Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 188 of 255
Found at i:62430827 original size:37 final size:37
Alignment explanation
Indices: 62430777--62430921 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
62430767 ACCTTTAGCT
* * *
62430777 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
62430814 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
62430851 CGGGCAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* *
62430888 CGGACATACTCTCCACACGTAGTCATCGGGTCTT
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTT
62430922 TAGAGCTCGG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:62431109 original size:47 final size:47
Alignment explanation
Indices: 62431040--62431493 Score: 779
Period size: 47 Copynumber: 9.6 Consensus size: 47
62431030 CCCTTCGGGA
*
62431040 CTTATCACATTTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62431087 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62431134 CTTATCACATATATACACTTTCACA-T--TCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62431178 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62431225 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62431272 CGTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
62431319 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62431366 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62431415 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62431462 CTTATCACATATATATACACTTTCACATTCAT
1 CTTATCAC--ATATATACACTTTCACATTCAT
62431494 TCAAATATAC
Statistics
Matches: 387, Mismatches: 13, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
44 42 0.11
45 1 0.00
46 1 0.00
47 275 0.71
49 68 0.18
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62452582 original size:40 final size:40
Alignment explanation
Indices: 62452530--62452679 Score: 167
Period size: 40 Copynumber: 3.8 Consensus size: 40
62452520 GCGTTTGGAC
* * * *
62452530 AAAAAATGCCACTATAGATCGAGCATTAACGGCGCTATTT
1 AAAAAACGCCACTATAGATCGAGCATTAGCGGCACTTTTT
* *
62452570 CAAAAACGCCACTATAGAAT-GAGCATTAGCTGCACTTTTT
1 AAAAAACGCCACTATAG-ATCGAGCATTAGCGGCACTTTTT
* **
62452610 AAAAAACGCCGCTATAGATAAAGCATTAGCGGCACTTTTT
1 AAAAAACGCCACTATAGATCGAGCATTAGCGGCACTTTTT
** * *
62452650 AAAAAACGCTGCTATAGGTCGACCATTAGC
1 AAAAAACGCCACTATAGATCGAGCATTAGC
62452680 AACGCTTTTT
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (40 bp):
AAAAAACGCCACTATAGATCGAGCATTAGCGGCACTTTTT
Found at i:62453713 original size:46 final size:46
Alignment explanation
Indices: 62453663--62453835 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
62453653 TGGTTGAGCA
*
62453663 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
62453709 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
62453756 TCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
62453802 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62453836 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:62453819 original size:93 final size:93
Alignment explanation
Indices: 62453660--62453830 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
62453650 GGATGGTTGA
* *
62453660 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
62453725 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
62453753 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
62453818 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
62453831 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62454097 original size:19 final size:20
Alignment explanation
Indices: 62454060--62454097 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
62454050 ATAAGGTGGT
62454060 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
62454080 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
62454098 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:62460833 original size:46 final size:46
Alignment explanation
Indices: 62460783--62460955 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
62460773 TGGTTGAGCA
62460783 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
62460829 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
62460874 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
62460922 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62460956 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 59 0.55
47 29 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:62460939 original size:93 final size:93
Alignment explanation
Indices: 62460780--62460950 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
62460770 GGATGGTTGA
*
62460780 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
62460845 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
62460873 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
*
62460938 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
62460951 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62461217 original size:19 final size:20
Alignment explanation
Indices: 62461180--62461217 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
62461170 ATAAGGTGGT
62461180 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
62461200 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
62461218 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:62467725 original size:42 final size:42
Alignment explanation
Indices: 62467604--62467802 Score: 186
Period size: 42 Copynumber: 4.7 Consensus size: 42
62467594 ATAAATTTTT
*
62467604 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGTCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTTG-GAAAAGCGTCGC
* * ** * * *
62467647 TAAAAGTCTAT-TT-TATAGTTGCATTTGTGGGAAAAGCGTTGC
1 TAAAGGTC-ATGTTCTTTAGCGGCGTTT-TTGGAAAAGCGTCGC
* *
62467689 TAAAGGTCATGTTCTTTAGCGGCGTTTTTGGGAAAGCATCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTTGGAAAAGCGTCGC
* * * * *
62467731 TAAAGATCATGTTCTTTAGCGGCGTATGTCGAAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGT-TTTTGGAAAAGCGTCGC
* * *
62467774 TAAAGATCATGTTCTATAGCGGCATTTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTT
62467803 TTTCATAAAC
Statistics
Matches: 123, Mismatches: 28, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.02
42 66 0.54
43 53 0.43
44 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (42 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTTTGGAAAAGCGTCGC
Found at i:62467767 original size:85 final size:85
Alignment explanation
Indices: 62467604--62467802 Score: 215
Period size: 85 Copynumber: 2.3 Consensus size: 85
62467594 ATAAATTTTT
* * **
62467604 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGCGTCGCTAAAAGTCTATTTTATAGTTGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTTGAGAAAAGCATCGCTAAAAGTCTATTTTATAGCGGC
* * * **
62467669 ATTTGTGGGAAAAGCGTTGC
66 ATATGTCGAAAAAGCGCCGC
* *
62467689 TAAAGGTCATGTTCTTTAGCGGCGTTTTTG-GGAAAGCATCGCT-AAAGATC-ATGTTCTTTAGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTTGAGAAAAGCATCGCTAAAAG-TCTAT-TT-TATAGC
*
62467751 GGCGTATGTCGAAAAAGCGCCGC
63 GGCATATGTCGAAAAAGCGCCGC
* * *
62467774 TAAAGATCATGTTCTATAGCGGCATTTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTT
62467803 TTTCATAAAC
Statistics
Matches: 96, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
83 6 0.06
84 15 0.16
85 75 0.78
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (85 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTTTGAGAAAAGCATCGCTAAAAGTCTATTTTATAGCGGC
ATATGTCGAAAAAGCGCCGC
Found at i:62468194 original size:21 final size:20
Alignment explanation
Indices: 62468160--62468205 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
62468150 CTTGTAGAAA
* * *
62468160 ATATTTTTTTAATGTAATGT
1 ATATTTTATTAATGCAATGC
62468180 ATATTTCTATTAATGCAATGC
1 ATATTT-TATTAATGCAATGC
62468201 ATATT
1 ATATT
62468206 GCTTTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.52
Consensus pattern (20 bp):
ATATTTTATTAATGCAATGC
Found at i:62477017 original size:11 final size:11
Alignment explanation
Indices: 62477001--62477026 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
62476991 TAGTTTTATC
62477001 TGCTAATTGAA
1 TGCTAATTGAA
62477012 TGCTAATTGAA
1 TGCTAATTGAA
62477023 TGCT
1 TGCT
62477027 CATCCTAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (11 bp):
TGCTAATTGAA
Found at i:62489973 original size:23 final size:23
Alignment explanation
Indices: 62489934--62489978 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
62489924 AAATAAATAA
62489934 AAAAATAAAGAAATATG-AGAAT
1 AAAAATAAAGAAATATGTAGAAT
* *
62489956 AAAAATAGAATAATTATGTAGAA
1 AAAAATA-AAGAAATATGTAGAA
62489979 AATCACCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.22
Consensus pattern (23 bp):
AAAAATAAAGAAATATGTAGAAT
Found at i:62509418 original size:16 final size:17
Alignment explanation
Indices: 62509397--62509431 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
62509387 AAGTGTTATT
62509397 ATTGAATTGAATGA-AA
1 ATTGAATTGAATGATAA
62509413 ATTGAATTGAATGATAA
1 ATTGAATTGAATGATAA
62509430 AT
1 AT
62509432 ATGTATTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
ATTGAATTGAATGATAA
Found at i:62509491 original size:11 final size:11
Alignment explanation
Indices: 62509475--62509523 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
62509465 AGTGGAAAAG
62509475 TGAATTTGAAT
1 TGAATTTGAAT
62509486 TGAATTGTG-AT
1 TGAATT-TGAAT
* *
62509497 TGAATTTAAAG
1 TGAATTTGAAT
62509508 TGAATTTGAAAT
1 TGAATTTG-AAT
62509520 TGAA
1 TGAA
62509524 AAGTGAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 1 0.03
11 22 0.71
12 8 0.26
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (11 bp):
TGAATTTGAAT
Found at i:62512977 original size:19 final size:19
Alignment explanation
Indices: 62512953--62513010 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
62512943 CAAAGTATAA
62512953 ATTTTTACCCATGATAGAT
1 ATTTTTACCCATGATAGAT
**
62512972 ATTTTT--GTAT-ATA-A-
1 ATTTTTACCCATGATAGAT
62512986 ATTTTTACCCATGATAGAT
1 ATTTTTACCCATGATAGAT
62513005 ATTTTT
1 ATTTTT
62513011 GTCTTTTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
14 6 0.20
15 1 0.03
16 5 0.17
17 5 0.17
18 1 0.03
19 12 0.40
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTTTTACCCATGATAGAT
Found at i:62512987 original size:33 final size:33
Alignment explanation
Indices: 62512948--62513012 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
62512938 ATAATCAAAG
62512948 TATAAATTTTTACCCATGATAGATATTTTTGTA
1 TATAAATTTTTACCCATGATAGATATTTTTGTA
62512981 TATAAATTTTTACCCATGATAGATATTTTTGT
1 TATAAATTTTTACCCATGATAGATATTTTTGT
62513013 CTTTTGATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.49
Consensus pattern (33 bp):
TATAAATTTTTACCCATGATAGATATTTTTGTA
Found at i:62515888 original size:47 final size:47
Alignment explanation
Indices: 62515818--62516036 Score: 213
Period size: 47 Copynumber: 4.7 Consensus size: 47
62515808 TTTGTGTGCT
62515818 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * * * * *
62515864 AATGTAAGACCGTGTCTAGTACATGGCATCGG---CATTGAAACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCC
* * *
62515912 AGTGTAAGACATGTTTGGGACAT-GCGTCGGCCACATTATGAGAGAC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
*
62515958 AGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGAAATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACATT---ATGAGAGCC
62516006 AGTGTAAGACATGTCTGGGACAT-GCATCGGC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGC
62516037 TATGAGATGT
Statistics
Matches: 139, Mismatches: 19, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
45 9 0.06
46 34 0.24
47 50 0.36
48 42 0.30
49 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:62515982 original size:94 final size:94
Alignment explanation
Indices: 62515815--62516130 Score: 372
Period size: 94 Copynumber: 3.3 Consensus size: 94
62515805 TTATTTGTGT
* * *
62515815 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAATGTAAGACCGTGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGACAGTGTAAGACCATGTC
* * *
62515880 TAGTACATGGCATCGGCATTGAAACGAGA
66 TGGGACATGGCATCGACATTGAAACGAGA
* *
62515909 GCTAGTGTAAGACATGTTTGGGACATGCGTCGGCCACATTATGAGAGACAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGACAGTGTAAGACCATGTC
*
62515974 TGGGACATGGCATCGACATTGAAATGAGA
66 TGGGACATGGCATCGACATTGAAACGAGA
* * * *
62516003 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-TATGA-GATGTGTA-AGTGTAAAACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-GAG-ACAGTGTAAGACCATG
* * *
62516064 TCTGGGACATGGCATCAACA-CGAATATGAGAGA
64 TCTGGGACATGGCATCGACATTGAA-A--CGAGA
* *
62516097 GCTAATGTAAGACCATGTCAGGGACATGGCATCG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
62516131 ACATTATACC
Statistics
Matches: 195, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
91 5 0.03
92 38 0.19
93 2 0.01
94 131 0.67
95 13 0.07
96 6 0.03
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGACAGTGTAAGACCATGTC
TGGGACATGGCATCGACATTGAAACGAGA
Found at i:62516012 original size:142 final size:139
Alignment explanation
Indices: 62515815--62516137 Score: 324
Period size: 142 Copynumber: 2.3 Consensus size: 139
62515805 TTATTTGTGT
*
62515815 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCCAATGTAAGACCGTG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTATGAGAGCCAATGTAAGA-CATG
* * * *
62515878 TCTAGTACATGGCATCGGC-ATTGAAACGA-GAGCT-AGTGTAAGA-CATGTTTGGGACAT-GCG
62 TCTAGGACAT-GCATCGGCTA-TG--A-GATGAG-TAAGTGTAAAACCATGTCTGGGACATGGCA
** *
62515938 TCGGCCAC-ATTATGAGAGA
121 TC-AACACGAATATGAGAGA
* *
62515957 -C-AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAAATGAGAGCTAGTGTAAGACATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATT---ATGAGAGCCAATGTAAGACATGT
* *
62516020 CTGGGACATGCATCGGCTATGAGATGTGTAAGTGTAAAACCATGTCTGGGACATGGCATCAACAC
63 CTAGGACATGCATCGGCTATGAGATGAGTAAGTGTAAAACCATGTCTGGGACATGGCATCAACAC
62516085 GAATATGAGAGA
128 GAATATGAGAGA
* *
62516097 GCTAATGTAAGACCATGTCAGGGACATGGCATCGACATTAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAT
62516138 ACCCTATGTT
Statistics
Matches: 154, Mismatches: 14, Indels: 29
0.78 0.07 0.15
Matches are distributed among these distances:
137 3 0.02
138 11 0.07
139 23 0.15
140 33 0.21
141 29 0.19
142 55 0.36
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (139 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTATGAGAGCCAATGTAAGACATGTCTA
GGACATGCATCGGCTATGAGATGAGTAAGTGTAAAACCATGTCTGGGACATGGCATCAACACGAA
TATGAGAGA
Found at i:62516121 original size:50 final size:49
Alignment explanation
Indices: 62515905--62516129 Score: 165
Period size: 47 Copynumber: 4.8 Consensus size: 49
62515895 GCATTGAAAC
* * * * *
62515905 GAGAGCTAGTGTAAGA-CATGTTTGGGACAT-GCGTCGGCCAC-ATTATGA
1 GAGAGCTAATGTAAGACCATGTCTGGGACATGGCATC--ACACGAATATGA
* *
62515953 GAGA-C-AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAA-AT--
1 GAGAGCTAATGTAAGACCATGTCTGGGACATGGCATC-ACA-CGAATATGA
* **
62515999 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCAT----CGGCTATGA
1 GAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCACACGAATATGA
* *
62516042 GATGTG-TAAGTGTAAAACCATGTCTGGGACATGGCATCAACACGAATATGA
1 GA-GAGCTAA-TGTAAGACCATGTCTGGGACATGGCATC-ACACGAATATGA
*
62516093 GAGAGCTAATGTAAGACCATGTCAGGGACATGGCATC
1 GAGAGCTAATGTAAGACCATGTCTGGGACATGGCATC
62516130 GACATTATAC
Statistics
Matches: 142, Mismatches: 16, Indels: 36
0.73 0.08 0.19
Matches are distributed among these distances:
40 1 0.01
41 2 0.01
43 4 0.03
44 8 0.06
45 14 0.10
46 21 0.15
47 32 0.23
48 19 0.13
49 1 0.01
50 28 0.20
51 12 0.08
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (49 bp):
GAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCACACGAATATGA
Found at i:62519197 original size:62 final size:62
Alignment explanation
Indices: 62519131--62519258 Score: 247
Period size: 62 Copynumber: 2.1 Consensus size: 62
62519121 TAGAGGTTTT
62519131 CATATCAAGAGGTTCGGCTTGTAAATGAATTTTTAAGGGCATAAATCTTGAATAATGTTATG
1 CATATCAAGAGGTTCGGCTTGTAAATGAATTTTTAAGGGCATAAATCTTGAATAATGTTATG
*
62519193 CATATCAAGAGGTTCGGCTTGTAAATGAATTTTTAAGGGCATAAATCTTGAATAATGTTCTG
1 CATATCAAGAGGTTCGGCTTGTAAATGAATTTTTAAGGGCATAAATCTTGAATAATGTTATG
62519255 CATA
1 CATA
62519259 AGTTTCGGCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (62 bp):
CATATCAAGAGGTTCGGCTTGTAAATGAATTTTTAAGGGCATAAATCTTGAATAATGTTATG
Found at i:62520715 original size:39 final size:39
Alignment explanation
Indices: 62520661--62520786 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
62520651 GATATTGATG
*
62520661 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
62520700 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
62520739 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
62520778 TATGTCCGG
1 TATATCCGG
62520787 GCTAAAGTCT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:62520801 original size:39 final size:39
Alignment explanation
Indices: 62520661--62520824 Score: 188
Period size: 39 Copynumber: 4.2 Consensus size: 39
62520651 GATATTGATG
* * *
62520661 TATATCCGGACTTAGGGTCTGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * *
62520700 TATATCCGGACTTAGGGTCCGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
62520739 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
62520778 TATGTCCGGGC-TAAAGTCTCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGTC-CGCAGGCTACGTGCTGGAAT
62520817 TATA-CCGG
1 TATATCCGG
62520825 GTTTAAATTC
Statistics
Matches: 110, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 10 0.09
39 100 0.91
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:62529178 original size:46 final size:46
Alignment explanation
Indices: 62529125--62529297 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
62529115 TGGTTGAGCA
*
62529125 TCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * * * *
62529171 TCTGAACTCGTTGAGTTGATTCCGAGTTC-GTGA--AATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
62529216 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * * * *
62529264 CCCGAGCTCGTTAAGTTGATTCCTAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62529298 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 54 0.55
47 26 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:62529281 original size:93 final size:93
Alignment explanation
Indices: 62529122--62529292 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
62529112 GGATGGTTGA
* * * *
62529122 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGTGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGTGAACGCCCGAACTCGTTAAGT
62529187 TGATTCCGAGTTCGTGAAATGTAACTAG
66 TGATTCCGAGTTCGTGAAATGTAACTAG
** *
62529215 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTAAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGTGAACGCCCGAACTCGTTAAGT
*
62529280 TGATTCCTAGTTC
66 TGATTCCGAGTTC
62529293 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGTGAACGCCCGAACTCGTTAAGT
TGATTCCGAGTTCGTGAAATGTAACTAG
Found at i:62534700 original size:46 final size:46
Alignment explanation
Indices: 62534650--62534822 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
62534640 TGGTTGAGCA
*
62534650 TCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
62534696 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62534741 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
62534789 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62534823 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62534806 original size:93 final size:93
Alignment explanation
Indices: 62534647--62534817 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
62534637 GGATGGTTGA
*
62534647 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
62534712 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
62534740 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
62534805 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
62534818 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:62546411 original size:38 final size:38
Alignment explanation
Indices: 62546369--62546507 Score: 174
Period size: 38 Copynumber: 3.7 Consensus size: 38
62546359 TTAAAGACTT
*
62546369 GCAGGCTAT-GTGCTGGAATTATATTCGGGTTAAATCCC
1 GCAGGCT-TCGTGCTGGAATTATATCCGGGTTAAATCCC
*
62546407 GCAGGCTTCATGCTGGTAA-TATATCCGGGTTAAATCCC
1 GCAGGCTTCGTGCTGG-AATTATATCCGGGTTAAATCCC
* *
62546445 GTAGGCTTCGTGCTGGAATTATGTCCGGGTTAAATCCC
1 GCAGGCTTCGTGCTGGAATTATATCCGGGTTAAATCCC
* * * *
62546483 GCAGGCCTAGTGCTAGTATTATATC
1 GCAGGCTTCGTGCTGGAATTATATC
62546508 TGAGCTTAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
37 3 0.03
38 82 0.94
39 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
GCAGGCTTCGTGCTGGAATTATATCCGGGTTAAATCCC
Found at i:62546506 original size:76 final size:78
Alignment explanation
Indices: 62546378--62546536 Score: 207
Period size: 76 Copynumber: 2.1 Consensus size: 78
62546368 TGCAGGCTAT
* * * *
62546378 GTGCTGGAATTATATTCGGGTTAAATCCCGCAGGCTTCATGCTGGTAATATATCCG-GGTTAAA-
1 GTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTCATGCTAGTAATATATCCGAGCTTAAAG
*
62546441 TCCCGTAGGCTTC
66 TCCCGTAGGCTTA
* * *
62546454 GTGCTGGAATTATGTCCGGGTTAAATCCCGCAGGCCT-AGTGCTAGTATTATATCTGAGCTTAAA
1 GTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTCA-TGCTAGTAATATATCCGAGCTTAAA
*
62546518 GTCCCGTGGGCTTA
65 GTCCCGTAGGCTTA
62546532 GTGCT
1 GTGCT
62546537 AGTGACTGGA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
75 1 0.01
76 48 0.68
77 6 0.08
78 16 0.23
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (78 bp):
GTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTCATGCTAGTAATATATCCGAGCTTAAAG
TCCCGTAGGCTTA
Found at i:62553882 original size:38 final size:38
Alignment explanation
Indices: 62553839--62553978 Score: 178
Period size: 38 Copynumber: 3.7 Consensus size: 38
62553829 CTTAAAGACT
62553839 CGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCC
1 CGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCC
* *
62553877 CGCAGGTTTTATGCTGGTAA-TATATCCGGGTTAAATCC
1 CGCAGGCTATATGCTGG-AATTATATCCGGGTTAAATCC
* *
62553915 CGCAGGCT-TCGTGCTGGAATTATGTCCGGGTTAAATCC
1 CGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCC
* *
62553953 CGCAGGCCTA-GTGCTGGTATTATATC
1 CGCAGG-CTATATGCTGGAATTATATC
62553979 TGAGCTTAAA
Statistics
Matches: 90, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
37 3 0.03
38 83 0.92
39 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (38 bp):
CGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCC
Found at i:62553933 original size:76 final size:78
Alignment explanation
Indices: 62553841--62554007 Score: 216
Period size: 76 Copynumber: 2.2 Consensus size: 78
62553831 TAAAGACTCG
**
62553841 CAGGCTATA-TGCTGGAATTATATCCGGGTTAAATCCCGCAGGTTTTA-TGCTGGTAATATATCC
1 CAGGCT-TAGTGCTGGAATTATATCCGGGTTAAATCCCGCAGG-CCTAGTGCTGGTAATATATCC
* *
62553904 G-GGTTAAA-TCCCG
64 GAGCTTAAAGTCCCA
* * * *
62553917 CAGGCTTCGTGCTGGAATTATGTCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATATCTGA
1 CAGGCTTAGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATATATCCGA
62553982 GCTTAAAGTCCCA
66 GCTTAAAGTCCCA
62553995 CAGGCTTAGTGCT
1 CAGGCTTAGTGCT
62554008 AATGACTGGA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
75 3 0.04
76 53 0.68
77 6 0.08
78 16 0.21
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (78 bp):
CAGGCTTAGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAATATATCCGA
GCTTAAAGTCCCA
Found at i:62560550 original size:37 final size:36
Alignment explanation
Indices: 62560496--62560572 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 36
62560486 ATTCCTCGCT
**
62560496 TCCTTTGACTCTGACACTCCTCCCCTTCATCTAGCG
1 TCCTTTGACTCCAACACTCCTCCCCTTCATCTAGCG
*
62560532 TCCTTTCGACTCCAACACTCCTCCCTTTCATCTAGCG
1 TCCTTT-GACTCCAACACTCCTCCCCTTCATCTAGCG
62560569 TCCT
1 TCCT
62560573 CTAGGTAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 6 0.16
37 31 0.84
ACGTcount: A:0.14, C:0.43, G:0.09, T:0.34
Consensus pattern (36 bp):
TCCTTTGACTCCAACACTCCTCCCCTTCATCTAGCG
Found at i:62569107 original size:28 final size:28
Alignment explanation
Indices: 62569066--62569161 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 28
62569056 GAAACACACT
* * *
62569066 TCGCATACACAGTGCCCACTGACTGATT
1 TCGCACACATAGTGCCCACTGACTGATC
* * * *
62569094 TCGCACACATAGTGCTCGATTGA-AGAAC
1 TCGCACACATAGTGC-CCACTGACTGATC
62569122 TCGCACACATAGTGCCTCAACT-ACTGATC
1 TCGCACACATAGTGCC-C-ACTGACTGATC
*
62569151 TGGCACACATA
1 TCGCACACATA
62569162 TTGCTCGGTT
Statistics
Matches: 52, Mismatches: 12, Indels: 7
0.73 0.17 0.10
Matches are distributed among these distances:
27 1 0.02
28 31 0.60
29 20 0.38
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
TCGCACACATAGTGCCCACTGACTGATC
Found at i:62569157 original size:57 final size:58
Alignment explanation
Indices: 62569066--62569197 Score: 171
Period size: 57 Copynumber: 2.3 Consensus size: 58
62569056 GAAACACACT
* *
62569066 TCGCATACACAGTGCC-C-ACTGACTGATTTCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACACAGTGCCTCAACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
* * * * *
62569122 TCGCACACATAGTGCCTCAACT-ACTGATCTGGCACACATATTGCTCGGTTGAAGAGC
1 TCGCACACACAGTGCCTCAACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
*
62569179 TTGCACACACAGTGCCTCA
1 TCGCACACACAGTGCCTCA
62569198 TAATTCCAGC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
56 14 0.22
57 48 0.74
58 3 0.05
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (58 bp):
TCGCACACACAGTGCCTCAACTGACTGATCTCGCACACATAGTGCTCGATTGAAGAAC
Found at i:62569277 original size:40 final size:40
Alignment explanation
Indices: 62569225--62569438 Score: 383
Period size: 40 Copynumber: 5.3 Consensus size: 40
62569215 CCTTCGAGGT
*
62569225 TTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
62569265 TTAGCCCAGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
62569305 TTAGCCCAGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
62569345 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
*
62569385 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
62569425 TTAGCCCGGATATA
1 TTAGCCCGGATATA
62569439 AATAACTCTC
Statistics
Matches: 168, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 168 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAAC
Found at i:62577024 original size:26 final size:26
Alignment explanation
Indices: 62576929--62577024 Score: 90
Period size: 26 Copynumber: 3.7 Consensus size: 26
62576919 ATTAAATTAT
*
62576929 ATATT-ATTTTATTAAATTATATTTA
1 ATATTAATTTTATTAAAATATATTTA
* * * *
62576954 ATAATAATTATGTTAAAATATGATTAA
1 ATATTAATTTTATTAAAATAT-ATTTA
*
62576981 ATTATTTATTTT-TT-AAATATATTTA
1 A-TATTAATTTTATTAAAATATATTTA
*
62577006 ATATTAATTTTACTAAAAT
1 ATATTAATTTTATTAAAAT
62577025 TTAATAACAA
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
24 9 0.16
25 10 0.18
26 22 0.40
27 7 0.13
28 7 0.13
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATTAATTTTATTAAAATATATTTA
Found at i:62577214 original size:16 final size:16
Alignment explanation
Indices: 62577193--62577247 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
62577183 GGAATTAATG
62577193 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCT
* *
62577209 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCT
*
62577225 ATTACAGCCCTATT-T
1 ATTACAGCTCTATTCT
62577240 CATTACAG
1 -ATTACAG
62577248 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCT
Found at i:62580811 original size:23 final size:23
Alignment explanation
Indices: 62580785--62580831 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
62580775 AATTAGTTTT
*
62580785 ATAAG-TGATAAAGTGACGTCATG
1 ATAAGTTGATAAA-CGACGTCATG
62580808 ATAAGTTGATAAACGACGTCATG
1 ATAAGTTGATAAACGACGTCATG
62580831 A
1 A
62580832 CGTGACAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (23 bp):
ATAAGTTGATAAACGACGTCATG
Found at i:62581907 original size:21 final size:21
Alignment explanation
Indices: 62581865--62581907 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
62581855 TCTTTTTTAA
**
62581865 TTTTAATTTTTAATTCCTATT
1 TTTTAATTTTTAATTCAAATT
62581886 TTTTAAATTTTTAA-TCAAATT
1 TTTT-AATTTTTAATTCAAATT
62581907 T
1 T
62581908 CAGAATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTAATTTTTAATTCAAATT
Found at i:62584305 original size:228 final size:228
Alignment explanation
Indices: 62583074--62584194 Score: 1749
Period size: 228 Copynumber: 4.9 Consensus size: 228
62583064 CTCTCAAACG
* * * *
62583074 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
1 ATGCAGATCTTCGTCAAAA-CCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
62583138 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
65 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
* * *
62583203 ATCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATTCAGAAGGAATC
130 ATCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
62583268 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
195 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
62583302 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* *
62583367 CATCGATAATGTGAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
*
62583432 TCTTCGCCGGAAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
*
62583497 ACCCTCCACCTTGTCCTACGTCTTCGTGGGGGT
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
*
62583530 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
62583595 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
*
62583660 TCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
62583725 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
*
62583758 ATGCAGATCTTCGTCAAAACCTTAACCGGTAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* * *
62583823 CATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* *
62583888 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTATAATATCCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
* * *
62583953 ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGC
196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
* * * * * * * * *
62583986 ATGCAGATCTTCGTGAAAACCTTGACTGGCAAGACCATCACCTTAGAGGTGGAGAGTTCGGACAC
1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* * * * * * * * *
62584051 CATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAACAACGTTTGA
66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* * * * * * ** * * * *
62584116 TCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCG
131 TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
*
62584181 ACCCTTCACCTTGT
196 ACCCTCCACCTTGT
62584195 TTTGAGGCTT
Statistics
Matches: 830, Mismatches: 62, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
227 4 0.00
228 826 1.00
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.20
Consensus pattern (228 bp):
ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
Found at i:62584313 original size:228 final size:228
Alignment explanation
Indices: 62583074--62584425 Score: 961
Period size: 228 Copynumber: 5.9 Consensus size: 228
62583064 CTCTCAAACG
* * * * * ** * * * *
62583074 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
1 ATGCAGATCTTCGTGAAAA-CATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACA
* * * * * *
62583138 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
65 CAATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTC
* * * * ** * * * *
62583203 ATCTTCGCCGGCAAA-CAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATTCAGAAGGAAT
130 ATCTTTGCAGG-AAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAAT
* * * * * * *
62583267 CCACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
194 CCACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGC
* * * * * * ** * * * * * *
62583302 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTGAAAACATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACAC
* * * * * * * *
62583367 CATCGATAATGTGAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 AATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* * * * * ** * * *
62583432 TCTTCGCCGGAAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
131 TCTTTGCAGGAAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCC
* * * * * *
62583497 ACCCTCCACCTTGTCCT-ACGTCTTCGTGGGGGT
196 ACCCTTCACCTTGTTCTCA-GGCTTCGCGGAGGC
* * * * * * ** * * * * * *
62583530 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
1 ATGCAGATCTTCGTGAAAACATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACAC
* * * * * *
62583595 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 AATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* * * * * ** * * *
62583660 TCTTCGCCGGCAAA-CAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
131 TCTTTGCAGG-AAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATC
* * * * * * *
62583724 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
195 CACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGC
* * * * * * * ** * * * * * *
62583758 ATGCAGATCTTCGTCAAAACCTTAACCGGTAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
1 ATGCAGATCTTCGTGAAAACATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACAC
* * * * * * *
62583823 CATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 AATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* * * * ** * * *
62583888 TCTTCGCCGGCAAA-CAGCTCGAAGATGGCCGTACCTTGGCCGATTATAATATCCAGAAGGAATC
131 TCTTTGCAGG-AAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATC
* * * * * *
62583952 CACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGC
195 CACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGC
* * * * *
62583986 ATGCAGATCTTCGTGAAAACCTTGACTGGCAAGACCATCACCTTAGAGGTGGAGAGTTCGGACAC
1 ATGCAGATCTTCGTGAAAACATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACAC
* * * * *
62584051 CATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAACAACGTTTGA
66 AATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* *
62584116 TCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCG
131 TCTTTGCAGGAAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCC
* * *
62584181 ACCCTTCACCTTGTTTTGAGGCTTCGTGGAGGC
196 ACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGC
* * * * * *
62584214 ATGCAGATTTTCGTTAAGACATTGACTGGGAAAACAATCACATTGGAGGTGGAAAGTTCGGATAC
1 ATGCAGATCTTCGTGAAAACATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACAC
* * * * * * * * *
62584279 AATTGATAATGTGAAGGCGAAGATTCAGGACAAGGAAGGTATCCCTCCAGATCAGCAAAGGCTCA
66 AATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
* * * * * * *
62584344 TCTTTGCTGGAAAGCA-ATTGGAGGATGGGAGGACTTTAGCTGATTATAACATTCAGAAAGAGTC
131 TCTTTGCAGGAAAGCAGCTT-GAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATC
62584408 CACCCTTCACCTTGTTCT
195 CACCCTTCACCTTGTTCT
62584426 TCGTCTCCGT
Statistics
Matches: 1017, Mismatches: 100, Indels: 14
0.90 0.09 0.01
Matches are distributed among these distances:
227 11 0.01
228 1003 0.99
229 3 0.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (228 bp):
ATGCAGATCTTCGTGAAAACATTGACTGGCAAAACAATCACATTAGAGGTGGAAAGTTCGGACAC
AATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAACGTCTCA
TCTTTGCAGGAAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCC
ACCCTTCACCTTGTTCTCAGGCTTCGCGGAGGC
Found at i:62584412 original size:684 final size:684
Alignment explanation
Indices: 62583074--62584437 Score: 1726
Period size: 684 Copynumber: 2.0 Consensus size: 684
62583064 CTCTCAAACG
* * * *
62583074 ATGCAGATCTTCGTCAAAACCCTTACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACAC
1 ATGCAGATCTTCGTCAAAACCCTTACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
* *
62583139 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
66 CATCGACAATGTAAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
* *
62583204 TCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATTCAGAAGGAATCC
131 TCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
* * *
62583269 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGTATGCAGATCTTCGTCAAAACCTTAACCGGCAA
196 ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGCATGCAGATCTTCGTCAAAACCTTAACCGGCAA
* * * * *
62583334 GACCATCACCCTCGAAGTCGAGAGCTCCGACACCATCGATAATGTGAAGTCTAAAATCCAAGACA
261 GACCATCACCCTAGAAGTCGAGAGCTCCGACACCATCGACAATGTAAAGGCGAAAATCCAAGACA
* * * * *
62583399 AGGAAGGCATCCCACCAGACCAGCAGCGTCTCATCTTCGCCGGAAAACAGCTCGAAGATGGCCGT
326 AGGAAGGCATCCCACCAGACCAACAACGTCTCATCTTCGCAGGAAAACAGCTCGAAGATGGCAGG
* *
62583464 ACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCCTACGTCTTCGTGGGGG
391 ACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCCTACGGCTTCGTGGAGG
* * * * * * *
62583529 TATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACA
456 CATGCAGATCTTCGTCAAAACATTAACCGGCAAAACAATCACACTCGAAGTCGAAAGCTCGGACA
* * * ** *
62583594 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
521 CAATCGATAATGTAAAGGCGAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAGGCTC
* * * * *
62583659 ATCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
586 ATCTTCGCCGGCAAACAACTCGAAGACGGCAGGACCTTAGCCGATTACAACATCCAGAAAGAATC
*
62583724 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
651 CACCCTCCACCTTGTCCTCCGTCTCCGTGGGGGT
*
62583758 ATGCAGATCTTCGTCAAAA-CCTTAACCGGTAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
1 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACA
*
62583822 CCATCGACAATGTCAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
65 CCATCGACAATGTAAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
* * *
62583887 ATCTTCGCCGGCAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTATAATATCCAGAAGGAATC
130 ATCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC
* * *
62583952 CACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGCATGCAGATCTTCGTGAAAACCTTGACTGGCA
195 CACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGCATGCAGATCTTCGTCAAAACCTTAACCGGCA
* * * * * * *
62584017 AGACCATCACCTTAGAGGTGGAGAGTTCGGACACCATCGACAATGTAAAGGCGAAGATTCAAGAC
260 AGACCATCACCCTAGAAGTCGAGAGCTCCGACACCATCGACAATGTAAAGGCGAAAATCCAAGAC
* * * * * * * * *
62584082 AAGGAAGGGATCCCACCAGACCAACAACGTTTGATCTTTGCAGGGAAGCAGCTTGAGGATGGGAG
325 AAGGAAGGCATCCCACCAGACCAACAACGTCTCATCTTCGCAGGAAAACAGCTCGAAGATGGCAG
* * * * **
62584147 GACCTTGGCTGATTATAACATCCAGAAGGAATCGACCCTTCACCTTGTTTTGA-GGCTTCGTGGA
390 GACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCCT-ACGGCTTCGTGGA
* * * * * * * * * * *
62584211 GGCATGCAGATTTTCGTTAAGACATTGACTGGGAAAACAATCACATTGGAGGTGGAAAGTTCGGA
454 GGCATGCAGATCTTCGTCAAAACATTAACCGGCAAAACAATCACACTCGAAGTCGAAAGCTCGGA
* * * * * * * *
62584276 TACAATTGATAATGTGAAGGCGAAGATTCAGGACAAGGAAGGTATCCCTCCAGATCAGCAAAGGC
519 CACAATCGATAATGTAAAGGCGAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAGGC
* * * * * * * * * * *
62584341 TCATCTTTGCTGG-AAAGCAATTGGAGGATGGGAGGACTTTAGCTGATTATAACATTCAGAAAGA
584 TCATCTTCGCCGGCAAA-CAACTCGAAGACGGCAGGACCTTAGCCGATTACAACATCCAGAAAGA
* * * *
62584405 GTCCACCCTTCACCTTGTTCTTCGTCTCCGTGG
648 ATCCACCCTCCACCTTGTCCTCCGTCTCCGTGG
62584438 TGGGCAGTGA
Statistics
Matches: 571, Mismatches: 106, Indels: 6
0.84 0.16 0.01
Matches are distributed among these distances:
683 7 0.01
684 563 0.99
685 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (684 bp):
ATGCAGATCTTCGTCAAAACCCTTACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
CATCGACAATGTAAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGCATGCAGATCTTCGTCAAAACCTTAACCGGCAA
GACCATCACCCTAGAAGTCGAGAGCTCCGACACCATCGACAATGTAAAGGCGAAAATCCAAGACA
AGGAAGGCATCCCACCAGACCAACAACGTCTCATCTTCGCAGGAAAACAGCTCGAAGATGGCAGG
ACCTTGGCCGATTACAACATCCAGAAGGAATCCACCCTCCACCTTGTCCTACGGCTTCGTGGAGG
CATGCAGATCTTCGTCAAAACATTAACCGGCAAAACAATCACACTCGAAGTCGAAAGCTCGGACA
CAATCGATAATGTAAAGGCGAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAAAGGCTC
ATCTTCGCCGGCAAACAACTCGAAGACGGCAGGACCTTAGCCGATTACAACATCCAGAAAGAATC
CACCCTCCACCTTGTCCTCCGTCTCCGTGGGGGT
Found at i:62585902 original size:31 final size:29
Alignment explanation
Indices: 62585864--62585936 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
62585854 ATTATTAATA
*
62585864 ATTTATAAGAATTGA-ACCAAATCAAAATTT
1 ATTTATAA-AATT-ATACAAAATCAAAATTT
*
62585894 CATTTATAAAATTATACAAAATTAAAATTT
1 -ATTTATAAAATTATACAAAATCAAAATTT
*
62585924 ATGTATAAAATTA
1 ATTTATAAAATTA
62585937 CATATTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 13 0.34
30 17 0.45
31 8 0.21
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (29 bp):
ATTTATAAAATTATACAAAATCAAAATTT
Found at i:62588034 original size:42 final size:42
Alignment explanation
Indices: 62587969--62588124 Score: 181
Period size: 42 Copynumber: 3.7 Consensus size: 42
62587959 TATGTGAAAA
* *
62587969 AAACACCGCTAAAGGTCATGACCTTTAGCGCCGCTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTCCCAC
* * *
62588011 AAACGTCGCTAAAGGTCATGACCTTTCGCAACGCTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTCCCAC
* * * *
62588053 AAACACCGCTAAAGGTCATGACCTTTTGCGGCGCTTTTACCTA-
1 AAACGCCGCTAAAGGTCATGACCTTTAGCGACGC-TTT-CCCAC
* *
62588096 AAACGCCACTAAAAGT-ATGACCTTTAGCG
1 AAACGCCGCTAAAGGTCATGACCTTTAGCG
62588125 GCACTTTTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
42 78 0.80
43 16 0.16
44 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTTCCCAC
Found at i:62588126 original size:42 final size:42
Alignment explanation
Indices: 62588061--62588163 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
62588051 ACAAACACCG
* * * *
62588061 CTAAAGGTCATGACCTTTTGCGGCGCTTTTACCTAAAACGCCA
1 CTAAAAGT-ATGACCTTTAGCGGCACTTTTACCAAAAACGCCA
* *
62588104 CTAAAAGTATGACCTTTAGCGGCACTTTTATCAAAAACGCCG
1 CTAAAAGTATGACCTTTAGCGGCACTTTTACCAAAAACGCCA
* **
62588146 TTAAAAAAATGACCTTTA
1 CTAAAAGTATGACCTTTA
62588164 AAAAAATTAT
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 44 0.86
43 7 0.14
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (42 bp):
CTAAAAGTATGACCTTTAGCGGCACTTTTACCAAAAACGCCA
Found at i:62593990 original size:21 final size:21
Alignment explanation
Indices: 62593966--62594008 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
62593956 ACCCTAAAAA
62593966 CCTAACACTT-AACCCCTAACC
1 CCTAACACTTAAACCCC-AACC
* *
62593987 CCTACCCCTTAAACCCCAACC
1 CCTAACACTTAAACCCCAACC
62594008 C
1 C
62594009 TTAAACCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.30, C:0.53, G:0.00, T:0.16
Consensus pattern (21 bp):
CCTAACACTTAAACCCCAACC
Found at i:62594069 original size:22 final size:22
Alignment explanation
Indices: 62594017--62594114 Score: 73
Period size: 22 Copynumber: 4.5 Consensus size: 22
62594007 CCTTAAACCG
*
62594017 TAATCCATAATCCTTAAACATA
1 TAATCCATAAACCTTAAACATA
62594039 TAATCCATAAACCTTAAA-ATA
1 TAATCCATAAACCTTAAACATA
* * *
62594060 GTAA-CTCATACACTTTAAACCCTA
1 -TAATC-CATAAACCTTAAA-CATA
*
62594084 -AA-CCATATACCTTAAACCATA
1 TAATCCATAAACCTTAAA-CATA
62594105 -AA-CCATAAAC
1 TAATCCATAAAC
62594115 TATAATGATA
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
21 28 0.44
22 34 0.53
24 2 0.03
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.27
Consensus pattern (22 bp):
TAATCCATAAACCTTAAACATA
Found at i:62594087 original size:7 final size:7
Alignment explanation
Indices: 62594075--62594119 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
62594065 TCATACACTT
*
62594075 TAAACCC
1 TAAACCA
62594082 TAAACCA
1 TAAACCA
* *
62594089 TATACCT
1 TAAACCA
62594096 TAAACCA
1 TAAACCA
62594103 TAAACCA
1 TAAACCA
*
62594110 TAAACTA
1 TAAACCA
62594117 TAA
1 TAA
62594120 TGATAATTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:62594225 original size:7 final size:7
Alignment explanation
Indices: 62594213--62594276 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
62594203 ACTAATTAAT
62594213 CTAAACC
1 CTAAACC
62594220 CTAAACTC
1 CTAAAC-C
*
62594228 CTAATCC
1 CTAAACC
*
62594235 TTAAACC
1 CTAAACC
62594242 CTAAACC
1 CTAAACC
* * *
62594249 ATGAATC
1 CTAAACC
*
62594256 CTAAAAC
1 CTAAACC
*
62594263 ATAAACC
1 CTAAACC
62594270 CTAAACC
1 CTAAACC
62594277 ATGAATCACT
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.44, C:0.34, G:0.02, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:62594255 original size:22 final size:22
Alignment explanation
Indices: 62594214--62594262 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
62594204 CTAATTAATC
*
62594214 TAAACCCTAAACTCCTAATCCT
1 TAAACCCTAAACTCATAATCCT
62594236 TAAACCCTAAAC-CATGAATCCT
1 TAAACCCTAAACTCAT-AATCCT
*
62594258 AAAAC
1 TAAAC
62594263 ATAAACCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.22
Consensus pattern (22 bp):
TAAACCCTAAACTCATAATCCT
Found at i:62594258 original size:14 final size:14
Alignment explanation
Indices: 62594241--62594288 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
62594231 ATCCTTAAAC
62594241 CCTAAACCATGAAT
1 CCTAAACCATGAAT
* * *
62594255 CCTAAAACATAAAC
1 CCTAAACCATGAAT
62594269 CCTAAACCATGAAT
1 CCTAAACCATGAAT
62594283 CACTAA
1 C-CTAA
62594289 CCCTTAACCC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 23 0.85
15 4 0.15
ACGTcount: A:0.48, C:0.29, G:0.04, T:0.19
Consensus pattern (14 bp):
CCTAAACCATGAAT
Found at i:62594297 original size:28 final size:27
Alignment explanation
Indices: 62594226--62594304 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 27
62594216 AACCCTAAAC
*
62594226 TCCTAATCCTTAAACCCTAAACCATGAA
1 TCCTAAACCTT-AACCCTAAACCATGAA
* *
62594254 TCCTAAAACATAAACCCTAAACCATGAA
1 TCCT-AAACCTTAACCCTAAACCATGAA
* *
62594282 TCACTAACCCTTAACCCTTAACC
1 TC-CTAAACCTTAACCCTAAACC
62594305 CCTAACACCT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
28 36 0.86
29 6 0.14
ACGTcount: A:0.41, C:0.34, G:0.03, T:0.23
Consensus pattern (27 bp):
TCCTAAACCTTAACCCTAAACCATGAA
Found at i:62600489 original size:63 final size:63
Alignment explanation
Indices: 62600412--62600538 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
62600402 TGCAAATGAT
62600412 TGTTTCCTTTTTGGAAAGGCAACAGAAAATGAAGCTATAATTTTGAAGTAAATCTTGGTTGAA
1 TGTTTCCTTTTTGGAAAGGCAACAGAAAATGAAGCTATAATTTTGAAGTAAATCTTGGTTGAA
*
62600475 TGTTTCCTTTTTGGAAAGGCAACAGAAAATGGAGCTATAATTTTGAAGTAAATCTTGGTTGAA
1 TGTTTCCTTTTTGGAAAGGCAACAGAAAATGAAGCTATAATTTTGAAGTAAATCTTGGTTGAA
62600538 T
1 T
62600539 ATGAGAATGC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.35
Consensus pattern (63 bp):
TGTTTCCTTTTTGGAAAGGCAACAGAAAATGAAGCTATAATTTTGAAGTAAATCTTGGTTGAA
Found at i:62601595 original size:3 final size:3
Alignment explanation
Indices: 62601589--62601635 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
62601579 TGTTGCCATG
* *
62601589 GAA GAA GAA GAA AAA GAA AAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
62601636 GGGCGGCAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:62602152 original size:32 final size:32
Alignment explanation
Indices: 62602115--62602175 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
62602105 TTGTATGTAT
*
62602115 TGTTATTTTAAAAGTCGGTATAAATTTTTTTA
1 TGTTATTTTAAAAGTCGATATAAATTTTTTTA
*
62602147 TGTTATTTTAAAAGTTGATATAAATTTTT
1 TGTTATTTTAAAAGTCGATATAAATTTTT
62602176 AACTCATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.11, T:0.54
Consensus pattern (32 bp):
TGTTATTTTAAAAGTCGATATAAATTTTTTTA
Found at i:62602435 original size:21 final size:21
Alignment explanation
Indices: 62602390--62602437 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
62602380 TTTTTACTTC
*
62602390 AATAAA-CATTAAAAATAAAT
1 AATAAATCAATAAAAATAAAT
*
62602410 TATAAATCAATAAAAATATAA-
1 AATAAATCAATAAAAATA-AAT
62602431 AATAAAT
1 AATAAAT
62602438 ACAAACATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.22
21 16 0.70
22 2 0.09
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (21 bp):
AATAAATCAATAAAAATAAAT
Found at i:62605061 original size:29 final size:29
Alignment explanation
Indices: 62604994--62605084 Score: 83
Period size: 29 Copynumber: 3.0 Consensus size: 29
62604984 ATATCAAAAC
* * * *
62604994 TATACATGAATTTTGATCTAATGTGTAATGT
1 TATACATGAAATTTGAT-T-TTGTTTAATTT
* *
62605025 TGTACATGAACTTTGATTTTGTTTAATTT
1 TATACATGAAATTTGATTTTGTTTAATTT
* *
62605054 TATACATGAAATTTTAATTTGATTTAATTT
1 TATACATGAAATTTGATTTTG-TTTAATTT
62605084 T
1 T
62605085 CGCAAAACAC
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
29 25 0.50
30 10 0.20
31 15 0.30
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (29 bp):
TATACATGAAATTTGATTTTGTTTAATTT
Found at i:62605650 original size:24 final size:23
Alignment explanation
Indices: 62605619--62605676 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
62605609 AAGTTTTTTA
62605619 AATTTTAATTAATTAAAAAATT-AT
1 AATTTTAATT--TTAAAAAATTAAT
*
62605643 AATTTTAATCTTTAAAAATTTAAT
1 AATTTTAAT-TTTAAAAAATTAAT
62605667 AA-TTTAATTT
1 AATTTTAATTT
62605677 AAACATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 2 0.06
23 15 0.48
24 13 0.42
25 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AATTTTAATTTTAAAAAATTAAT
Found at i:62605677 original size:21 final size:21
Alignment explanation
Indices: 62605627--62605689 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 21
62605617 TAAATTTTAA
*
62605627 TTAA-TTAAAAAATTATAATT
1 TTAATTTAAAAATTTATAATT
62605647 TTAATCTTTAAAAATTTAATAA-T
1 TTAA--TTTAAAAATTT-ATAATT
* *
62605670 TTAATTTAAACATTTTTAAT
1 TTAATTTAAAAATTTATAAT
62605690 ATAAAACTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
20 7 0.20
21 10 0.29
23 14 0.40
24 4 0.11
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATTTAAAAATTTATAATT
Found at i:62610871 original size:11 final size:13
Alignment explanation
Indices: 62610834--62610871 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
62610824 GGTCTGCTCG
62610834 TATTAAACTTTTTA
1 TATT-AACTTTTTA
62610848 TATTAACTTTTTA
1 TATTAACTTTTTA
62610861 TA-TAA-TTTTTA
1 TATTAACTTTTTA
62610872 AAAAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 6 0.25
12 3 0.12
13 11 0.46
14 4 0.17
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTAACTTTTTA
Found at i:62612989 original size:44 final size:43
Alignment explanation
Indices: 62612927--62613051 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 43
62612917 GATTTTGATA
62612927 TGTGATTT-CATGTAAGACCATGTTTGGGACGTTGGCATCGATT
1 TGTGATTTACATGTAAGACCATGTTTGGGACGTTGGCATCGA-T
* * * *
62612970 TGTGATTTACGTGTAAGACCCTGTCTGGGATAG-TGGCATCGAT
1 TGTGATTTACATGTAAGACCATGTTTGGGA-CGTTGGCATCGAT
* *
62613013 AGTTGA-TTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 TG-TGATTTACATGTAAGACCATGTTTGGGACGTTGGCAT
62613052 TGTATGAGCT
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.01
43 36 0.53
44 30 0.44
45 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (43 bp):
TGTGATTTACATGTAAGACCATGTTTGGGACGTTGGCATCGAT
Found at i:62613042 original size:43 final size:43
Alignment explanation
Indices: 62612927--62613051 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 43
62612917 GATTTTGATA
* * * *
62612927 TGTGATTTCATGTAAGACCATGTTTGGGACGTTGGCATCGATT
1 TGTGATTACATGTAAGACCACGTTTGGGAAGTTGGCATCGATG
* *
62612970 TGTGATTTACGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATAG
1 TGTGA-TTACATGTAAGACCAC-GTTTGGGA-AGTTGGCATCGAT-G
*
62613015 T-TGATTACATGTAAGACCACGTTTGGGACGTTGGCAT
1 TGTGATTACATGTAAGACCACGTTTGGGAAGTTGGCAT
62613052 TGTATGAGCT
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.01
43 31 0.46
44 33 0.49
45 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCACGTTTGGGAAGTTGGCATCGATG
Found at i:62614349 original size:17 final size:17
Alignment explanation
Indices: 62614327--62614361 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
62614317 ATTCTTTCAA
62614327 TATATTCACAATTTACT
1 TATATTCACAATTTACT
*
62614344 TATATTCACACTTTACT
1 TATATTCACAATTTACT
62614361 T
1 T
62614362 CTTAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.20, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATTCACAATTTACT
Found at i:62615080 original size:15 final size:15
Alignment explanation
Indices: 62615060--62615088 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62615050 TTCGTTCCCA
62615060 CATTCTGTTTCTTTT
1 CATTCTGTTTCTTTT
62615075 CATTCTGTTTCTTT
1 CATTCTGTTTCTTT
62615089 CCTTTATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.66
Consensus pattern (15 bp):
CATTCTGTTTCTTTT
Found at i:62615316 original size:21 final size:22
Alignment explanation
Indices: 62615263--62615319 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
62615253 CAATTTAAAT
*
62615263 AATAATAACAATAACAATAATA
1 AATAATAATAATAACAATAATA
* *
62615285 ATTAA-ATATAA-AACTATAATA
1 AATAATA-ATAATAACAATAATA
62615306 AATAATAATAATAA
1 AATAATAATAATAA
62615320 TTTAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAATAATAATAACAATAATA
Found at i:62618972 original size:17 final size:18
Alignment explanation
Indices: 62618942--62618984 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
62618932 CTTTTCTATT
* *
62618942 AAAAAAATTTAAAAA-CG
1 AAAAAAAATAAAAAATCG
*
62618959 AAAAAAAATAAAAAATTG
1 AAAAAAAATAAAAAATCG
62618977 AAAAAAAA
1 AAAAAAAA
62618985 AAGGAATGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAAAAAATAAAAAATCG
Found at i:62618973 original size:18 final size:18
Alignment explanation
Indices: 62618942--62618984 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
62618932 CTTTTCTATT
**
62618942 AAAAAAATTTAAAAACGA
1 AAAAAAATAAAAAAACGA
**
62618960 AAAAAAATAAAAAATTGA
1 AAAAAAATAAAAAAACGA
62618978 AAAAAAA
1 AAAAAAA
62618985 AAGGAATGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAAAAATAAAAAAACGA
Found at i:62619242 original size:13 final size:13
Alignment explanation
Indices: 62619224--62619251 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62619214 TTGATTTTTG
62619224 TTGTTAGTTATTA
1 TTGTTAGTTATTA
62619237 TTGTTAGTTATTA
1 TTGTTAGTTATTA
62619250 TT
1 TT
62619252 ATTGTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.64
Consensus pattern (13 bp):
TTGTTAGTTATTA
Found at i:62619250 original size:16 final size:16
Alignment explanation
Indices: 62619191--62619257 Score: 64
Period size: 16 Copynumber: 3.9 Consensus size: 16
62619181 TGTTTTTGCT
62619191 GTTATTATTATTGTTGA
1 GTTATTATTATTGTT-A
* *
62619208 TTTTTATTGATTTTTGTT-
1 --GTTATT-ATTATTGTTA
62619226 GTTAGTTATTATTGTTA
1 GTTA-TTATTATTGTTA
62619243 GTTATTATTATTGTT
1 GTTATTATTATTGTT
62619258 TGTAAAAAAC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
16 22 0.54
17 6 0.15
19 5 0.12
20 8 0.20
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.66
Consensus pattern (16 bp):
GTTATTATTATTGTTA
Found at i:62619274 original size:26 final size:26
Alignment explanation
Indices: 62619244--62619301 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
62619234 TTATTGTTAG
* *
62619244 TTATTATTATTGTTTGTAAAAAACTC
1 TTATTATTATTGTTAGTAAAAAACTA
62619270 TTATTATTATTGTTAGTAAAAAACTA
1 TTATTATTATTGTTAGTAAAAAACTA
62619296 TTATTA
1 TTATTA
62619302 GGATTGTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (26 bp):
TTATTATTATTGTTAGTAAAAAACTA
Found at i:62619307 original size:26 final size:26
Alignment explanation
Indices: 62619252--62619309 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
62619242 AGTTATTATT
* * **
62619252 ATTGTTTGTAAAAAACTCTTATTATT
1 ATTGTTAGTAAAAAACTATTATTAGG
62619278 ATTGTTAGTAAAAAACTATTATTAGG
1 ATTGTTAGTAAAAAACTATTATTAGG
62619304 ATTGTT
1 ATTGTT
62619310 GGTTATTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (26 bp):
ATTGTTAGTAAAAAACTATTATTAGG
Found at i:62619355 original size:39 final size:37
Alignment explanation
Indices: 62619270--62619361 Score: 107
Period size: 39 Copynumber: 2.4 Consensus size: 37
62619260 TAAAAAACTC
62619270 TTATTATTATTGTTAGTAAAAAACTATTATTAGGATTG
1 TTATTATTATTGTTAGTAAAAAACTATTATTA-GATTG
*
62619308 TTGGTTATTATTGTTAGTAAAAAACCCTAATTATT-G-TTAG
1 TT-ATTATTATTGTTAGTAAAAAA--CT-ATTATTAGATT-G
62619348 TTATTATTATTGTT
1 TTATTATTATTGTT
62619362 GATTTATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
38 2 0.04
39 33 0.70
40 4 0.09
41 2 0.04
42 6 0.13
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (37 bp):
TTATTATTATTGTTAGTAAAAAACTATTATTAGATTG
Found at i:62625568 original size:49 final size:49
Alignment explanation
Indices: 62625508--62625682 Score: 185
Period size: 49 Copynumber: 3.6 Consensus size: 49
62625498 CTTGTTGTAT
* * *
62625508 GTCAGTGTAAGACCTATCTGGGACATGGCATC-GACATCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCAG-CATCAATAGATGAAA
* * * *
62625557 GTCAGTATAAGACCTGTCTAGGACATGGCATCAGCCTCAATATATGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCAGCATCAATAGATGAAA
* * * * **
62625606 GTCAGTGTAAGACCTGTCTGGGACACGGCATCAACTTTAAT-G-TGCTA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCAGCATCAATAGATGAAA
*
62625653 GCCAGTGTAAGACCATGTCTGGGACATGGC
1 GTCAGTGTAAGACC-TGTCTGGGACATGGC
62625683 GTCGGCATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
47 16 0.15
48 14 0.13
49 75 0.71
50 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCAGCATCAATAGATGAAA
Found at i:62632382 original size:13 final size:13
Alignment explanation
Indices: 62632364--62632388 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62632354 AGTCCATGGG
62632364 TGTATGGCACGGA
1 TGTATGGCACGGA
62632377 TGTATGGCACGG
1 TGTATGGCACGG
62632389 GCGTGTCGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (13 bp):
TGTATGGCACGGA
Found at i:62644201 original size:21 final size:20
Alignment explanation
Indices: 62644177--62644215 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
62644167 GTCATAATGG
62644177 CCACAC-GGACGTGTTGCCCAT
1 CCACACAGG-CGTG-TGCCCAT
62644198 CCACACAGGCGTGTGCCC
1 CCACACAGGCGTGTGCCC
62644216 TGCTTCAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 10 0.59
22 2 0.12
ACGTcount: A:0.18, C:0.41, G:0.26, T:0.15
Consensus pattern (20 bp):
CCACACAGGCGTGTGCCCAT
Found at i:62645651 original size:18 final size:18
Alignment explanation
Indices: 62645612--62645651 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
62645602 AATTTCGGTT
62645612 ATTA-ATTTTAATATTCG
1 ATTAGATTTTAATATTCG
62645629 A-TAGATTTTAAATATT-G
1 ATTAGATTTT-AATATTCG
62645646 ATTAGA
1 ATTAGA
62645652 ATAACTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.10
17 8 0.40
18 10 0.50
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (18 bp):
ATTAGATTTTAATATTCG
Found at i:62646128 original size:12 final size:13
Alignment explanation
Indices: 62646096--62646131 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
62646086 TTTTTTAAAA
62646096 TATATTATTTTCT
1 TATATTATTTTCT
*
62646109 TATTTTATTTT-T
1 TATATTATTTTCT
62646121 TATATTATTTT
1 TATATTATTTT
62646132 AGTACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TATATTATTTTCT
Found at i:62646371 original size:299 final size:295
Alignment explanation
Indices: 62646065--62646883 Score: 1173
Period size: 299 Copynumber: 2.7 Consensus size: 295
62646055 GTTGGTATTT
* *
62646065 TTTTTTTATTTTCAGATTTTATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATATTATT
1 TTTTTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTATATTATT
* * * * *
62646130 TTAGTACATAATGTTGT-AATGCATTATTTAAATGTTTTTTTTATTAATTTAATAAATAA-CTCT
66 TTAGTACATAATGTT-TAAATGTATTATTTTAGTG-TTTTTTTAATAATTTAGTAAATAACCT-T
* * *
62646193 GATTTTGGCACTTTGTTGGTATTTTTTTATTTTCGAATTTCATTTTTTAAAATATATTATTTT-T
128 GATTTTGGCACTTTGTTGGTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTGT
*
62646257 ATTGTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTATAT
193 ATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTA-A-
* *
62646322 TAATTTAATAAATAACCTTGATTTTGACACTTTTTGTTGATA
256 TAATTTAATAAATAACCCTGATTTTGAC-C-ATTTGTTGATA
*
62646364 TTTTTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTAT
1 TTTTTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCCTATTTTA-TTTTTTATATTAT
**
62646429 TTTAGTACAT-ATAGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAGGAACCTT
65 TTTAGTACATAAT-GTTT-AAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTT
62646493 GATTTTGGCACTTTGTTGGTATTTTTTTATTTTCGGATTTTA-TTTTTAAAATATACTATTTTCG
128 GATTTTGGCACTTTGTTGGTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTT-G
*
62646557 TATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTAA
192 TATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTAA
* * * *
62646622 TAATTTAGTATATAACCCTGATTTTGGCCATTTGTTTATA
256 TAATTTAATAAATAACCCTGATTTTGACCATTTGTTGATA
* * * *
62646662 TTTTTTATATTTTTGGATTTTATTTTATAAAATATACTATTTTCCTATTTTATTTTTTGTATTAT
1 TTTTTT-TATTTTCGGATTTTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTATATTAT
62646727 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTTG
65 TTTAGTACATAATGTTT-AAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTTG
* ** * *
62646792 ATTTTGGC-CTTTTGTTTGTATTTTTCAAATTTTTGGATTTTATTTTTTAAAATATACAATTTTT
129 ATTTTGGCAC-TTTGTTGGTATTTTT-TTATTTTCGGATTTTATTTTTTAAAATATACTA-TTTT
62646856 GTATTTTATTTTTTATATTATTTTAGTA
191 GTATTTTATTTTTTATATTATTTTAGTA
62646884 AAAAACCCGC
Statistics
Matches: 474, Mismatches: 32, Indels: 28
0.89 0.06 0.05
Matches are distributed among these distances:
297 1 0.00
298 109 0.23
299 148 0.31
300 134 0.28
301 27 0.06
302 55 0.12
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.59
Consensus pattern (295 bp):
TTTTTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCCTATTTTATTTTTTATATTATT
TTAGTACATAATGTTTAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTTGAT
TTTGGCACTTTGTTGGTATTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTGTATT
TTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTAATAATT
TAATAAATAACCCTGATTTTGACCATTTGTTGATA
Found at i:62646518 original size:150 final size:150
Alignment explanation
Indices: 62646065--62646883 Score: 1149
Period size: 150 Copynumber: 5.5 Consensus size: 150
62646055 GTTGGTATTT
* * *
62646065 TTTTTTTATTTTCAGATTTTATTTTTTAAAATATATTATTTTCTTATTTTATTTTTTATATTATT
1 TTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATT
* * * * *
62646130 TTAGTACATAATGTTGT--AATGCATTATTTAAATGTTTTTTTTATTAATTTAATAAATAA-CTC
66 TTAGTACATAATGTT-TCAAATGTATTATTTTAGTG-TTTTTTTAATAATTTAGTAAATAACCT-
62646192 TGATTTTGGCAC-TTTGTTGGTA
128 TGATTTTGGCACTTTTGTTGGTA
* * * *
62646214 TTTTTTTATTTTCGAATTTCATTTTTTAAAATATATTATTTT--TATTGTATTTTTTATATTATT
1 TTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATT
* * *
62646277 TTAGTACATAATGTTTCAAATGTATTATTTAAGTGTTTTTTATATTAATTTAATAAATAACCTTG
66 TTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT-TAATAATTTAGTAAATAACCTTG
* *
62646342 ATTTTGACACTTTTTGTTGATA
130 ATTTTGGCAC-TTTTGTTGGTA
*
62646364 TTTTTTTATTTTCGGATTTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTAT
1 TTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTAT
**
62646429 TTTAGTACAT-ATAGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAGGAACCTT
65 TTTAGTACATAAT-GTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTT
62646493 GATTTTGGCAC-TTTGTTGGTA
129 GATTTTGGCACTTTTGTTGGTA
62646514 TTTTTTTATTTTCGGATTTTA-TTTTTAAAATATACTATTTTCGTATTTTATTTTTTTATATTAT
1 TTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATTAT
* *
62646578 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTG-TTTTTTAATAATTTAGTATATAACCCTG
65 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTTG
* **
62646642 ATTTTGGC-CATTTGTTTATA
130 ATTTTGGCACTTTTGTTGGTA
* * * *
62646662 TTTTTTATATTTTTGGATTTTATTTTATAAAATATACTATTTTCCTATTTTATTTTTTGTATTAT
1 TTTTTT-TATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
62646727 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTTG
65 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTTG
*
62646792 ATTTTGGC-CTTTTGTTTGTA
130 ATTTTGGCACTTTTGTTGGTA
** * * *
62646812 TTTTTCAAATTTTTGGATTTTATTTTTTAAAATATACAATTTTTGTATTTTATTTTTTATATTAT
1 TTTTT-TTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
62646877 TTTAGTA
65 TTTAGTA
62646884 AAAAACCCGC
Statistics
Matches: 614, Mismatches: 40, Indels: 31
0.90 0.06 0.05
Matches are distributed among these distances:
146 1 0.00
147 42 0.07
148 90 0.15
149 178 0.29
150 216 0.35
152 36 0.06
153 51 0.08
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.59
Consensus pattern (150 bp):
TTTTTTTATTTTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTATT
TTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTTAATAATTTAGTAAATAACCTTGA
TTTTGGCACTTTTGTTGGTA
Found at i:62646938 original size:17 final size:16
Alignment explanation
Indices: 62646916--62646947 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
62646906 CCCGAATTTT
62646916 TTTCGTATTTTATTTCC
1 TTTCGTATTTT-TTTCC
62646933 TTTCGTATTTTTTTC
1 TTTCGTATTTTTTTC
62646948 ATTAAGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.16, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTCGTATTTTTTTCC
Found at i:62647498 original size:3 final size:3
Alignment explanation
Indices: 62647484--62647532 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
62647474 GTGCCGCTTC
* *
62647484 CTT CTC CTT CTT CTT CTT C-T CTT CTT -TT CTT CTT CTC CTT CTT -TT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
62647529 CTT C
1 CTT C
62647533 CCAAAATGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.15
3 33 0.85
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:62647518 original size:22 final size:22
Alignment explanation
Indices: 62647490--62647531 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
62647480 CTTCCTTCTC
*
62647490 CTTCTTCTTCTTCTCTTCTTTT
1 CTTCTTCTCCTTCTCTTCTTTT
*
62647512 CTTCTTCTCCTTCTTTTCTT
1 CTTCTTCTCCTTCTCTTCTT
62647532 CCCAAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (22 bp):
CTTCTTCTCCTTCTCTTCTTTT
Found at i:62647518 original size:25 final size:25
Alignment explanation
Indices: 62647485--62647532 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
62647475 TGCCGCTTCC
*
62647485 TTCTCCTTCTTCTTCTTCTCTTCTT
1 TTCTCCTTCTCCTTCTTCTCTTCTT
* *
62647510 TTCTTCTTCTCCTTCTTTTCTTC
1 TTCTCCTTCTCCTTCTTCTCTTC
62647533 CCAAAATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (25 bp):
TTCTCCTTCTCCTTCTTCTCTTCTT
Found at i:62647652 original size:27 final size:27
Alignment explanation
Indices: 62647611--62647672 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
62647601 GTCTAATAGA
* * *
62647611 CGGTGCCGCCTCTGCCAGAGTCACAAT
1 CGGTGTCGCCCCTGCCAGAGGCACAAT
*
62647638 CGGTGTCGCCCCTGCCCGAGGCACAAT
1 CGGTGTCGCCCCTGCCAGAGGCACAAT
62647665 CGGTGTCG
1 CGGTGTCG
62647673 GGCCAGAGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.15, C:0.37, G:0.31, T:0.18
Consensus pattern (27 bp):
CGGTGTCGCCCCTGCCAGAGGCACAAT
Found at i:62647756 original size:17 final size:17
Alignment explanation
Indices: 62647718--62647759 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
62647708 CCTCCATCCC
62647718 CTTTTTTTCAGATTTTTA
1 CTTTTTTTCA-ATTTTTA
62647736 -TTTTTTTC-ATTTTTAA
1 CTTTTTTTCAATTTTT-A
62647752 CTTTTTTT
1 CTTTTTTT
62647760 TAAATAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.27
16 1 0.05
17 15 0.68
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (17 bp):
CTTTTTTTCAATTTTTA
Found at i:62649444 original size:51 final size:51
Alignment explanation
Indices: 62649384--62649570 Score: 284
Period size: 51 Copynumber: 3.7 Consensus size: 51
62649374 TACAAATCAA
* * *
62649384 ATCTCTAAGAATATAAAATCATATCTTCTAAGATTACATATCATATCTAAG
1 ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
*
62649435 ATCTCTAAGAATATAATATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
* * *
62649486 ATATCTAAGATTATAATATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
* * *
62649537 ATCTCTAAGATTATAAAATCATATCTTTTAAGAT
1 ATCTCTAAGAATATAAAATAATATCTTATAAGAT
62649571 CATGTTTCCA
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 126 1.00
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (51 bp):
ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
Found at i:62649475 original size:22 final size:22
Alignment explanation
Indices: 62649450--62649533 Score: 69
Period size: 22 Copynumber: 3.5 Consensus size: 22
62649440 TAAGAATATA
62649450 ATATAATATCTTATAAGATTCC
1 ATATAATATCTTATAAGATTCC
* **
62649472 ATATCATATCTAAGATATCTAAGATTATA
1 ATATAATATCT----TA--TAAGATT-CC
62649501 ATATAATATCTTATAAGATTCC
1 ATATAATATCTTATAAGATTCC
*
62649523 ATATCATATCT
1 ATATAATATCT
62649534 AAGATCTCTA
Statistics
Matches: 48, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
22 20 0.42
23 7 0.15
25 2 0.04
26 2 0.04
28 7 0.15
29 10 0.21
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (22 bp):
ATATAATATCTTATAAGATTCC
Found at i:62650653 original size:96 final size:96
Alignment explanation
Indices: 62650475--62650668 Score: 239
Period size: 96 Copynumber: 2.0 Consensus size: 96
62650465 TCGCTTCTTT
* * *
62650475 TTGCTCCTTTTAGCCCTCTTGGCTTCGACTTTACGCTTGCTCGAACCAAGCTTCTTGGGCTCATT
1 TTGCTCCTTTTAGCCCTCTTGGCTTCGACTTTACGCTTGCTCAAACCAAGCTTCCTGGGCTCAGT
* * * * *
62650540 GTCTGCTCTATATTTCCCTTCGATGACAGAC
66 ATCTGCTCGATATTTCCCATCAATAACAGAC
* * * * *
62650571 TTGCTCCTCTTT-GCCCTTTTGGCTTCGGCTTTTCTCTTGCTCAAACCAAGCTTCCTGGGCTCCG
1 TTGCTCCT-TTTAGCCCTCTTGGCTTCGACTTTACGCTTGCTCAAACCAAGCTTCCTGGGCTCAG
62650635 TATCTGCTCGATCA-TTCCCATCAATAACAGAC
65 TATCTGCTCGAT-ATTTCCCATCAATAACAGAC
62650667 TT
1 TT
62650669 CATTGGACAC
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
96 79 0.95
97 4 0.05
ACGTcount: A:0.15, C:0.31, G:0.16, T:0.37
Consensus pattern (96 bp):
TTGCTCCTTTTAGCCCTCTTGGCTTCGACTTTACGCTTGCTCAAACCAAGCTTCCTGGGCTCAGT
ATCTGCTCGATATTTCCCATCAATAACAGAC
Found at i:62652385 original size:51 final size:51
Alignment explanation
Indices: 62652325--62652511 Score: 284
Period size: 51 Copynumber: 3.7 Consensus size: 51
62652315 TACAAATCAA
* * *
62652325 ATCTCTAAGAATATAAAATCATATCTTCTAAGATTACATATCATATCTAAG
1 ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
*
62652376 ATCTCTAAGAATATAATATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
* * *
62652427 ATCTCTAAGATTAGAATATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
* * *
62652478 ATCTCTAAGATTATAAAATCATATCTTTTAAGAT
1 ATCTCTAAGAATATAAAATAATATCTTATAAGAT
62652512 CATGTTTCTA
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 126 1.00
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.37
Consensus pattern (51 bp):
ATCTCTAAGAATATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
Found at i:62652416 original size:22 final size:22
Alignment explanation
Indices: 62652391--62652474 Score: 60
Period size: 22 Copynumber: 3.5 Consensus size: 22
62652381 TAAGAATATA
62652391 ATATAATATCTTATAAGATTCC
1 ATATAATATCTTATAAGATTCC
* * **
62652413 ATATCATATCTAAGATCTCTAAGATTAGA
1 ATATAATATC-----T-TATAAGATT-CC
62652442 ATATAATATCTTATAAGATTCC
1 ATATAATATCTTATAAGATTCC
*
62652464 ATATCATATCT
1 ATATAATATCT
62652475 AAGATCTCTA
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
22 19 0.41
23 8 0.17
24 1 0.02
27 1 0.02
28 8 0.17
29 9 0.20
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.39
Consensus pattern (22 bp):
ATATAATATCTTATAAGATTCC
Found at i:62663856 original size:33 final size:33
Alignment explanation
Indices: 62663811--62664028 Score: 147
Period size: 33 Copynumber: 6.7 Consensus size: 33
62663801 TTCGAGGTGC
*
62663811 ACAT-TCCTTTTTCAAGTGGTACACACGAAGTGT
1 ACATATCC-TTTTCAAGTGGTACACACAAAGTGT
* * * * * *
62663844 ACATACCCTTTTCAATTTGTACACTCAAAATGC
1 ACATATCCTTTTCAAGTGGTACACACAAAGTGT
* * * *
62663877 ACATAACTTTTTCAAGT-GTACACATATAGTGT
1 ACATATCCTTTTCAAGTGGTACACACAAAGTGT
* * * * *
62663909 ACCTTTCCTTTTCAAGTGGTATATACAAAGTAT
1 ACATATCCTTTTCAAGTGGTACACACAAAGTGT
* * * * * *
62663942 ACCTTTCCTTTTCATA-TGGCATACAAAAAGTAT
1 ACATATCCTTTTCA-AGTGGTACACACAAAGTGT
* * *
62663975 ACCTTTCATTTTCAAGT-GTACACACAAAGTGT
1 ACATATCCTTTTCAAGTGGTACACACAAAGTGT
* *
62664007 ACATAACCTTTTCAAGTTGTAC
1 ACATATCCTTTTCAAGTGGTAC
62664029 CATTTGAATA
Statistics
Matches: 144, Mismatches: 36, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
32 48 0.33
33 93 0.65
34 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (33 bp):
ACATATCCTTTTCAAGTGGTACACACAAAGTGT
Found at i:62664422 original size:26 final size:26
Alignment explanation
Indices: 62664393--62664474 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
62664383 TGATAAAAAT
*
62664393 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62664419 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62664445 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
62664471 TGAT
1 TGAT
62664475 GGGCATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:62665665 original size:8 final size:8
Alignment explanation
Indices: 62665652--62665681 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
62665642 AGATCGGCAC
62665652 AAGCCGAA
1 AAGCCGAA
62665660 AAGCCGAA
1 AAGCCGAA
*
62665668 ATGCCGAA
1 AAGCCGAA
62665676 AAGCCG
1 AAGCCG
62665682 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:62666150 original size:54 final size:54
Alignment explanation
Indices: 62666068--62666211 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
62666058 TGGAGGAAGC
*
62666068 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
62666122 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
62666176 GTTCTGGTGGCTCTGCTACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
62666212 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:62666207 original size:32 final size:27
Alignment explanation
Indices: 62666071--62666211 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
62666061 AGGAAGCGTC
*
62666071 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
62666098 TTGGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTCTGCCACATATATCTGAT
*
62666124 CCTGGTGGCTATGCCACA-ATTATCTGAT
1 -CTGGTGGCTCTGCCACATA-TATCTGAT
*
62666152 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
62666179 CTGGTGGCTCTGCTACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
62666206 CTGGTG
1 CTGGTG
62666212 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.09
27 88 0.88
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:62666223 original size:27 final size:26
Alignment explanation
Indices: 62666084--62666229 Score: 104
Period size: 27 Copynumber: 5.4 Consensus size: 26
62666074 GTGGCTATGC
* *
62666084 CACAATTATCTG-ATTTGGTGGCTCTGC
1 CACAA-TATCTGTATCTGGTGGCTC-GT
* * *
62666111 CACATATATCTGT-CCTGGTGGCTATGC
1 CACA-ATATCTGTATCTGGTGGCT-CGT
*
62666138 CACAATTATCTG-ATCTGGTGGCTCTGC
1 CACAA-TATCTGTATCTGGTGGCTC-GT
62666165 CACATATATCTGT-TCTGGTGGCTC-T
1 CACA-ATATCTGTATCTGGTGGCTCGT
*
62666190 GCTACAATATCTGTATCTGGTGACTTCGT
1 -C-ACAATATCTGTATCTGGTGGC-TCGT
62666219 CACAATATCTG
1 CACAATATCTG
62666230 GCAGCCTCGC
Statistics
Matches: 99, Mismatches: 7, Indels: 26
0.75 0.05 0.20
Matches are distributed among these distances:
26 10 0.10
27 83 0.84
28 5 0.05
29 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CACAATATCTGTATCTGGTGGCTCGT
Found at i:62666223 original size:81 final size:80
Alignment explanation
Indices: 62666071--62666229 Score: 200
Period size: 81 Copynumber: 2.0 Consensus size: 80
62666061 AGGAAGCGTC
*
62666071 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
62666136 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
62666152 CTGGTGGCTCTGCCAC-ATATATCTG-TTCTGGTGGCTCTGCTACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTATGCCACAAT-TATCTGATT-TGGTGGCTCTGCCACATATATCTGT-CCTGGTGAC
*
62666214 T-TCGTCACAATATCTG
63 TAT-GCCACAATATCTG
62666230 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
80 19 0.28
81 50 0.72
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:62674507 original size:33 final size:32
Alignment explanation
Indices: 62674458--62674573 Score: 117
Period size: 33 Copynumber: 3.6 Consensus size: 32
62674448 ATGGAATTTT
* * *
62674458 CCTTTTCTAGTTGTACACTCAAGATGCACATTC
1 CCTTTTCAAGTGGTACACTCAAG-TGCACATAC
* *
62674491 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGTGGTACACTC-AAGTGCACATAC
* * * *
62674524 CCTTTTCAATTTGTACATTCAAAGTGCACATAA
1 CCTTTTCAAGTGGTACACTC-AAGTGCACATAC
62674557 CCTTTTCAAGT-GTACAC
1 CCTTTTCAAGTGGTACAC
62674574 ATATAGTGTA
Statistics
Matches: 68, Mismatches: 14, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
32 5 0.07
33 60 0.88
34 3 0.04
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (32 bp):
CCTTTTCAAGTGGTACACTCAAGTGCACATAC
Found at i:62674624 original size:33 final size:32
Alignment explanation
Indices: 62674557--62674678 Score: 156
Period size: 33 Copynumber: 3.8 Consensus size: 32
62674547 GTGCACATAA
* * *
62674557 CCTTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACACAAAGTATACCTTT
*
62674589 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGT-GTACACACAAAGTATACCTTT
* *
62674622 CCTTTTCATA-TGGTATACGCAAAGTATACCTTT
1 CCTTTTCA-AGT-GTACACACAAAGTATACCTTT
62674655 CCTTTTCAAGTGTACACACAAAGT
1 CCTTTTCAAGTGTACACACAAAGT
62674679 GTACATAACT
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
32 23 0.29
33 56 0.70
34 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.37
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTATACCTTT
Found at i:62677836 original size:22 final size:21
Alignment explanation
Indices: 62677787--62677845 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
62677777 TTATAAACCT
62677787 AAAAAAATAAAAATAAGCTTA
1 AAAAAAATAAAAATAAGCTTA
*
62677808 AAGAAAAATAAACAGT-AGTCTT-
1 AA-AAAAATAAA-AATAAG-CTTA
*
62677830 AAAAAAATAAGAATAA
1 AAAAAAATAAAAATAA
62677846 AAACATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 2 0.06
21 11 0.35
22 13 0.42
23 5 0.16
ACGTcount: A:0.68, C:0.05, G:0.08, T:0.19
Consensus pattern (21 bp):
AAAAAAATAAAAATAAGCTTA
Found at i:62686919 original size:42 final size:42
Alignment explanation
Indices: 62686872--62687069 Score: 123
Period size: 43 Copynumber: 4.7 Consensus size: 42
62686862 TAGTAAGATC
*
62686872 TCAATGCCATATCCCAGATATGGTCTTACATG-GGATCACATA
1 TCAATGCCATATCCCAGATATGGTCTTACACGAGG-TCACATA
* * * *
62686914 TCAATGCCA-ATGGCTCAGCTATGGTCTTACACGATGTCTCATA
1 TCAATGCCATAT--CCCAGATATGGTCTTACACGAGGTCACATA
* * * * * * *
62686957 TCGATGCCATATCCTAGATATGGTCTTATACAAAGTCTCATTT
1 TCAATGCCATATCCCAGATATGGTCTTACACGAGGTCACA-TA
* ** ** ** *
62687000 TCGAA-GCCATGTCCCAGACGTGGTCTTACACGAAATTGCATG
1 TC-AATGCCATATCCCAGATATGGTCTTACACGAGGTCACATA
* * *
62687042 CCGATGCCATATCCCAAATATGGTCTTA
1 TCAATGCCATATCCCAGATATGGTCTTA
62687070 TATGGAATCT
Statistics
Matches: 119, Mismatches: 30, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
41 3 0.03
42 52 0.44
43 60 0.50
44 4 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
TCAATGCCATATCCCAGATATGGTCTTACACGAGGTCACATA
Found at i:62702888 original size:83 final size:83
Alignment explanation
Indices: 62702745--62702920 Score: 255
Period size: 83 Copynumber: 2.1 Consensus size: 83
62702735 GTGGAGCAAG
*
62702745 GTGGGGTGGGGTAAGAATGGATGCACCAACATCCCATGGAAATGGTAGTAGTTTTCAAAATTATA
1 GTGGGGTGGGGTAAGAATGGATGCACCAACATCCCATGGAAATGATAGTAGTTTTCAAAATTATA
* * *
62702810 TATCCATAGTAAAGTGGA
66 CATCCATAATAAAGTAGA
* * *
62702828 GTGGGGTGGGGTTAGAATGGATGCACCAACATCCCATGGAAGTGATAGT-GATTTTTAAAATTAT
1 GTGGGGTGGGGTAAGAATGGATGCACCAACATCCCATGGAAATGATAGTAG-TTTTCAAAATTAT
*
62702892 ACATCCATAATGAAGTAGA
65 ACATCCATAATAAAGTAGA
*
62702911 GTGGGTTGGG
1 GTGGGGTGGG
62702921 ATGGGGTGGA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 1 0.01
83 82 0.99
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (83 bp):
GTGGGGTGGGGTAAGAATGGATGCACCAACATCCCATGGAAATGATAGTAGTTTTCAAAATTATA
CATCCATAATAAAGTAGA
Found at i:62704884 original size:15 final size:15
Alignment explanation
Indices: 62704839--62704890 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
62704829 TATATTTTGA
62704839 TTAAA-TACATAGTTT
1 TTAAATTACATA-TTT
* *
62704854 TATTAATTATATTATTT
1 T-TAAATTACA-TATTT
62704871 TTAAATTACATATTT
1 TTAAATTACATATTT
62704886 TTAAA
1 TTAAA
62704891 AAAAGTATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 11 0.37
16 10 0.33
17 7 0.23
18 2 0.07
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (15 bp):
TTAAATTACATATTT
Found at i:62707361 original size:53 final size:52
Alignment explanation
Indices: 62707283--62707436 Score: 193
Period size: 53 Copynumber: 2.9 Consensus size: 52
62707273 TACACGGGAG
* *
62707283 CACTTATCACTTTTCTCCGATGCCATAGCCCAGCTATGGTCTTATACG-GAT
1 CACTTATCACTTTTATCCGATGCCATAGCCCAGCTATGGTCTTATACGAAAT
* * * *
62707334 CACTTGTATCACTTTAATCCGAAGCCATAACCCAGCTATGATCTTATACGAAAAT
1 CAC-T-TATCACTTTTATCCGATGCCATAGCCCAGCTATGGTCTTATACG-AAAT
* *
62707389 CACTTATCACTTGTTTTTCGATGCCATAGCCCAGCTATGGTCTTATAC
1 CACTTATCACTT-TTATCCGATGCCATAGCCCAGCTATGGTCTTATAC
62707437 AGATATAGCT
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
51 3 0.03
52 1 0.01
53 47 0.55
54 30 0.35
55 5 0.06
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (52 bp):
CACTTATCACTTTTATCCGATGCCATAGCCCAGCTATGGTCTTATACGAAAT
Found at i:62707456 original size:54 final size:52
Alignment explanation
Indices: 62707284--62707458 Score: 176
Period size: 53 Copynumber: 3.3 Consensus size: 52
62707274 ACACGGGAGC
* *
62707284 ACTTATCACTT-TTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGGAT-C
1 ACTTATCACTTGTTATCCGATGCCATAGCCCAGCTATGGTCTTATAC-GATAT
* * * * *
62707335 ACTTGTATCACTT-TAATCCGAAGCCATAACCCAGCTATGATCTTATACGAAAAT
1 AC-T-TATCACTTGTTATCCGATGCCATAGCCCAGCTATGGTCTTATACG-ATAT
* *
62707389 CACTTATCACTTGTTTTTCGATGCCATAGCCCAGCTATGGTCTTATACAGATAT
1 -ACTTATCACTTGTTATCCGATGCCATAGCCCAGCTATGGTCTTATAC-GATAT
*
62707443 AGCTTATCTCTTGTTA
1 A-CTTATCACTTGTTA
62707459 CCGTGGTCCA
Statistics
Matches: 100, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
51 2 0.02
52 2 0.02
53 48 0.48
54 45 0.45
55 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (52 bp):
ACTTATCACTTGTTATCCGATGCCATAGCCCAGCTATGGTCTTATACGATAT
Found at i:62714589 original size:19 final size:19
Alignment explanation
Indices: 62714567--62714607 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
62714557 TTTATTGATA
62714567 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
62714585 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
62714604 TTTT
1 TTTT
62714608 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:62724628 original size:114 final size:114
Alignment explanation
Indices: 62724428--62724665 Score: 404
Period size: 114 Copynumber: 2.1 Consensus size: 114
62724418 GACAGGGACA
** *
62724428 TGCCCGTGTATGATTACTTCAGGACGTGGTCAAGCCTGTTAAATAGGCACGGGCGTGTGGTCTAC
1 TGCCCGTGTGCGATTACTTCAGGACATGGTCAAGCCTGTTAAATAGGCACGGGCGTGTGGTCTAC
* * *
62724493 CCGTGTGGGTCGTGCTTCGATTCTGCCAAATTGATACGGCCGTGTGGTC
66 CCGTGTGAGTCGTGCTTCGATTCTGCCAAATTAACACGGCCGTGTGGTC
*
62724542 TGCCCGTGTGCGATTACTTCAGGCCATGGTCAAGCCTGTTAAATAGGCACGGGCGTGTGGTCTAC
1 TGCCCGTGTGCGATTACTTCAGGACATGGTCAAGCCTGTTAAATAGGCACGGGCGTGTGGTCTAC
*
62724607 TCGTGTGAGTCGTGCTTCGATTCTGCCAAATTAACACGGCCGTGTGGTC
66 CCGTGTGAGTCGTGCTTCGATTCTGCCAAATTAACACGGCCGTGTGGTC
62724656 TGCCCGTGTG
1 TGCCCGTGTG
62724666 AGGAAGTCTA
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 116 1.00
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.29
Consensus pattern (114 bp):
TGCCCGTGTGCGATTACTTCAGGACATGGTCAAGCCTGTTAAATAGGCACGGGCGTGTGGTCTAC
CCGTGTGAGTCGTGCTTCGATTCTGCCAAATTAACACGGCCGTGTGGTC
Found at i:62736661 original size:41 final size:42
Alignment explanation
Indices: 62736567--62736715 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 42
62736557 TACAATTTCA
* **
62736567 ATGTCCCAGACATGGTCTTACATGCTATCTCATATCAATGCC
1 ATGTCCCAGACATGGTCTTACATGCAATCAAATATCAATGCC
*
62736609 ACTGTCCCAGACA-GGATCTTACATG-AATCAAATAT-GATGCC
1 A-TGTCCCAGACATGG-TCTTACATGCAATCAAATATCAATGCC
* * * *
62736650 GATGTCCCAGACATGGTCTTAC-TCGTAACCACATATCGATGCC
1 -ATGTCCCAGACATGGTCTTACAT-GCAATCAAATATCAATGCC
* * *
62736693 AACGTCCCAAACGTGGTCTTACA
1 -ATGTCCCAGACATGGTCTTACA
62736716 CAAAAACACA
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
40 1 0.01
41 23 0.26
42 21 0.24
43 44 0.49
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGTCCCAGACATGGTCTTACATGCAATCAAATATCAATGCC
Found at i:62736710 original size:43 final size:44
Alignment explanation
Indices: 62736640--62736770 Score: 122
Period size: 45 Copynumber: 3.0 Consensus size: 44
62736630 CATGAATCAA
* * * * **
62736640 ATATGATGCCGATGTCCCAGACATGGTCTTACTC-GTAAC-CAC
1 ATATGATGCCAACGTCCCAGACGTGGTCTTACACAAAAACACAC
* *
62736682 ATATCGATGCCAACGTCCCAAACGTGGTCTTACACAAAAACACAT
1 ATAT-GATGCCAACGTCCCAGACGTGGTCTTACACAAAAACACAC
* * **
62736727 ATATTGATACCAACGTCCCAGATGTGGTCTTACATGAAAACACA
1 ATA-TGATGCCAACGTCCCAGACGTGGTCTTACACAAAAACACA
62736771 TATCAGAATT
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 4 0.06
43 25 0.35
44 3 0.04
45 39 0.54
46 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (44 bp):
ATATGATGCCAACGTCCCAGACGTGGTCTTACACAAAAACACAC
Found at i:62736754 original size:45 final size:45
Alignment explanation
Indices: 62736682--62736773 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
62736672 TCGTAACCAC
*
62736682 ATATCGATGCCAACGTCCCAAACGTGGTCTTACACAAAAACACAT
1 ATATCGATACCAACGTCCCAAACGTGGTCTTACACAAAAACACAT
* * * **
62736727 ATATTGATACCAACGTCCCAGATGTGGTCTTACATGAAAACACAT
1 ATATCGATACCAACGTCCCAAACGTGGTCTTACACAAAAACACAT
62736772 AT
1 AT
62736774 CAGAATTCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (45 bp):
ATATCGATACCAACGTCCCAAACGTGGTCTTACACAAAAACACAT
Found at i:62749563 original size:5 final size:5
Alignment explanation
Indices: 62749555--62749590 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
62749545 ATTCACAAAG
62749555 CCCAC CCCAC CCCAC CCCAC CCCAC CCGCAC CCCAC
1 CCCAC CCCAC CCCAC CCCAC CCCAC CC-CAC CCCAC
62749591 TTTTCTCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.19, C:0.78, G:0.03, T:0.00
Consensus pattern (5 bp):
CCCAC
Found at i:62757054 original size:29 final size:29
Alignment explanation
Indices: 62757020--62757078 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
62757010 AAATAATAAG
62757020 AAAGTGAGAAAATTGAAGTGAATCCACTA
1 AAAGTGAGAAAATTGAAGTGAATCCACTA
62757049 AAAGTGAGAAAATTGAAGTGAATCCACTA
1 AAAGTGAGAAAATTGAAGTGAATCCACTA
62757078 A
1 A
62757079 TTGATTATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.20
Consensus pattern (29 bp):
AAAGTGAGAAAATTGAAGTGAATCCACTA
Found at i:62767533 original size:23 final size:23
Alignment explanation
Indices: 62767507--62767553 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
62767497 ATCAATATCA
62767507 AGAATCAATTATTCTTGGTTTAC
1 AGAATCAATTATTCTTGGTTTAC
62767530 AGAATCAATTATTCTTGGTTTAC
1 AGAATCAATTATTCTTGGTTTAC
62767553 A
1 A
62767554 AACATCGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (23 bp):
AGAATCAATTATTCTTGGTTTAC
Found at i:62769479 original size:19 final size:20
Alignment explanation
Indices: 62769452--62769491 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
62769442 TTGAAAATAT
*
62769452 TTTTATATATTGTT-TTTAA
1 TTTTATATATTATTGTTTAA
*
62769471 TTTTCTATATTATTGTTTAA
1 TTTTATATATTATTGTTTAA
62769491 T
1 T
62769492 AAATTTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTATATATTATTGTTTAA
Found at i:62770103 original size:8 final size:8
Alignment explanation
Indices: 62770090--62770115 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
62770080 CAACCTAATA
62770090 CTCGATGT
1 CTCGATGT
62770098 CTCGATGT
1 CTCGATGT
62770106 CTCGATGT
1 CTCGATGT
62770114 CT
1 CT
62770116 TAGGCCAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.27, G:0.23, T:0.38
Consensus pattern (8 bp):
CTCGATGT
Found at i:62777651 original size:141 final size:141
Alignment explanation
Indices: 62777397--62777801 Score: 731
Period size: 141 Copynumber: 2.9 Consensus size: 141
62777387 TTTAGGATTT
62777397 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
*
62777462 ATGCATATGTGTGATAAAGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
62777527 GCCGAATGGCC
131 GCCGAATGGCC
62777538 TATGTGATGAATGTGAACATGCATATATGTGATGAA-GCCGAATGGCCAATGTGATGAATGTGAG
1 TATGTGATGAATGTGAACATGCATATATGTGAT-AAGGCCGAATGGCCAATGTGATGAATGTGAG
* *
62777602 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATGTGAACATGCATATATGTGATGA
65 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAA
62777667 GGCCGAATGGCC
130 GGCCGAATGGCC
* * *
62777679 AATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
*
62777744 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAAATGCATATATG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATG
62777802 CGGTAAAGCC
Statistics
Matches: 254, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
140 2 0.01
141 250 0.98
142 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (141 bp):
TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
GCCGAATGGCC
Found at i:62777782 original size:25 final size:25
Alignment explanation
Indices: 62777707--62777782 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
62777697 ATGCATATAT
62777707 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
62777732 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
62777754 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
62777779 GTGA
1 GTGA
62777783 ATATGAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:62777814 original size:47 final size:47
Alignment explanation
Indices: 62777398--62777801 Score: 639
Period size: 47 Copynumber: 8.6 Consensus size: 47
62777388 TTAGGATTTT
62777398 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
62777445 ATGTGATGAATGTGAGCATGCATATGTGTGATAAAGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
62777492 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
62777539 ATGTGATGAATGTGAACATGCATATATGTGATGAA-GCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGAT-AAGGCCGAATGGCCA
* *
62777586 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
62777633 ATGTGGTGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
62777680 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
62777727 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
62777774 ATGTGGTGAATATGAAAATGCATATATG
1 ATGTGATGAATGTGAACATGCATATATG
62777802 CGGTAAAGCC
Statistics
Matches: 326, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
46 2 0.01
47 322 0.99
48 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Done.