ACGTcount: A:0.19, C:0.10, G:0.52, T:0.18
Consensus pattern (60 bp):
GGTGGCATCGGGAAGGGAGGAGGCCTTGGTGGTGGAACAGGAAAAGGAGGGGGCCTAGGA
Found at i:329970 original size:132 final size:132
Alignment explanation
Indices: 329705--329971 Score: 300
Period size: 132 Copynumber: 2.0 Consensus size: 132
329695 TAAGGGTGGG
* * * * *
329705 GGACTTGGTGGTGGAATTGGCAAGGGTGGAGGCCTTGGAGGGGGTATAGGAAAAGGTGGTGGACT
1 GGACATGGCGGTGGAATTGGCAAGGGAGGAGGCCTTGGAGGGGGCATAGGAAAAGGTGGGGGACT
* * * ** * * * * *
329770 TGGTGGCGGCATTGGTAAGGGTGGGGGACTAGGTGGTGGAATTGGCAAGGGTGGAGGCCTTGGTG
66 TGGTGGCGGCATCGGTAAGGGCGGAGGACTAGGTGGTGGAACAGGAAAAGGAGGAGGCCTAGGAG
329835 GT
131 GT
* * * * * *
329837 GGACATGGCGGTGGCATTGGGAAGGGAGGAGGCCTTGGTGGTGGCATTGGAAAAGGTGGGGGCCT
1 GGACATGGCGGTGGAATTGGCAAGGGAGGAGGCCTTGGAGGGGGCATAGGAAAAGGTGGGGGACT
* * * * *
329902 TGGTGGTGGCATCGGTAAGGGCGGAGGCCTTGGTGGTGGAACAGGAAAAGGAGGTGGGCTAGGAG
66 TGGTGGCGGCATCGGTAAGGGCGGAGGACTAGGTGGTGGAACAGGAAAAGGAGGAGGCCTAGGAG
329967 GT
131 GT
329969 GGA
1 GGA
329972 ATTGAAAAGG
Statistics
Matches: 109, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
132 109 1.00
ACGTcount: A:0.19, C:0.10, G:0.51, T:0.20
Consensus pattern (132 bp):
GGACATGGCGGTGGAATTGGCAAGGGAGGAGGCCTTGGAGGGGGCATAGGAAAAGGTGGGGGACT
TGGTGGCGGCATCGGTAAGGGCGGAGGACTAGGTGGTGGAACAGGAAAAGGAGGAGGCCTAGGAG
GT
Found at i:330012 original size:90 final size:90
Alignment explanation
Indices: 329876--330048 Score: 197
Period size: 90 Copynumber: 1.9 Consensus size: 90
329866 AGGCCTTGGT
* * * * * * *
329876 GGTGGCATTGGAAAAGGTGGGGGCCTTGGTGGTGGCATCGGTAAGGGCGGAGGCCTTGGTGGT-G
1 GGTGGAATTGGAAAAGGTGGGGGACTTGGTGGAGGAATCGGGAAGGGCGGAGGCATTGGAGGTGG
329940 GAACAGGAAAAGGAGGTGGGCTAGGA
66 GAAC-GGAAAAGGAGGTGGGCTAGGA
* * * *
329966 GGTGGAATT-GAAAAGGGTGGTGGACTTGGTGGAGGAATTGGGAAGGGTGGTGGCATTGGAGGTG
1 GGTGGAATTGGAAAA-GGTGGGGGACTTGGTGGAGGAATCGGGAAGGGCGGAGGCATTGGAGGTG
* *
330030 GGATCGGAAAAGGTGGTGG
65 GGAACGGAAAAGGAGGTGG
330049 TGTTGGAGGC
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
89 5 0.07
90 59 0.87
91 4 0.06
ACGTcount: A:0.22, C:0.08, G:0.51, T:0.20
Consensus pattern (90 bp):
GGTGGAATTGGAAAAGGTGGGGGACTTGGTGGAGGAATCGGGAAGGGCGGAGGCATTGGAGGTGG
GAACGGAAAAGGAGGTGGGCTAGGA
Found at i:330085 original size:15 final size:15
Alignment explanation
Indices: 330065--330116 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
330055 AGGCGGAGCT
330065 GGTGGTGGACTTGGA
1 GGTGGTGGACTTGGA
* ** *
330080 GGTGGTGCAGGTGGG
1 GGTGGTGGACTTGGA
*
330095 GGTGGTGGATTTGGA
1 GGTGGTGGACTTGGA
330110 GGTGGTG
1 GGTGGTG
330117 CAGGAGGCGG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.10, C:0.04, G:0.60, T:0.27
Consensus pattern (15 bp):
GGTGGTGGACTTGGA
Found at i:330092 original size:24 final size:24
Alignment explanation
Indices: 330040--330093 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
330030 GGATCGGAAA
**
330040 AGGTGGTGGTGTTGGAGGCGGAGC
1 AGGTGGTGGACTTGGAGGCGGAGC
* * *
330064 TGGTGGTGGACTTGGAGGTGGTGC
1 AGGTGGTGGACTTGGAGGCGGAGC
330088 AGGTGG
1 AGGTGG
330094 GGGTGGTGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.11, C:0.07, G:0.57, T:0.24
Consensus pattern (24 bp):
AGGTGGTGGACTTGGAGGCGGAGC
Found at i:330129 original size:48 final size:47
Alignment explanation
Indices: 330077--330248 Score: 155
Period size: 48 Copynumber: 3.4 Consensus size: 47
330067 TGGTGGACTT
*
330077 GGAGGTGGTGCAGGTGGGGGTGGTGGATTTGGAGGTGGTGCAGGAGGC
1 GGAGGTGGTGC-GGTGGGGGTGGTGGATTTGGAGGGGGTGCAGGAGGC
* * *
330125 GGAGGTGGTGTCGGTGGTGGTGGTGGATTTGGAGGGGGTGCTGGAGGT
1 GGAGGTGGTG-CGGTGGGGGTGGTGGATTTGGAGGGGGTGCAGGAGGC
* * * * *
330173 GGAGGCGGTGCCGGTGGTGGTTTTGGAGGCGGATTTGGTGGGGGTGCAGGAGGT
1 GGAGGTGGTG-CGGT-G-GG----GGTGGTGGATTTGGAGGGGGTGCAGGAGGC
**
330227 GGAGGTGGATTTGGTGGGGGTG
1 GGAGGTGG-TGCGGTGGGGGTG
330249 CAGGAGGTGG
Statistics
Matches: 101, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
48 58 0.57
49 2 0.02
50 1 0.01
52 2 0.02
53 1 0.01
54 36 0.36
55 1 0.01
ACGTcount: A:0.10, C:0.06, G:0.60, T:0.24
Consensus pattern (47 bp):
GGAGGTGGTGCGGTGGGGGTGGTGGATTTGGAGGGGGTGCAGGAGGC
Found at i:330132 original size:30 final size:30
Alignment explanation
Indices: 330068--330132 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
330058 CGGAGCTGGT
* * *
330068 GGTGGACTTGGAGGTGGTGCAGGTGGGGGT
1 GGTGGACTTGGAGGTGGTGCAGGAGGCGGA
*
330098 GGTGGATTTGGAGGTGGTGCAGGAGGCGGA
1 GGTGGACTTGGAGGTGGTGCAGGAGGCGGA
330128 GGTGG
1 GGTGG
330133 TGTCGGTGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.12, C:0.06, G:0.60, T:0.22
Consensus pattern (30 bp):
GGTGGACTTGGAGGTGGTGCAGGAGGCGGA
Found at i:330147 original size:54 final size:54
Alignment explanation
Indices: 330089--330295 Score: 176
Period size: 54 Copynumber: 3.8 Consensus size: 54
330079 AGGTGGTGCA
* *
330089 GGTGGGGGTGGTGGATTTGGAGGTGGTGCAGGAGGCGGAGGTGGTGTC---GGT
1 GGTGGGGGTGGTGGATTTGGAGGGGGTGCAGGAGGTGGAGGTGGTGTCGGTGGT
* * *
330140 GGT---GGTGGTGGATTTGGAGGGGGTGCTGGAGGTGGAGGCGGTGCCGGTGGT
1 GGTGGGGGTGGTGGATTTGGAGGGGGTGCAGGAGGTGGAGGTGGTGTCGGTGGT
*** * * * * *
330191 GGTTTTGGAGGCGGATTTGGTGGGGGTGCAGGAGGTGGAGGTGGAT-TTGGTGGG
1 GGTGGGGGTGGTGGATTTGGAGGGGGTGCAGGAGGTGGAGGTGG-TGTCGGTGGT
*
330245 GGTGCAGGAGGTGGAGGTGGATTTGGTGGGGGTGCAGGAGGTGGAGGTGGT
1 GGTG--GG-GGT---GGTGGATTTGGAGGGGGTGCAGGAGGTGGAGGTGGT
330296 TTTGGTGGAG
Statistics
Matches: 125, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
48 37 0.30
51 9 0.07
54 41 0.33
55 1 0.01
57 2 0.02
59 1 0.01
60 34 0.27
ACGTcount: A:0.11, C:0.05, G:0.60, T:0.24
Consensus pattern (54 bp):
GGTGGGGGTGGTGGATTTGGAGGGGGTGCAGGAGGTGGAGGTGGTGTCGGTGGT
Found at i:330191 original size:18 final size:18
Alignment explanation
Indices: 330154--330192 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
330144 GTGGTGGATT
* *
330154 TGGAGGGGGTGCTGGAGG
1 TGGAGGCGGTGCCGGAGG
*
330172 TGGAGGCGGTGCCGGTGG
1 TGGAGGCGGTGCCGGAGG
330190 TGG
1 TGG
330193 TTTTGGAGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.10, G:0.64, T:0.18
Consensus pattern (18 bp):
TGGAGGCGGTGCCGGAGG
Found at i:330230 original size:30 final size:30
Alignment explanation
Indices: 330196--330330 Score: 216
Period size: 30 Copynumber: 4.5 Consensus size: 30
330186 GTGGTGGTTT
*
330196 TGGAGGCGGATTTGGTGGGGGTGCAGGAGG
1 TGGAGGTGGATTTGGTGGGGGTGCAGGAGG
330226 TGGAGGTGGATTTGGTGGGGGTGCAGGAGG
1 TGGAGGTGGATTTGGTGGGGGTGCAGGAGG
330256 TGGAGGTGGATTTGGTGGGGGTGCAGGAGG
1 TGGAGGTGGATTTGGTGGGGGTGCAGGAGG
* * * *
330286 TGGAGGTGGTTTTGGTGGAGGAGCAGGCGG
1 TGGAGGTGGATTTGGTGGGGGTGCAGGAGG
*
330316 TGGAGGTGGAATTGG
1 TGGAGGTGGATTTGG
330331 AGGACTCCAC
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 98 1.00
ACGTcount: A:0.14, C:0.04, G:0.59, T:0.23
Consensus pattern (30 bp):
TGGAGGTGGATTTGGTGGGGGTGCAGGAGG
Found at i:330233 original size:15 final size:15
Alignment explanation
Indices: 330209--330293 Score: 71
Period size: 15 Copynumber: 5.7 Consensus size: 15
330199 AGGCGGATTT
*
330209 GGTGGGGGTGCAGGA
1 GGTGGAGGTGCAGGA
* ***
330224 GGTGGAGGTGGATTT
1 GGTGGAGGTGCAGGA
*
330239 GGTGGGGGTGCAGGA
1 GGTGGAGGTGCAGGA
* ***
330254 GGTGGAGGTGGATTT
1 GGTGGAGGTGCAGGA
*
330269 GGTGGGGGTGCAGGA
1 GGTGGAGGTGCAGGA
330284 GGTGGAGGTG
1 GGTGGAGGTG
330294 GTTTTGGTGG
Statistics
Matches: 49, Mismatches: 21, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
15 49 1.00
ACGTcount: A:0.13, C:0.04, G:0.62, T:0.21
Consensus pattern (15 bp):
GGTGGAGGTGCAGGA
Found at i:332730 original size:18 final size:18
Alignment explanation
Indices: 332707--332756 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
332697 TTTAACTAAG
*
332707 GGAGGTGGGTTTGGTGCC
1 GGAGGTGGGTTTGGTGCA
**
332725 GGAGGTGGGGGTGGTGCA
1 GGAGGTGGGTTTGGTGCA
*
332743 GGAGGTGGTTTTGG
1 GGAGGTGGGTTTGG
332757 AGGAGGTGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.08, C:0.06, G:0.60, T:0.26
Consensus pattern (18 bp):
GGAGGTGGGTTTGGTGCA
Found at i:332866 original size:30 final size:30
Alignment explanation
Indices: 332772--332853 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
332762 GTGGTGGTGG
* *
332772 TGGTGGAGGGCTTGGAGGTGGCGTTGGAGC
1 TGGTGGAGGGTTTGGTGGTGGCGTTGGAGC
*
332802 TGGTAGAGGGTTTGGTGGTGGCGTTGGAGC
1 TGGTGGAGGGTTTGGTGGTGGCGTTGGAGC
332832 TGGTGGAGGGTTTGGTGGTGGC
1 TGGTGGAGGGTTTGGTGGTGGC
332854 CGTGGGATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.09, C:0.07, G:0.56, T:0.28
Consensus pattern (30 bp):
TGGTGGAGGGTTTGGTGGTGGCGTTGGAGC
Found at i:332924 original size:30 final size:30
Alignment explanation
Indices: 332890--333164 Score: 300
Period size: 30 Copynumber: 9.2 Consensus size: 30
332880 AGGAGGGGAT
* * * * *
332890 TTGGTGGGGGGATTGGTAAGGGTGGAGGCC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
* * ** * * *
332920 TTGGTGGGGGAATAGAAAAAGGTGGAGGCC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
* * * *
332950 TTGGTGGGGGAATAGGAAAAGGTGGTGGAC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
*
332980 ATGGTGGAGGAATTGGCAAGGGTGGTGGAC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
*
333010 TTGGTGGAGGAATTGGCAAGGGTGGTGGCC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
* *
333040 TTGTTGGAGGAATTGGCAAGGGCGGTGGAC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
*
333070 TTGGGGGAGGAATTGGCAAGGGTGGTGGAC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
*
333100 TTGGTGGAGGAATTGGCAAGGGTGGTGAAC
1 TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
* * *
333130 ATGGTGGTGGAATTGG-AATAGGTGGTGGAC
1 TTGGTGGAGGAATTGGCAA-GGGTGGTGGAC
*
333160 ATGGT
1 TTGGT
333165 AGTGGCATTG
Statistics
Matches: 217, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
29 2 0.01
30 215 0.99
ACGTcount: A:0.22, C:0.07, G:0.49, T:0.22
Consensus pattern (30 bp):
TTGGTGGAGGAATTGGCAAGGGTGGTGGAC
Found at i:332985 original size:60 final size:60
Alignment explanation
Indices: 332921--333193 Score: 177
Period size: 60 Copynumber: 4.5 Consensus size: 60
332911 GTGGAGGCCT
* * *
332921 TGGTGGGGGAATAGAAAAAGGTGGAGGCCTTGGTGGGGGAATAGGAAAAGGTGGTGGACA
1 TGGTGGAGGAATAGAAAAAGGTGGAGGACTTGGTGGAGGAATAGGAAAAGGTGGTGGACA
* ** * * * * * * *
332981 TGGTGGAGGAATTGGCAAGGGTGGTGGACTTGGTGGAGGAATTGGCAAGGGTGGTGGCCT
1 TGGTGGAGGAATAGAAAAAGGTGGAGGACTTGGTGGAGGAATAGGAAAAGGTGGTGGACA
* * ** * * * * * * * *
333041 TGTTGGAGGAATTGGCAAGGGCGGTGGACTTGGGGGAGGAATTGGCAAGGGTGGTGGACT
1 TGGTGGAGGAATAGAAAAAGGTGGAGGACTTGGTGGAGGAATAGGAAAAGGTGGTGGACA
* ** * * * * * * *
333101 TGGTGGAGGAATTGGCAAGGGTGGTGAACATGGTGGTGGAATTGGAATAGGTGGTGGACA
1 TGGTGGAGGAATAGAAAAAGGTGGAGGACTTGGTGGAGGAATAGGAAAAGGTGGTGGACA
* * * * * *
333161 TGGTAGTGGCATTGGAAAAGGTGGAGGAATTGG
1 TGGTGGAGGAATAGAAAAAGGTGGAGGACTTGG
333194 CAATGGTGGT
Statistics
Matches: 177, Mismatches: 36, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 177 1.00
ACGTcount: A:0.24, C:0.06, G:0.48, T:0.22
Consensus pattern (60 bp):
TGGTGGAGGAATAGAAAAAGGTGGAGGACTTGGTGGAGGAATAGGAAAAGGTGGTGGACA
Found at i:333013 original size:90 final size:90
Alignment explanation
Indices: 332873--333164 Score: 334
Period size: 90 Copynumber: 3.3 Consensus size: 90
332863 GGTGTTGGAG
* ** * * * * * * * **
332873 TTGGAAAAGGAGG-GGATTTGGTGGGGGGATTGGTAAGGGTGGAGGCCTTGGTGGGGGAATAGAA
1 TTGGAAAAGGTGGTGGACATGGTGGAGGAATTGGCAAGGGTGGTGGACTTGGTGGAGGAATTGGC
* * *
332937 AAAGGTGGAGGCCTTGGTGGGGGAA
66 AAGGGTGGTGGCCTTGGTGGAGGAA
*
332962 TAGGAAAAGGTGGTGGACATGGTGGAGGAATTGGCAAGGGTGGTGGACTTGGTGGAGGAATTGGC
1 TTGGAAAAGGTGGTGGACATGGTGGAGGAATTGGCAAGGGTGGTGGACTTGGTGGAGGAATTGGC
*
333027 AAGGGTGGTGGCCTTGTTGGAGGAA
66 AAGGGTGGTGGCCTTGGTGGAGGAA
* * * * *
333052 TTGGCAAGGGCGGTGGACTTGGGGGAGGAATTGGCAAGGGTGGTGGACTTGGTGGAGGAATTGGC
1 TTGGAAAAGGTGGTGGACATGGTGGAGGAATTGGCAAGGGTGGTGGACTTGGTGGAGGAATTGGC
** * *
333117 AAGGGTGGTGAACATGGTGGTGGAA
66 AAGGGTGGTGGCCTTGGTGGAGGAA
*
333142 TTGGAATAGGTGGTGGACATGGT
1 TTGGAAAAGGTGGTGGACATGGT
333165 AGTGGCATTG
Statistics
Matches: 168, Mismatches: 34, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
89 11 0.07
90 157 0.93
ACGTcount: A:0.23, C:0.06, G:0.49, T:0.22
Consensus pattern (90 bp):
TTGGAAAAGGTGGTGGACATGGTGGAGGAATTGGCAAGGGTGGTGGACTTGGTGGAGGAATTGGC
AAGGGTGGTGGCCTTGGTGGAGGAA
Found at i:333232 original size:48 final size:48
Alignment explanation
Indices: 333132--333235 Score: 138
Period size: 48 Copynumber: 2.2 Consensus size: 48
333122 TGGTGAACAT
* * *
333132 GGTGGTGGAATTGGAATAGGTGGTGGACATGGTAGTGGCATTGGAAAA
1 GGTGGAGGAATTGGAATAGGTGGTGGACATGGCAGTGGCATCGGAAAA
* * *
333180 GGTGGAGGAATTGGCAAT-GGTGGTGGACATGGCGGTGGCATCGGTAAG
1 GGTGGAGGAATTGG-AATAGGTGGTGGACATGGCAGTGGCATCGGAAAA
333228 GGTGGAGG
1 GGTGGAGG
333236 CCTTGGTGGT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
48 46 0.94
49 3 0.06
ACGTcount: A:0.23, C:0.07, G:0.48, T:0.22
Consensus pattern (48 bp):
GGTGGAGGAATTGGAATAGGTGGTGGACATGGCAGTGGCATCGGAAAA
Found at i:333271 original size:78 final size:78
Alignment explanation
Indices: 333102--333259 Score: 192
Period size: 78 Copynumber: 2.0 Consensus size: 78
333092 TGGTGGACTT
* * *
333102 GGTGGAGGAATTGGCAAGGGTGGTGAACATGGTGGTGGAATTGGAATAGGTGGTGGACATGGTAG
1 GGTGGAGGAATTGGCAAGGGTGGTGAACATGGCGGTGGAATCGGAATAGGTGGAGGACATGGTAG
* *
333167 TGGCATTGGAAAA
66 TGGAATCGGAAAA
* * * * * * *
333180 GGTGGAGGAATTGGCAATGGTGGTGGACATGGCGGTGGCATCGGTAA-GGGTGGAGGCCTTGGTG
1 GGTGGAGGAATTGGCAAGGGTGGTGAACATGGCGGTGGAATCGG-AATAGGTGGAGGACATGGTA
333244 GTGGAATCGGAAAA
65 GTGGAATCGGAAAA
333258 GG
1 GG
333260 ATGTGAGATT
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 65 0.97
79 2 0.03
ACGTcount: A:0.24, C:0.08, G:0.47, T:0.22
Consensus pattern (78 bp):
GGTGGAGGAATTGGCAAGGGTGGTGAACATGGCGGTGGAATCGGAATAGGTGGAGGACATGGTAG
TGGAATCGGAAAA
Found at i:333277 original size:30 final size:29
Alignment explanation
Indices: 333238--333337 Score: 76
Period size: 30 Copynumber: 3.3 Consensus size: 29
333228 GGTGGAGGCC
*
333238 TTGGTGGTGGAATCGGAAAAGGATGTGAGA
1 TTGGAGGTGGAATCGGAAAAGGATGTG-GA
* * * * *
333268 TTGGAGGTGGATTTGGAAAAGAAGGTGGGC
1 TTGGAGGTGGAATCGGAAAAGGATGT-GGA
** *
333298 TAAGAGGTGGAATCGG-AAAGGGTGGTGGCA
1 TTGGAGGTGGAATCGGAAAAGGAT-GTGG-A
333328 TTGGAGGTGG
1 TTGGAGGTGG
333338 GATTAGGAAA
Statistics
Matches: 51, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
29 6 0.12
30 44 0.86
31 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.47, T:0.22
Consensus pattern (29 bp):
TTGGAGGTGGAATCGGAAAAGGATGTGGA
Found at i:335108 original size:44 final size:44
Alignment explanation
Indices: 335058--335194 Score: 202
Period size: 44 Copynumber: 3.1 Consensus size: 44
335048 ATACGAATAT
* * *
335058 TGAATACGACCATGTCGGATACATACACATCCCACACTCGAACC
1 TGAATACGCCCTTGTCGGATACATACACATCCGACACTCGAACC
335102 TGAATACGCCCTTGTCGGATACATACACATCCGACACTCGAACC
1 TGAATACGCCCTTGTCGGATACATACACATCCGACACTCGAACC
* * * *
335146 AGAATACTCCCTTGTTGGATACATACACATACGACACTCGAACC
1 TGAATACGCCCTTGTCGGATACATACACATCCGACACTCGAACC
*
335190 CGAAT
1 TGAAT
335195 TCGCATAACA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 85 1.00
ACGTcount: A:0.33, C:0.32, G:0.15, T:0.20
Consensus pattern (44 bp):
TGAATACGCCCTTGTCGGATACATACACATCCGACACTCGAACC
Found at i:360620 original size:22 final size:22
Alignment explanation
Indices: 360580--360621 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
360570 GACGGTTATC
**
360580 TTAACCCCTAAAATTTTAAACT
1 TTAACCCCTAAAACATTAAACT
*
360602 TTAACCCCTGAAACATTAAA
1 TTAACCCCTAAAACATTAAA
360622 GAAAATTAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.24, G:0.02, T:0.31
Consensus pattern (22 bp):
TTAACCCCTAAAACATTAAACT
Found at i:362562 original size:30 final size:30
Alignment explanation
Indices: 362523--362588 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
362513 TTAGAAAATC
362523 ATTTGGAAAATCTTAAAATCCATTTAACTTA
1 ATTT-GAAAATCTTAAAATCCATTTAACTTA
362554 ATTTGAAAATCTTAAAATCCATTTAACTTA
1 ATTTGAAAATCTTAAAATCCATTTAACTTA
362584 ATTTG
1 ATTTG
362589 TTATATCGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (30 bp):
ATTTGAAAATCTTAAAATCCATTTAACTTA
Found at i:365057 original size:20 final size:20
Alignment explanation
Indices: 364983--365065 Score: 69
Period size: 20 Copynumber: 4.0 Consensus size: 20
364973 AACAGAACCC
*
364983 CAGGGGGGTATCGATTCCC-
1 CAGGGGGGAATCGATTCCCT
* *
365002 CTGTGGGGGAATCGGTTCCCCTT
1 CAG-GGGGGAATCGATT-CCC-T
** *
365025 CAAAGGGGAATCGGTTCCCT
1 CAGGGGGGAATCGATTCCCT
*
365045 CAGGGGGGGATCGATTCCCT
1 CAGGGGGGAATCGATTCCCT
365065 C
1 C
365066 TGCACCAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
19 2 0.04
20 29 0.58
21 6 0.12
22 12 0.24
23 1 0.02
ACGTcount: A:0.16, C:0.27, G:0.35, T:0.23
Consensus pattern (20 bp):
CAGGGGGGAATCGATTCCCT
Found at i:371153 original size:30 final size:30
Alignment explanation
Indices: 371114--371179 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
371104 TTAGAAAATC
371114 ATTTGGAAAATCTTAAAATCCATTTAACTTA
1 ATTT-GAAAATCTTAAAATCCATTTAACTTA
371145 ATTTGAAAATCTTAAAATCCATTTAACTTA
1 ATTTGAAAATCTTAAAATCCATTTAACTTA
371175 ATTTG
1 ATTTG
371180 TTATATCGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (30 bp):
ATTTGAAAATCTTAAAATCCATTTAACTTA
Found at i:371470 original size:20 final size:21
Alignment explanation
Indices: 371453--371515 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 21
371443 CAAAAGACCG
371453 AAAACGTGTCATAAAGACAAA
1 AAAACGTGTCATAAAGACAAA
*
371474 AAAACGTGTCATAAAGGCATATA
1 AAAACGTGTCATAAAGACA-A-A
*
371497 AAAACGTGTCACAAAGACA
1 AAAACGTGTCATAAAGACA
371516 TATTTATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 18 0.49
22 1 0.03
23 18 0.49
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (21 bp):
AAAACGTGTCATAAAGACAAA
Found at i:371503 original size:23 final size:23
Alignment explanation
Indices: 371453--371518 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
371443 CAAAAGACCG
371453 AAAACGTGTCATAAAGACA-A-A
1 AAAACGTGTCATAAAGACATATA
*
371474 AAAACGTGTCATAAAGGCATATA
1 AAAACGTGTCATAAAGACATATA
*
371497 AAAACGTGTCACAAAGACATAT
1 AAAACGTGTCATAAAGACATAT
371519 TTATTAAACA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.45
22 1 0.03
23 21 0.52
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (23 bp):
AAAACGTGTCATAAAGACATATA
Found at i:371882 original size:44 final size:44
Alignment explanation
Indices: 371810--371928 Score: 177
Period size: 44 Copynumber: 2.7 Consensus size: 44
371800 AGAAAGTGAT
* *
371810 TTAAAAAAAAAATAAAAAAGTCTATTTTAAATATTATGTTGTAAA
1 TTAAAAATATAAT-AAAAAGTCTATTTTAAATATTATGTTGTAAA
*
371855 TTAAAAATATAATAACAAA-TTTATTTTAAATATTATGTTGTAAA
1 TTAAAAATATAATAA-AAAGTCTATTTTAAATATTATGTTGTAAA
*
371899 TTGAAAATATAATAAAAAGTCTATTTTAAA
1 TTAAAAATATAATAAAAAGTCTATTTTAAA
371929 CTAAAACAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
43 3 0.04
44 50 0.75
45 14 0.21
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (44 bp):
TTAAAAATATAATAAAAAGTCTATTTTAAATATTATGTTGTAAA
Found at i:372648 original size:24 final size:24
Alignment explanation
Indices: 372616--372661 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
372606 TATAAGGACA
372616 AAATATACCTTTTTACCTAAATAT
1 AAATATACCTTTTTACCTAAATAT
*
372640 AAATTTACCTTTTTACCTAAAT
1 AAATATACCTTTTTACCTAAAT
372662 CAAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.43
Consensus pattern (24 bp):
AAATATACCTTTTTACCTAAATAT
Found at i:376329 original size:21 final size:21
Alignment explanation
Indices: 376305--376349 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
376295 TCATTCAACC
* *
376305 CCACGGCGAACACCACGGCCA
1 CCACGGAGAACACCACCGCCA
**
376326 CCACGGAGGCCACCACCGCCA
1 CCACGGAGAACACCACCGCCA
376347 CCA
1 CCA
376350 AGCAGACAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.51, G:0.22, T:0.00
Consensus pattern (21 bp):
CCACGGAGAACACCACCGCCA
Found at i:378486 original size:16 final size:16
Alignment explanation
Indices: 378465--378495 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
378455 TTTAAGGAAT
378465 TAATCTAAAAATAAAA
1 TAATCTAAAAATAAAA
*
378481 TAATCTAAATATAAA
1 TAATCTAAAAATAAA
378496 GATCAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATCTAAAAATAAAA
Found at i:381994 original size:34 final size:32
Alignment explanation
Indices: 381941--382011 Score: 97
Period size: 34 Copynumber: 2.2 Consensus size: 32
381931 CCTTACAAAC
* *
381941 TCCCTAGTTTTTCCGGGCTAAACTATAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
381973 TCCCTAGATTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
382007 TCCCT
1 TCCCT
382012 TTTACAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.34
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:382320 original size:21 final size:21
Alignment explanation
Indices: 382294--382335 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
382284 CCAGAATGGG
* *
382294 GGGAATTGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
382315 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
382336 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:382565 original size:29 final size:31
Alignment explanation
Indices: 382533--382592 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
382523 AAATTTTGAA
*
382533 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
382562 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
382593 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:383888 original size:20 final size:20
Alignment explanation
Indices: 383863--383912 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
383853 TCTAAATCAT
383863 TTTTCAAAATTTCATTTTGA
1 TTTTCAAAATTTCATTTTGA
383883 TTTTCAAAATTTCATTTTGA
1 TTTTCAAAATTTCATTTTGA
383903 TTTTCAAAAT
1 TTTTCAAAAT
383913 CAACTTTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTTCAAAATTTCATTTTGA
Found at i:383920 original size:20 final size:19
Alignment explanation
Indices: 383863--383934 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
383853 TCTAAATCAT
383863 TTTTCAAAATTTC-ATTTTGA
1 TTTTCAAAA--TCAATTTTGA
383883 TTTTCAAAATTTC-ATTTTGA
1 TTTTCAAAA--TCAATTTTGA
383903 TTTTCAAAATCAACTTTTG-
1 TTTTCAAAATCAA-TTTTGA
*
383922 CTTTCAAAATCAA
1 TTTTCAAAATCAA
383935 ATTATTTTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
18 2 0.04
19 13 0.27
20 34 0.69
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (19 bp):
TTTTCAAAATCAATTTTGA
Found at i:385443 original size:32 final size:34
Alignment explanation
Indices: 385407--385477 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
385397 CCTTACAAAC
* * *
385407 TCCCTAG-TTTTTC-CGGGCTAAACTATAACTTT
1 TCCCTAGCTTTTACACGGGCTAAACTAGAACCTT
*
385439 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGCTAAACTAGAACCTT
385473 TCCCT
1 TCCCT
385478 TTTACAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGCTAAACTAGAACCTT
Found at i:385782 original size:21 final size:21
Alignment explanation
Indices: 385756--385797 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
385746 GTCCAAATGG
*
385756 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
385777 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
385798 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:385930 original size:19 final size:19
Alignment explanation
Indices: 385903--385949 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
385893 GAGCCTCGGG
* * *
385903 TACTGTTCAAACAGTGATT
1 TACTATTCAAACAGTAAAT
*
385922 TACTATTCAAATAGTAAAT
1 TACTATTCAAACAGTAAAT
385941 TACTATTCA
1 TACTATTCA
385950 TAAAAACATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TACTATTCAAACAGTAAAT
Found at i:389129 original size:13 final size:13
Alignment explanation
Indices: 389097--389135 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
389087 TAAAAAAGGA
389097 AAAAAATAAAAAT
1 AAAAAATAAAAAT
*
389110 AATAAAATAAAATT
1 AA-AAAATAAAAAT
*
389124 TAAAAATAAAAA
1 AAAAAATAAAAA
389136 CCAAATACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:390478 original size:28 final size:28
Alignment explanation
Indices: 390417--390492 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
390407 CAAGCTAAAT
* * *
390417 TGATGTCATTACTTACATTATTTAATTAA
1 TGATGTCATTGCTTACA-TCTTTAAGTAA
*
390446 AGATGTCATTGCTTACATCTTTAAGTAA
1 TGATGTCATTGCTTACATCTTTAAGTAA
390474 TGATGTCATTGCTTACATC
1 TGATGTCATTGCTTACATC
390493 AATTTAGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 27 0.64
29 15 0.36
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (28 bp):
TGATGTCATTGCTTACATCTTTAAGTAA
Found at i:395188 original size:29 final size:29
Alignment explanation
Indices: 395153--395234 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
395143 AAACTAAATT
* *
395153 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
395182 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
395211 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
395235 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:396861 original size:29 final size:29
Alignment explanation
Indices: 396800--396881 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 29
396790 CCCAACCCAT
* ** *
396800 AGGTCGCCATGCACTCCCAGCGACCTCCT
1 AGGTCGCCATGCACTCCCGGCGACCAACG
* *
396829 AGGTCGCCATGCACTCCGGGCGACCAAGG
1 AGGTCGCCATGCACTCCCGGCGACCAACG
*
396858 AGGTCGTCATGCAC-CCCGGCGACC
1 AGGTCGCCATGCACTCCCGGCGACC
396882 TTGTCTCCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 9 0.20
29 36 0.80
ACGTcount: A:0.18, C:0.40, G:0.28, T:0.13
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCGGCGACCAACG
Found at i:397072 original size:29 final size:29
Alignment explanation
Indices: 397025--397081 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
397015 GGGTTAAAAG
*
397025 CTTGGTCGCCGGGCATGCATGGCGACCTT
1 CTTGGTCGCCCGGCATGCATGGCGACCTT
397054 CTTGGTCGCCCGG-AGTGCATGGCGACCT
1 CTTGGTCGCCCGGCA-TGCATGGCGACCT
397082 AGGAGGTCGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.11, C:0.32, G:0.35, T:0.23
Consensus pattern (29 bp):
CTTGGTCGCCCGGCATGCATGGCGACCTT
Found at i:400331 original size:25 final size:26
Alignment explanation
Indices: 400296--400355 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
400286 TTTAAACACT
*
400296 AATTTAAATATTTTACATA-ATTTTA
1 AATTTATATATTTTACATATATTTTA
***
400321 AATTTATATATTTTTGTTATATTTTA
1 AATTTATATATTTTACATATATTTTA
400347 AATTTATAT
1 AATTTATAT
400356 TATAATTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 15 0.50
26 15 0.50
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (26 bp):
AATTTATATATTTTACATATATTTTA
Done.