Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 227 of 427
Found at i:64000071 original size:29 final size:29
Alignment explanation
Indices: 63999983--64000062 Score: 133
Period size: 29 Copynumber: 2.7 Consensus size: 29
63999973 TGATTTTTTG
*
63999983 TTCTTGAATCTCAAAAAAAAGAAAAATCCC
1 TTCTTGAATCTCAAAAAAAA-AAAAATCTC
*
64000013 CTCTTGAATCTCAAAAAAAAAAAAATCTC
1 TTCTTGAATCTCAAAAAAAAAAAAATCTC
64000042 TTCTTGAATCTCAAAAAAAAA
1 TTCTTGAATCTCAAAAAAAAA
64000063 TTCTTCTCTC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 28 0.60
30 19 0.40
ACGTcount: A:0.51, C:0.19, G:0.05, T:0.25
Consensus pattern (29 bp):
TTCTTGAATCTCAAAAAAAAAAAAATCTC
Found at i:64007471 original size:25 final size:25
Alignment explanation
Indices: 64007390--64007472 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 25
64007380 ATGTATGCTT
*
64007390 ATACGAGCTATA-AACAGGAAGCTC
1 ATACGAGCTATATAACGGGAAGCTC
* *
64007414 CTCCGAGCTGA-ATAACGGGAAGCTC
1 ATACGAGCT-ATATAACGGGAAGCTC
*
64007439 ATGCGAGCTATATAACGGGAAGCTC
1 ATACGAGCTATATAACGGGAAGCTC
*
64007464 ATAAGAGCT
1 ATACGAGCT
64007473 GTGGTGTGTC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
24 9 0.18
25 40 0.82
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (25 bp):
ATACGAGCTATATAACGGGAAGCTC
Found at i:64014713 original size:25 final size:25
Alignment explanation
Indices: 64014685--64014758 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 25
64014675 CTCCAAGATG
*
64014685 AATAACGGGAAGCTCATGCGAGCTA
1 AATAACGGAAAGCTCATGCGAGCTA
* * *
64014710 AATAATGGAAAGCTCATGTGAGCTG
1 AATAACGGAAAGCTCATGCGAGCTA
* ** *
64014735 TATAATAGAAAGCTCATGTGAGCT
1 AATAACGGAAAGCTCATGCGAGCT
64014759 GTATAACAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (25 bp):
AATAACGGAAAGCTCATGCGAGCTA
Found at i:64014759 original size:25 final size:25
Alignment explanation
Indices: 64014694--64014764 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
64014684 GAATAACGGG
* ** *
64014694 AAGCTCATGCGAGCTAAATAATGGA
1 AAGCTCATGTGAGCTGTATAATAGA
64014719 AAGCTCATGTGAGCTGTATAATAGA
1 AAGCTCATGTGAGCTGTATAATAGA
64014744 AAGCTCATGTGAGCTGTATAA
1 AAGCTCATGTGAGCTGTATAA
64014765 CAGGAAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (25 bp):
AAGCTCATGTGAGCTGTATAATAGA
Found at i:64014776 original size:25 final size:25
Alignment explanation
Indices: 64014694--64014785 Score: 94
Period size: 25 Copynumber: 3.7 Consensus size: 25
64014684 GAATAACGGG
* ** **
64014694 AAGCTCATGCGAGCTAAATAATGGA
1 AAGCTCATGTGAGCTGTATAACAGA
*
64014719 AAGCTCATGTGAGCTGTATAATAGA
1 AAGCTCATGTGAGCTGTATAACAGA
*
64014744 AAGCTCATGTGAGCTGTATAACAGG
1 AAGCTCATGTGAGCTGTATAACAGA
* **
64014769 AAGTTCATAAGAGCTGT
1 AAGCTCATGTGAGCTGT
64014786 GGTGTGTCCG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (25 bp):
AAGCTCATGTGAGCTGTATAACAGA
Found at i:64018555 original size:3 final size:3
Alignment explanation
Indices: 64018288--64018538 Score: 182
Period size: 3 Copynumber: 82.7 Consensus size: 3
64018278 CTATACTTAA
*
64018288 TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
64018336 TAT TAT TAT TAT TAT TAT TAT TAT TA- TATT TAC TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT
* * * *
64018382 AAA TAT TAGT GTA- TAT T-T TAT T-T TAA TAT CAT TA- TAT TAT GT-T
1 TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
64018425 TACT T-T TTT TGAAT T-T CTA- TAT TAT TAT TAT TAT TAT TAT TAT TTT
1 TA-T TAT TAT T--AT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
64018471 TACT TAT TAT TAT TAC TGT TAT GTACA TAT TAT T-T ATAC TA- TACT
1 TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT TAT TAT -TAT TAT TA-T
*
64018516 TAA TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
64018539 CATTTACTAT
Statistics
Matches: 199, Mismatches: 24, Indels: 50
0.73 0.09 0.18
Matches are distributed among these distances:
2 19 0.10
3 158 0.79
4 18 0.09
5 4 0.02
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:64018733 original size:3 final size:3
Alignment explanation
Indices: 64018727--64018799 Score: 94
Period size: 3 Copynumber: 23.7 Consensus size: 3
64018717 CTATTATTGC
*
64018727 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
*
64018776 TAT TA- TATT TAT ATAA TAT TAT TA
1 TAT TAT TA-T TAT -TAT TAT TAT TA
64018800 ATAGGTACTT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.03
3 53 0.85
4 7 0.11
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:64022304 original size:2 final size:2
Alignment explanation
Indices: 64022297--64022337 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
64022287 CTAATACATC
64022297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64022338 TAATAGGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:64023580 original size:6 final size:6
Alignment explanation
Indices: 64023547--64023578 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
64023537 AGTAGAGTAC
*
64023547 GCGAAT GCGAAT GCGAAT GCGAAT GCAAAT GC
1 GCGAAT GCGAAT GCGAAT GCGAAT GCGAAT GC
64023579 AAGGGCTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (6 bp):
GCGAAT
Found at i:64024106 original size:32 final size:33
Alignment explanation
Indices: 64024044--64024106 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
64024034 TTTTTATTTT
*
64024044 TACTTTTAAAATTTAATTTTTTAAAATTATTAA
1 TACTGTTAAAATTTAATTTTTTAAAATTATTAA
*
64024077 TACTGTTAAAA-TT-ATTTTATTAAATTTATT
1 TACTGTTAAAATTTAATTTT-TTAAAATTATT
64024107 GATATAACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 5 0.19
32 12 0.44
33 10 0.37
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.56
Consensus pattern (33 bp):
TACTGTTAAAATTTAATTTTTTAAAATTATTAA
Found at i:64024220 original size:18 final size:16
Alignment explanation
Indices: 64024197--64024230 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
64024187 ACTCAAATCT
64024197 TAAAATTAATATAAAAAA
1 TAAAATT-ATA-AAAAAA
64024215 TAAAATTATAAAAAAA
1 TAAAATTATAAAAAAA
64024231 AGTTGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAATTATAAAAAAA
Found at i:64030170 original size:19 final size:20
Alignment explanation
Indices: 64030146--64030190 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
64030136 TACATGGGTT
64030146 TGTGTTT-TGGACACACGGC
1 TGTGTTTGTGGACACACGGC
* *
64030165 TGTGTTTGGTGGGCACACGGG
1 TGTGTTT-GTGGACACACGGC
64030186 TGTGT
1 TGTGT
64030191 GAGACCCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
21 15 0.68
ACGTcount: A:0.11, C:0.16, G:0.40, T:0.33
Consensus pattern (20 bp):
TGTGTTTGTGGACACACGGC
Found at i:64032949 original size:21 final size:21
Alignment explanation
Indices: 64032908--64032950 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
64032898 CATTTATATA
* *
64032908 TTATTTTATTTTTTATTCTTT
1 TTATTCTATTTTTTATGCTTT
64032929 TTATTCTATTCTTTT-TGCTTT
1 TTATTCTATT-TTTTATGCTTT
64032950 T
1 T
64032951 CTTTCTCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (21 bp):
TTATTCTATTTTTTATGCTTT
Found at i:64034405 original size:58 final size:57
Alignment explanation
Indices: 64034326--64034452 Score: 148
Period size: 57 Copynumber: 2.2 Consensus size: 57
64034316 GTTACTGACG
* * * * * *
64034326 GGATTTAGCCTGGACTGGTAATCTTGATATAATCCC-TCTCGAGCATATGTTACAAAAA
1 GGATTTAGCCTGCACTAGTAATCCTAAT-TAAGCCCTTCT-GAGCATATATTACAAAAA
* *
64034384 GGATTTAGCCTGCACTAGTAATCCTAATTGAGCTCTTCTGAGCATATATTACAAAAA
1 GGATTTAGCCTGCACTAGTAATCCTAATTAAGCCCTTCTGAGCATATATTACAAAAA
*
64034441 AGATTTAGCCTG
1 GGATTTAGCCTG
64034453 AATTGGTAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
57 32 0.54
58 27 0.46
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (57 bp):
GGATTTAGCCTGCACTAGTAATCCTAATTAAGCCCTTCTGAGCATATATTACAAAAA
Found at i:64035213 original size:31 final size:31
Alignment explanation
Indices: 64035175--64035238 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
64035165 GATTATAAAC
*
64035175 ATATGTGTATGTTTTGTTATATCATATTTAG
1 ATATGTGTATGTTTTGTTATACCATATTTAG
64035206 ATATGTGTATGTTTTGTTATACCATATTTAG
1 ATATGTGTATGTTTTGTTATACCATATTTAG
64035237 AT
1 AT
64035239 GTTAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.53
Consensus pattern (31 bp):
ATATGTGTATGTTTTGTTATACCATATTTAG
Found at i:64038076 original size:32 final size:32
Alignment explanation
Indices: 64038035--64038095 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
64038025 CAACTCAACC
*
64038035 AAGTTACAATAAAGAACAAGTATCCATTGACA
1 AAGTTACAATAAAAAACAAGTATCCATTGACA
64038067 AAGTTACAATAAAAAACAAGTATCCATTG
1 AAGTTACAATAAAAAACAAGTATCCATTG
64038096 CCTCGTATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.15, G:0.11, T:0.23
Consensus pattern (32 bp):
AAGTTACAATAAAAAACAAGTATCCATTGACA
Found at i:64045391 original size:48 final size:48
Alignment explanation
Indices: 64045322--64045551 Score: 231
Period size: 48 Copynumber: 4.9 Consensus size: 48
64045312 TAGGGTTATG
*
64045322 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGGTA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* *
64045370 TGTGATCCCATGTAAGACCATGTCTGGGACATCGCATTGGCATTGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * **
64045418 TTTGATCCAATGTAAGACCATATCTGGGATGTGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
* * * * * *
64045466 TGAGA-CATCGTGTAAGACCATAG-CTAGG-C-T---ATTGGCTTCGATC
1 TGTGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATA
* * * *
64045509 TGTGATCCCATGTAAGAGCATATCTGGGATATGGAATTGGCAT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
64045552 TTTACTATGT
Statistics
Matches: 145, Mismatches: 28, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
43 30 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 111 0.77
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
Found at i:64045538 original size:91 final size:94
Alignment explanation
Indices: 64045322--64045551 Score: 256
Period size: 96 Copynumber: 2.5 Consensus size: 94
64045312 TAGGGTTATG
* * * *
64045322 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGGTATGTGATCCCATGTAAGA
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCATGTAAGA
*
64045387 CCATGTCTGGGACATCGCATTGGCATTGATA
66 CCATGTCTAGGACAT--CATTGGCATTGATA
* * * * *
64045418 TTTGATCCAATGTAAGACCATATCTGGGATGTGGCATTGGCATCGATATGAGA-CATCGTGTAAG
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATC-CCATGTAAG
*
64045482 ACCATAG-CTAGG-C-T-ATTGGC-TTCGATC
65 ACCAT-GTCTAGGACATCATTGGCATT-GATA
* *
64045509 TGTGATCCCATGTAAGAGCATATCTGGGATATGGAATTGGCAT
1 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCAT
64045552 TTTACTATGT
Statistics
Matches: 115, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
90 2 0.02
91 47 0.41
94 1 0.01
95 2 0.02
96 62 0.54
97 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (94 bp):
TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGATCCCATGTAAGA
CCATGTCTAGGACATCATTGGCATTGATA
Found at i:64050499 original size:16 final size:18
Alignment explanation
Indices: 64050467--64050499 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
64050457 TTTCCCTTTT
64050467 CTTTACTAAGACCCTCTA
1 CTTTACTAAGACCCTCTA
64050485 CTTTAC-AAG-CCCTCT
1 CTTTACTAAGACCCTCT
64050500 CAACTAGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.24, C:0.36, G:0.06, T:0.33
Consensus pattern (18 bp):
CTTTACTAAGACCCTCTA
Found at i:64052913 original size:43 final size:44
Alignment explanation
Indices: 64052845--64052973 Score: 165
Period size: 43 Copynumber: 3.0 Consensus size: 44
64052835 CATATAGCTC
* * *
64052845 ATACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACAT
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
* *
64052888 AT-CGATGCCAATGTCCCAGACATGGTCTTACATGTAAACACA-
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
** *
64052930 ATACAATGCCAATGTCTTAGACATGGTCCTACATGTAATCACAT
1 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
64052974 CTCGGTAATC
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
42 8 0.11
43 65 0.89
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (44 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
Found at i:64054440 original size:32 final size:32
Alignment explanation
Indices: 64054399--64054462 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
64054389 AGACAGCTCA
64054399 ACAAAGTTACAAAAAAGAACAAGTATCCATTG
1 ACAAAGTTACAAAAAAGAACAAGTATCCATTG
*
64054431 ACAAAGTTACAATAAAGAACAAGTATCCATTG
1 ACAAAGTTACAAAAAAGAACAAGTATCCATTG
64054463 CCTCATATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.20
Consensus pattern (32 bp):
ACAAAGTTACAAAAAAGAACAAGTATCCATTG
Found at i:64058419 original size:15 final size:15
Alignment explanation
Indices: 64058399--64058427 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
64058389 TGTGTACTTG
64058399 AATTTGAAGGTAATT
1 AATTTGAAGGTAATT
64058414 AATTTGAAGGTAAT
1 AATTTGAAGGTAAT
64058428 GGGGAAAAGT
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:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (15 bp):
AATTTGAAGGTAATT
Found at i:64062738 original size:19 final size:19
Alignment explanation
Indices: 64062716--64062752 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
64062706 TCCCACATGG
*
64062716 CCTAGGTATTTCCACACGT
1 CCTAGGCATTTCCACACGT
64062735 CCTAGGCATTTCCACACG
1 CCTAGGCATTTCCACACG
64062753 GCTAAAGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.35, G:0.16, T:0.27
Consensus pattern (19 bp):
CCTAGGCATTTCCACACGT
Found at i:64069035 original size:32 final size:32
Alignment explanation
Indices: 64068999--64069064 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
64068989 ATAAATGAAA
64068999 GTCAATTCTCA-TAAGATAAATATTTCTTACAT
1 GTCAATTCT-ATTAAGATAAATATTTCTTACAT
*
64069031 GTCAATTCTATTGAGATAAATATTTCTTACAT
1 GTCAATTCTATTAAGATAAATATTTCTTACAT
64069063 GT
1 GT
64069065 GTCACGCCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 1 0.03
32 31 0.97
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (32 bp):
GTCAATTCTATTAAGATAAATATTTCTTACAT
Found at i:64071061 original size:47 final size:46
Alignment explanation
Indices: 64071003--64071178 Score: 129
Period size: 47 Copynumber: 3.6 Consensus size: 46
64070993 GCATTGGCAC
*
64071003 TAAGACAAGGATACAATGTAAGACCATGTTTGGAACATGGAATTTGG
1 TAAGATAAGGATAC-ATGTAAGACCATGTTTGGAACATGGAATTTGG
* *** * * *
64071050 TAAGATAAGGATATTATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCT-A
1 TAAGATAAGGATA-CATGTAAGACCATG-TTTGG-A--ACA-TG-GAA-TT-TGG
* * *
64071104 TAAGAAAAGGATACCATGCAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATA-CATGTAAGACCATGTTTGGAACATGGAATTTGG
*
64071151 TAAGATAAGGATATCACGTAAGACCATG
1 TAAGATAAGGATA-CATGTAAGACCATG
64071179 CCAAGGCATG
Statistics
Matches: 96, Mismatches: 23, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
46 1 0.01
47 51 0.53
48 3 0.03
49 3 0.03
50 2 0.02
51 2 0.02
52 3 0.03
53 4 0.04
54 26 0.27
55 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (46 bp):
TAAGATAAGGATACATGTAAGACCATGTTTGGAACATGGAATTTGG
Found at i:64071131 original size:54 final size:54
Alignment explanation
Indices: 64071050--64071353 Score: 227
Period size: 54 Copynumber: 5.8 Consensus size: 54
64071040 TGGAATTTGG
**
64071050 TAAGATAAGGATATTATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGATAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * *** *
64071104 TAAGAAAAGGATACCATGCAAGACCATG-TTTGGAACATGGCATT--T--G----G
1 TAAGATAAGGATACCATGTAAGACCATGCCAAGG--CATGGCATTGATAAGTTCTA
* *
64071151 TAAGATAAGGATATCACGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGATAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* ** * * * * *
64071205 TAAGGTAATTAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGATAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTA
* * * * *
64071260 TAAGGCA-AAGG-TCCCATGTAAAACTATGCCAAGGCATGGCATTGGTTAGTTC-A
1 TAA-G-ATAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
** * * *
64071313 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 TAAGATAAGGATACCATGTAAGACCATGCCAAGGCATGGCA
64071354 ATAGTAAGTT
Statistics
Matches: 191, Mismatches: 43, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
46 9 0.05
47 24 0.13
48 3 0.02
50 1 0.01
51 1 0.01
52 5 0.03
53 31 0.16
54 68 0.36
55 46 0.24
56 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (54 bp):
TAAGATAAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:64071134 original size:101 final size:101
Alignment explanation
Indices: 64071003--64071208 Score: 358
Period size: 101 Copynumber: 2.0 Consensus size: 101
64070993 GCATTGGCAC
* * * *
64071003 TAAGACAAGGATACAATGTAAGACCATGTTTGGAACATGGAATTTGGTAAGATAAGGATATTATG
1 TAAGAAAAGGATACAATGCAAGACCATGTTTGGAACATGGAATTTGGTAAGATAAGGATATCACG
64071068 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* *
64071104 TAAGAAAAGGATACCATGCAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCACG
1 TAAGAAAAGGATACAATGCAAGACCATGTTTGGAACATGGAATTTGGTAAGATAAGGATATCACG
64071169 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
64071205 TAAG
1 TAAG
64071209 GTAATTAAAT
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (101 bp):
TAAGAAAAGGATACAATGCAAGACCATGTTTGGAACATGGAATTTGGTAAGATAAGGATATCACG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:64071228 original size:101 final size:101
Alignment explanation
Indices: 64071003--64071233 Score: 345
Period size: 101 Copynumber: 2.3 Consensus size: 101
64070993 GCATTGGCAC
* * * * *
64071003 TAAGACAAGGATACAATGTAAGACCATGTTTGGAACATGGAATTTGGTAAGATAAGGATATTATG
1 TAAGAAAAGGAAACCATGTAAGACCATGTTTGGAACATGGAATTTGGTAAGATAAGGATATCACG
64071068 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * *
64071104 TAAGAAAAGGATACCATGCAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCACG
1 TAAGAAAAGGAAACCATGTAAGACCATGTTTGGAACATGGAATTTGGTAAGATAAGGATATCACG
64071169 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
** ** *
64071205 TAAGGTAATTAAATCATGTAAGACCATGT
1 TAAGAAAAGGAAACCATGTAAGACCATGT
64071234 CAAGACATGG
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 117 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (101 bp):
TAAGAAAAGGAAACCATGTAAGACCATGTTTGGAACATGGAATTTGGTAAGATAAGGATATCACG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:64071298 original size:55 final size:53
Alignment explanation
Indices: 64071163--64071320 Score: 158
Period size: 55 Copynumber: 2.9 Consensus size: 53
64071153 AGATAAGGAT
* * *
64071163 ATCACGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGTAATTAA
1 ATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAA-TAA
* * * * *
64071217 ATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAA-AG
1 ATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGCAATAA
* * * *
64071270 GTCCCATGTAAAACTATGCCAAGGCATGGCATTGGTTAGTTC-ATAAGGCAA
1 AT--CATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAA
64071321 GGATACCACG
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
53 11 0.12
54 36 0.41
55 41 0.47
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.25
Consensus pattern (53 bp):
ATCATGTAAAACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAATAA
Found at i:64077271 original size:39 final size:39
Alignment explanation
Indices: 64077214--64077394 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
64077204 GTTCAAAACA
* * ** *
64077214 CCTTCGGGACATAGCCCGGTTATGGTAAC-CGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
64077253 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
64077293 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
64077332 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
64077371 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
64077395 CTCAACATTC
Statistics
Matches: 129, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 112 0.87
40 17 0.13
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:64085270 original size:40 final size:39
Alignment explanation
Indices: 64085226--64085407 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
64085216 GTTCAAAACA
* * ** * *
64085226 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
64085266 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
64085306 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
64085345 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
64085384 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
64085408 CTCGAACATT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 89 0.69
40 40 0.31
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:64085337 original size:39 final size:39
Alignment explanation
Indices: 64085256--64085407 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
64085246 TATGGTAACC
* * * *
64085256 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
64085296 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
64085335 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
64085374 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
64085408 CTCGAACATT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:64087808 original size:24 final size:24
Alignment explanation
Indices: 64087776--64087823 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
64087766 TTATTTTGAT
64087776 AAAATTGATAGCAGGAATGAGGAG
1 AAAATTGATAGCAGGAATGAGGAG
64087800 AAAATTGATAGCAGGAATGAGGAG
1 AAAATTGATAGCAGGAATGAGGAG
64087824 TGTACACTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.33, T:0.17
Consensus pattern (24 bp):
AAAATTGATAGCAGGAATGAGGAG
Found at i:64095961 original size:17 final size:17
Alignment explanation
Indices: 64095929--64095961 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
64095919 ATGCCAGGTT
64095929 AATAATAAAATCATCAA
1 AATAATAAAATCATCAA
64095946 AATAACTAAAAT-ATCA
1 AATAA-TAAAATCATCA
64095962 CAGCAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAATAAAATCATCAA
Found at i:64098480 original size:15 final size:15
Alignment explanation
Indices: 64098460--64098491 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
64098450 TTTAGTAATT
64098460 AGACCATTATATTTA
1 AGACCATTATATTTA
64098475 AGACCATTATATTTA
1 AGACCATTATATTTA
64098490 AG
1 AG
64098492 TTTGGACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (15 bp):
AGACCATTATATTTA
Found at i:64099748 original size:47 final size:49
Alignment explanation
Indices: 64099697--64099876 Score: 131
Period size: 47 Copynumber: 3.8 Consensus size: 49
64099687 GAATTGACGG
*
64099697 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCA-T-TGA
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCACTAAGA
* * ** * ** *
64099744 TTAAGGACACCATGCAAGACCACATCAGGATGTGGCATTGGCACTAAGA
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCACTAAGA
* *** *
64099793 -TAAGGATACCATGTAAGACTATGTTTGGAACATGGCATTTGG---TAAGA
1 TTAAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TCGGCACTAAGA
** * *
64099840 -TAAGGATATTATGTAAGACCATGCCAAGGCATGGCAT
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCAT
64099877 TCATAAGTTC
Statistics
Matches: 103, Mismatches: 26, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
45 1 0.01
46 7 0.07
47 61 0.59
48 22 0.21
49 8 0.08
50 4 0.04
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (49 bp):
TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCACTAAGA
Found at i:64099908 original size:101 final size:100
Alignment explanation
Indices: 64099788--64100125 Score: 383
Period size: 101 Copynumber: 3.3 Consensus size: 100
64099778 GCATTGGCAC
* *
64099788 TAAGATAAGGATACCATGTAAGACTATGTTTGGAACATGGCATTTGGTAAGATAAGGATATTATG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
64099853 TAAGACCATGCCAAGGCATGGCATTCATAAGTTCTA
66 TAAGACCATGCCAAGGCAT-GCATTCATAAGTTCTA
64099889 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
*
64099954 TAAGACCATGCCAAGGCATGCATTGATAAGTTCTA
66 TAAGACCATGCCAAGGCATGCATTCATAAGTTCTA
** * * * *** ** *
64099989 TAAGGCAAGGAAATCATGTAAGACCTTGTCAAG-ACATGGCATTGATGAGTTACTATAAGGCAAA
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATT--TG-G-TAAGATAAGG-ATA
** *
64100053 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-A
61 --T--CATGTAAGACCATGCCAAGGCAT-GCATTCATAAGTTCTA
* * *
64100097 TAAGGTAAGGATAACACGTAAGACCATGT
1 TAAGATAAGGATACCATGTAAGACCATGT
64100126 CAAGACATGG
Statistics
Matches: 206, Mismatches: 21, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
99 10 0.05
100 40 0.19
101 84 0.41
102 1 0.00
103 8 0.04
104 2 0.01
106 1 0.00
108 48 0.23
109 12 0.06
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (100 bp):
TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
TAAGACCATGCCAAGGCATGCATTCATAAGTTCTA
Found at i:64100062 original size:55 final size:54
Alignment explanation
Indices: 64099942--64100137 Score: 229
Period size: 53 Copynumber: 3.6 Consensus size: 54
64099932 TTGGTAAGAT
* * *
64099942 AAGGATATCATGTAAGACCATGCCAAGGCAT-GCATTGATAAGTTCTATAAGGC
1 AAGGATAACATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
64099995 AAGGA-AATCATGTAAGACCTTGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATAA-CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
** * * *
64100050 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGT
1 -AAGGATAACATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
64100103 AAGGATAACACGTAAGACCATGTCAAGACATGGCA
1 AAGGATAACATGTAAGACCATGCCAAGACATGGCA
64100138 ATGGTAAGTT
Statistics
Matches: 120, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 5 0.04
53 56 0.47
54 13 0.11
55 42 0.35
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATAACATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:64101219 original size:21 final size:21
Alignment explanation
Indices: 64101193--64101236 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
64101183 GTTTGAAATT
64101193 GAAATTGAGAATTACAAACGA
1 GAAATTGAGAATTACAAACGA
64101214 GAAATTGAGAATTACAAACGA
1 GAAATTGAGAATTACAAACGA
64101235 GA
1 GA
64101237 TTAAGATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.20, T:0.18
Consensus pattern (21 bp):
GAAATTGAGAATTACAAACGA
Found at i:64101825 original size:13 final size:14
Alignment explanation
Indices: 64101798--64101828 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
64101788 AAATTTGTGA
64101798 TATGAATAGATGAT
1 TATGAATAGATGAT
64101812 TATGAATAGA-GAT
1 TATGAATAGATGAT
64101825 TATG
1 TATG
64101829 TGTATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (14 bp):
TATGAATAGATGAT
Found at i:64103884 original size:40 final size:40
Alignment explanation
Indices: 64103787--64103993 Score: 262
Period size: 40 Copynumber: 5.2 Consensus size: 40
64103777 TGAATGATAC
* *
64103787 CCGGGCTAAGCCCCGAAGGCATTTATGCT-AG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTG-TTATAT
64103827 CC-GGCTAAGACCCGAAGGCATTTGTGTGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTTATAT
*
64103866 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTTATAT
* * *
64103906 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTTATAT
* * * *
64103946 CCGGGTTAAGACCCGAAGGCAATTGTGCT-TGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTGTTATAT
64103986 CC-GGCTAA
1 CCGGGCTAA
64103994 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 37 0.25
40 112 0.75
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTTATAT
Found at i:64103950 original size:80 final size:79
Alignment explanation
Indices: 64103783--64103993 Score: 307
Period size: 80 Copynumber: 2.7 Consensus size: 79
64103773 CATTTGAATG
* *
64103783 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGCTAAGACCCGAAGGCA
* *
64103847 TTTGTGTGAGTTGTT
65 TTTGTGCGAGTTGCT
* *
64103862 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCC-GGCTAAGACCCGAAGGCA
64103927 TTTGTGCGAGTTGCT
65 TTTGTGCGAGTTGCT
* * * *
64103942 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGGCTAA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGCTAA
64103994 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 45 0.38
80 73 0.62
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCT
Found at i:64107086 original size:40 final size:40
Alignment explanation
Indices: 64107027--64107195 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
64107017 CGGGACTTTA
* * *
64107027 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
64107067 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
64107107 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
64107147 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
64107187 CCCGGATAT
1 CCCGGATAT
64107196 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:64110579 original size:84 final size:84
Alignment explanation
Indices: 64110433--64110608 Score: 298
Period size: 84 Copynumber: 2.1 Consensus size: 84
64110423 ACTATTATGA
* *
64110433 ATGTTAGAACTATTTAAGAATGTTTGCAAATATTTTGGATTTTTTTGGCTATAAACGGTGCAAAT
1 ATGTTATAACTATTTAAGAATGTTTGCAAATATTTTGGATTTTTTTGGCTATAAACGATGCAAAT
*
64110498 TTATTTTTAATTTCATTTG
66 TTATTTTCAATTTCATTTG
* * *
64110517 ATGTTATAACTATTTAGGAATGTTTGCAGATATTTTGGATTTTTTTGGCTATAAATGATGCAAAT
1 ATGTTATAACTATTTAAGAATGTTTGCAAATATTTTGGATTTTTTTGGCTATAAACGATGCAAAT
64110582 TTATTTTCAATTTCATTTG
66 TTATTTTCAATTTCATTTG
64110601 ATGTTATA
1 ATGTTATA
64110609 TTTCATCATT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (84 bp):
ATGTTATAACTATTTAAGAATGTTTGCAAATATTTTGGATTTTTTTGGCTATAAACGATGCAAAT
TTATTTTCAATTTCATTTG
Found at i:64113466 original size:2 final size:2
Alignment explanation
Indices: 64113459--64113490 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
64113449 TATCTCATTT
64113459 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64113491 AATAAGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:64114849 original size:63 final size:63
Alignment explanation
Indices: 64114777--64114906 Score: 251
Period size: 63 Copynumber: 2.1 Consensus size: 63
64114767 ATCTTTTCGA
*
64114777 ATTTCCTTAATTCTCATTTATTACGTTGAGTTTTCTCATAAATTTTCTACTCTCTGTTTTTCT
1 ATTTCCTTAATTCTCATTTATTACGTTGAGTTTTCTCATAAAATTTCTACTCTCTGTTTTTCT
64114840 ATTTCCTTAATTCTCATTTATTACGTTGAGTTTTCTCATAAAATTTCTACTCTCTGTTTTTCT
1 ATTTCCTTAATTCTCATTTATTACGTTGAGTTTTCTCATAAAATTTCTACTCTCTGTTTTTCT
64114903 ATTT
1 ATTT
64114907 TGTACGTAGT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.20, C:0.18, G:0.06, T:0.55
Consensus pattern (63 bp):
ATTTCCTTAATTCTCATTTATTACGTTGAGTTTTCTCATAAAATTTCTACTCTCTGTTTTTCT
Found at i:64130628 original size:15 final size:16
Alignment explanation
Indices: 64130606--64130651 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
64130596 GAGAAGAAAC
64130606 GTGAAAAGGGGGAGTG
1 GTGAAAAGGGGGAGTG
**
64130622 G-GAAAAGTTGGA-TG
1 GTGAAAAGGGGGAGTG
*
64130636 GTAAAAAGGGGGAGTG
1 GTGAAAAGGGGGAGTG
64130652 ATTTTAGGGA
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
14 3 0.13
15 17 0.74
16 3 0.13
ACGTcount: A:0.35, C:0.00, G:0.50, T:0.15
Consensus pattern (16 bp):
GTGAAAAGGGGGAGTG
Found at i:64133551 original size:3 final size:3
Alignment explanation
Indices: 64133484--64133532 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
64133474 TTAACTAAAA
64133484 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
64133532 T
1 T
64133533 TACATTTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:64141127 original size:24 final size:24
Alignment explanation
Indices: 64141059--64141116 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
64141049 TACCGATCAA
*
64141059 GATGCTC-ACAGGAACTATATAACAG
1 GATGCTCGACA-GAGCT-TATAACAG
*
64141084 GATGCTCGAGAGAGCTTATAACAG
1 GATGCTCGACAGAGCTTATAACAG
64141108 GATTGCTCG
1 GA-TGCTCG
64141117 TCCGAGCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 10 0.34
25 17 0.59
26 2 0.07
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (24 bp):
GATGCTCGACAGAGCTTATAACAG
Found at i:64145655 original size:20 final size:20
Alignment explanation
Indices: 64145630--64145669 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
64145620 GAGAGTCTAC
64145630 ATAGATTACAGGAAGTTAAA
1 ATAGATTACAGGAAGTTAAA
*
64145650 ATAGATTACATGAAGTTAAA
1 ATAGATTACAGGAAGTTAAA
64145670 TTCTTTAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.28
Consensus pattern (20 bp):
ATAGATTACAGGAAGTTAAA
Found at i:64151910 original size:3 final size:3
Alignment explanation
Indices: 64151904--64151978 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
64151894 TTTTTCCTTT
64151904 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
64151952 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
64151979 CCCAACTCTC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:64153677 original size:46 final size:46
Alignment explanation
Indices: 64153624--64153799 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
64153614 TATTTGGGCA
*
64153624 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
64153670 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
64153717 TCCGAACTCGTTGAGTTGATTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
64153763 CCCGAGCTCGTCGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64153800 GAGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:64153779 original size:93 final size:93
Alignment explanation
Indices: 64153620--64153791 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
64153610 AGGATATTTG
* * * *
64153620 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTCGAG
64153685 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
64153713 GGCATCCGAACTCGTTGAGTTGATTCTGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTCGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTCGAG
64153778 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
64153792 ACTTATGGGA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTCGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:64159840 original size:21 final size:20
Alignment explanation
Indices: 64159816--64159854 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
64159806 TCATAGTGAA
*
64159816 CCACACGGGCGTGTTGCCCGT
1 CCACACGAGCGTG-TGCCCGT
64159837 CCACACGAGCGTGTGCCC
1 CCACACGAGCGTGTGCCC
64159855 TATTTCAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.13, C:0.41, G:0.31, T:0.15
Consensus pattern (20 bp):
CCACACGAGCGTGTGCCCGT
Found at i:64166287 original size:49 final size:47
Alignment explanation
Indices: 64166175--64166347 Score: 163
Period size: 47 Copynumber: 3.6 Consensus size: 47
64166165 GAGGTGTCAG
* * * *
64166175 TGTAAGACCATGTTTGGGACATGGCATCAGCAC-GGATATG-TGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATC-G-ACTCGAT-TGAT--GAGCCAA
* * * *
64166225 TGTAAGACCATGTCTGGGACATGGCGTTGGCCTCGATTTTGAT-AGTCAA
1 TGTAAGACCATGTCTGGGACATGGC-ATCGACTCGA--TTGATGAGCCAA
* *
64166274 TGTAAGACCATGTCTGGGACATGGCATCGACTTGATTGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACTCGATTGATGAGCCAA
64166321 TGTAAGACCATGTCTGGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
64166348 AGCATTATAC
Statistics
Matches: 103, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
46 5 0.05
47 31 0.30
48 6 0.06
49 29 0.28
50 27 0.26
51 3 0.03
52 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACTCGATTGATGAGCCAA
Found at i:64166292 original size:99 final size:96
Alignment explanation
Indices: 64166170--64166345 Score: 257
Period size: 96 Copynumber: 1.8 Consensus size: 96
64166160 GTATAGAGGT
* * *
64166170 GTCAGTGTAAGACCATGTTTGGGACATGGCATCAGCACGGAT-ATGTGA-GAGCTAGTGTAAGAC
1 GTCAATGTAAGACCATGTCTGGGACATGGCATC-G-AC--ATGAT-TGATGAGCCAGTGTAAGAC
64166233 CATGTCTGGGACATGGCGTTGGCCTCGATTTTGATA
61 CATGTCTGGGACATGGCGTTGGCCTCGATTTTGATA
*
64166269 GTCAATGTAAGACCATGTCTGGGACATGGCATCGACTTGATTGATGAGCCAGTGTAAGACCATGT
1 GTCAATGTAAGACCATGTCTGGGACATGGCATCGACATGATTGATGAGCCAGTGTAAGACCATGT
64166334 CTGGGACATGGC
66 CTGGGACATGGC
64166346 ATAGCATTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
95 4 0.06
96 33 0.46
97 2 0.03
98 1 0.01
99 31 0.44
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (96 bp):
GTCAATGTAAGACCATGTCTGGGACATGGCATCGACATGATTGATGAGCCAGTGTAAGACCATGT
CTGGGACATGGCGTTGGCCTCGATTTTGATA
Found at i:64169118 original size:93 final size:93
Alignment explanation
Indices: 64169004--64169174 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
64168994 GCCCATAAGT
* *
64169004 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64169069 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
64169097 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
64169162 CGAGTTCGGATGC
66 CGAGTTCGGATGC
64169175 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:64169190 original size:46 final size:46
Alignment explanation
Indices: 64168996--64169176 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
64168986 TGTAACCCGC
* * *
64168996 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
64169042 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
64169092 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
64169135 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
64169177 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:64172447 original size:48 final size:48
Alignment explanation
Indices: 64172373--64172555 Score: 200
Period size: 48 Copynumber: 3.9 Consensus size: 48
64172363 TAGGGTTATG
*
64172373 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
*
64172421 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATA
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
* * * * * * *
64172469 TGAGA-CATCGTGTAAGACCATAGCT-GGTCTAT--CA---GCTTCGATC
1 TGTGATC-CCATGTAAGACCATATCTGGGAC-ATGGCATTGGCATCGATA
* *
64172512 TATGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATC
64172556 TTACTACGTG
Statistics
Matches: 108, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
43 27 0.25
44 3 0.03
45 2 0.02
46 2 0.02
47 3 0.03
48 71 0.66
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATA
Found at i:64177078 original size:29 final size:29
Alignment explanation
Indices: 64177046--64177147 Score: 159
Period size: 29 Copynumber: 3.5 Consensus size: 29
64177036 CTTCGAGCTC
* *
64177046 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTCAGTGCCATATATTTCCAGCAT
*
64177075 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTCAGTGCCATATATTTCCAGCAT
*
64177104 GCACACTCAGTGCCATATATTTCCAGCAC
1 GCACACTCAGTGCCATATATTTCCAGCAT
*
64177133 GCACACTTAGTGCCA
1 GCACACTCAGTGCCA
64177148 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
GCACACTCAGTGCCATATATTTCCAGCAT
Found at i:64177079 original size:58 final size:58
Alignment explanation
Indices: 64177016--64177147 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
64177006 GATTTAAGCC
* * * *
64177016 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * *
64177074 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
64177132 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
64177148 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 63 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:64185053 original size:29 final size:29
Alignment explanation
Indices: 64185021--64185122 Score: 159
Period size: 29 Copynumber: 3.5 Consensus size: 29
64185011 CTTCGAGCTC
* *
64185021 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTCAGTGCCATATATTTCCAGCAT
*
64185050 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTCAGTGCCATATATTTCCAGCAT
*
64185079 GCACACTCAGTGCCATATATTTCCAGCAC
1 GCACACTCAGTGCCATATATTTCCAGCAT
*
64185108 GCACACTTAGTGCCA
1 GCACACTCAGTGCCA
64185123 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
GCACACTCAGTGCCATATATTTCCAGCAT
Found at i:64185054 original size:58 final size:58
Alignment explanation
Indices: 64184991--64185122 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
64184981 GATTTAAGCC
* * * *
64184991 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * *
64185049 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
64185107 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
64185123 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 63 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:64193048 original size:28 final size:29
Alignment explanation
Indices: 64192993--64193085 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
64192983 TCGCACACCC
*
64192993 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
64193022 AGTGCCATATATTT-CAGCATGCACACTC
1 AGTGCCATATATTTCCAGCATGCACACTT
*
64193050 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
64193079 AGTGCCA
1 AGTGCCA
64193086 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
28 27 0.46
29 32 0.54
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:64193104 original size:57 final size:57
Alignment explanation
Indices: 64192986--64193104 Score: 150
Period size: 57 Copynumber: 2.1 Consensus size: 57
64192976 TTCGAGCTCG
* * * * *
64192986 CACACCCAGTGCCGTATATTTCCAGCATGCACACTTAGTGCCATATATTTCAGCATG
1 CACACCCAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATGTCACCATA
* * *
64193043 CACACTCAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA-ATCTCGTCACCGTA
1 CACACCCAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATAT-GTCACCATA
64193100 CACAC
1 CACAC
64193105 GTATTGCCCG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
56 3 0.06
57 50 0.94
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.25
Consensus pattern (57 bp):
CACACCCAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATGTCACCATA
Found at i:64201927 original size:48 final size:48
Alignment explanation
Indices: 64201857--64202179 Score: 447
Period size: 48 Copynumber: 6.7 Consensus size: 48
64201847 CCGTGCTGAA
* *
64201857 TGTGCCTGTGTAAGACCATGTCTGGGACAAGGCATCGGCGATGATATA
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
*
64201905 TGTGCCTGTGTAAGACCATGTCTGGGTCATGGCATCGGCGATGATATG
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
*
64201953 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATG
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* * *
64202001 TGTGCCTATGTAAGACCATGTCTGGGAAATGGCATCGGTGATGATATG
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* *
64202049 TGTGCCAGTGTAAGACCATG-CTTGGGACATGGCATCGGCAATGATATG
1 TGTGCCTGTGTAAGACCATGTC-TGGGACATGGCATCGGCGATGATATG
* * * *
64202097 TGTGCCAGTGTAAGACCATGTTTGGGACATGGCATTGACGATGATATG
1 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* *
64202145 TGAAT-TC-ATGTAAGACCATGTC-GAGGACATGGCAT
1 TG--TGCCTGTGTAAGACCATGTCTG-GGACATGGCAT
64202180 TGGTACTTTA
Statistics
Matches: 251, Mismatches: 19, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
47 2 0.01
48 247 0.98
49 1 0.00
50 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (48 bp):
TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
Found at i:64213996 original size:16 final size:15
Alignment explanation
Indices: 64213959--64213997 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
64213949 TAATACACTT
*
64213959 TTTATATATTTTTAA
1 TTTATATATTTTAAA
64213974 TTATATATATTTATAAA
1 TT-TATATATTT-TAAA
64213991 TTTATAT
1 TTTATAT
64213998 TATATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 14 0.67
17 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTATATATTTTAAA
Found at i:64215549 original size:37 final size:38
Alignment explanation
Indices: 64215507--64215578 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
64215497 TTATGTTTAT
*
64215507 AATAAAAATTTAATTAGGTAAA-AAAATTTAAAAATTA
1 AATAAAAATTTAATTAGATAAATAAAATTTAAAAATTA
** *
64215544 AATAAATGTTTAATTAGATAAATAGAATTTAAAAA
1 AATAAAAATTTAATTAGATAAATAAAATTTAAAAA
64215579 AAACTATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 19 0.63
38 11 0.37
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (38 bp):
AATAAAAATTTAATTAGATAAATAAAATTTAAAAATTA
Found at i:64216917 original size:42 final size:42
Alignment explanation
Indices: 64216870--64216953 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
64216860 TTTTTACTTA
* * *
64216870 ATTAAATACTTAAATTGTAAAAATATATCAATTAAATTATTT
1 ATTAAATACTTAAATTATAAAAATACATCAATTAAATCATTT
* *
64216912 ATTAAATATTTAAATTATGAAAATACATCAATTAAATCATTT
1 ATTAAATACTTAAATTATAAAAATACATCAATTAAATCATTT
64216954 GAACATTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (42 bp):
ATTAAATACTTAAATTATAAAAATACATCAATTAAATCATTT
Found at i:64217157 original size:19 final size:18
Alignment explanation
Indices: 64217114--64217157 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
64217104 AAAATGAATA
64217114 TATAAAAATTATCAAAAT
1 TATAAAAATTATCAAAAT
* *
64217132 T-TAAAAATATTTGAAAAT
1 TATAAAAAT-TATCAAAAT
64217150 TATAAAAA
1 TATAAAAA
64217158 GAATAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 7 0.32
18 9 0.41
19 6 0.27
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
TATAAAAATTATCAAAAT
Found at i:64224076 original size:24 final size:24
Alignment explanation
Indices: 64224049--64224094 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
64224039 TTATAGGAAA
64224049 ATTTCTAAAATTAAAAAAATTGAT
1 ATTTCTAAAATTAAAAAAATTGAT
* * *
64224073 ATTTTTAAATTTATAAAAATTG
1 ATTTCTAAAATTAAAAAAATTG
64224095 TAGCATTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (24 bp):
ATTTCTAAAATTAAAAAAATTGAT
Found at i:64225010 original size:60 final size:59
Alignment explanation
Indices: 64224946--64225063 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 59
64224936 TAAAAAAATC
** *
64224946 AATAAATTCAGACCTCAATGTTTACAAAATTTGTCAATTTAGTTTGAATTCTAAAAATTA
1 AATAAATTCAGACCTCAACATTTAC-AAATTGGTCAATTTAGTTTGAATTCTAAAAATTA
* * * * *
64225006 AATAAATTTAGCCCTTAACATTTACAAATTGGTCGATTTAGTTTTAATTCTAAAAATT
1 AATAAATTCAGACCTCAACATTTACAAATTGGTCAATTTAGTTTGAATTCTAAAAATT
64225064 TCAAAAAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
59 30 0.60
60 20 0.40
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (59 bp):
AATAAATTCAGACCTCAACATTTACAAATTGGTCAATTTAGTTTGAATTCTAAAAATTA
Found at i:64227395 original size:17 final size:17
Alignment explanation
Indices: 64227373--64227406 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
64227363 GCTCGGGGAT
64227373 TGTCAGCAAAGTCTATC
1 TGTCAGCAAAGTCTATC
64227390 TGTCAGCAAAGTCTATC
1 TGTCAGCAAAGTCTATC
64227407 ACACTATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (17 bp):
TGTCAGCAAAGTCTATC
Found at i:64227995 original size:2 final size:2
Alignment explanation
Indices: 64227988--64228018 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
64227978 ATGCTACGTG
64227988 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
64228019 GCATTAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:64234711 original size:46 final size:46
Alignment explanation
Indices: 64234564--64234731 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 46
64234554 ATTGTGAACT
* * * * *
64234564 AGTGTAAGACATGTCTAGGACATGCAAT-GGCCAC-ATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGC-ATCGGCCTCGA-GACGAGAGCC
* * * * *
64234610 TGTGTAAGACTATGTCTGGGACATGGCATCGGCTTTGAGACGAGTGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGACGAGAGCC
*
64234658 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGAGCC
*
64234704 AGTGTAAGACATGTCTGGGATATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
64234732 AGCTACGAGA
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
46 51 0.50
47 28 0.28
48 21 0.21
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGCC
Found at i:64234741 original size:46 final size:45
Alignment explanation
Indices: 64234611--64234780 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 45
64234601 ATGAGAGCTT
* * *
64234611 GTGTAAGACTATGTCTGGGACATGGCATCGGCTTTGAGACGAGTGCTA
1 GTGTAAGAC-ATGTCTGGGACAT-GCATCGGC-TCGAGACGAGAGCCA
*
64234659 GTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACGTA-AGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGACG-AGAGCCA
* * * * *
64234705 GTGTAAGACATGTCTGGGATATGCATCAGCTACGAGA--TGTGTCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGACGAGAGCCA
* *
64234749 ATGTAAGACCATTTCTGGGACATGGCATCGGC
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGC
64234781 ATAGATATGC
Statistics
Matches: 102, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
44 10 0.10
45 14 0.14
46 54 0.53
47 15 0.15
48 9 0.09
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (45 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCTCGAGACGAGAGCCA
Found at i:64241342 original size:20 final size:20
Alignment explanation
Indices: 64241317--64241361 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
64241307 ACAAATCATT
*
64241317 TGATATCTCAACTCATATGA
1 TGATATCTCAACTCAAATGA
64241337 TGATATCTCAACTCAAATGA
1 TGATATCTCAACTCAAATGA
64241357 TGATA
1 TGATA
64241362 CATTCCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (20 bp):
TGATATCTCAACTCAAATGA
Found at i:64243942 original size:32 final size:32
Alignment explanation
Indices: 64243901--64243970 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
64243891 AATTATGACA
*
64243901 CATAACCAAAATAACTAAGTCCCTATACATGT
1 CATAACCAAAATAAATAAGTCCCTATACATGT
64243933 CATAACCAAAATAAATAAGTCCCTATACATGT
1 CATAACCAAAATAAATAAGTCCCTATACATGT
64243965 CATAAC
1 CATAAC
64243971 TCAGAATGTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.24
Consensus pattern (32 bp):
CATAACCAAAATAAATAAGTCCCTATACATGT
Found at i:64244480 original size:43 final size:42
Alignment explanation
Indices: 64244401--64244526 Score: 121
Period size: 43 Copynumber: 3.0 Consensus size: 42
64244391 GGAATCGTAC
* * * * * *
64244401 CAATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTAT
1 CAATGCCATAACCTAAATATGGTCTTACACGAAATCTCATAT
*
64244443 CAATGCCAATAACC-AAACTATGGTCTTACACGAAATCTAATAT
1 CAATGCC-ATAACCTAAA-TATGGTCTTACACGAAATCTCATAT
* * *
64244486 CGATGCCATATCCTAGATATGGTCTTACAC-AAAGTCTCATA
1 CAATGCCATAACCTAAATATGGTCTTACACGAAA-TCTCATA
64244527 CTGATGCCAT
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
41 3 0.04
42 33 0.47
43 34 0.49
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (42 bp):
CAATGCCATAACCTAAATATGGTCTTACACGAAATCTCATAT
Found at i:64244515 original size:42 final size:42
Alignment explanation
Indices: 64244403--64244556 Score: 163
Period size: 42 Copynumber: 3.6 Consensus size: 42
64244393 AATCGTACCA
* * * *
64244403 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
64244445 ATGCCA-ATAACCAAACTATGGTCTTACACGAAATCTAATATCG
1 ATGCCATAT-CCCAGA-TATGGTCTTACACGAAATCTCATATCG
*
64244488 ATGCCATATCCTAGATATGGTCTTACAC-AAAGTCTCATA-CTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAA-TCTCATATC-G
64244530 ATGCCATATCCCAGCA-ATGGTCTTACA
1 ATGCCATATCCCAG-ATATGGTCTTACA
64244557 TATAGTTTCA
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 6 0.06
42 54 0.57
43 32 0.34
44 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:64249201 original size:40 final size:39
Alignment explanation
Indices: 64249036--64249219 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
64249026 AAATTGAATG
* * *
64249036 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
64249076 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
64249116 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
64249156 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
64249195 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
64249220 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:64249244 original size:80 final size:81
Alignment explanation
Indices: 64249076--64249264 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
64249066 GCTGGAAATT
* * * *
64249076 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
64249141 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
64249157 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
64249220 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
64249236 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
64249265 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:64262798 original size:20 final size:20
Alignment explanation
Indices: 64262773--64262817 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
64262763 ACAAATCATT
64262773 TGATATCTCAACTCATATAA
1 TGATATCTCAACTCATATAA
*
64262793 TGATATCTCAACTCATATGA
1 TGATATCTCAACTCATATAA
64262813 TGATA
1 TGATA
64262818 CATTCCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (20 bp):
TGATATCTCAACTCATATAA
Found at i:64264397 original size:40 final size:40
Alignment explanation
Indices: 64264269--64264420 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
64264259 ATAACCACGT
* * *
64264269 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
* ** *
64264309 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
64264349 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
64264389 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
64264421 CATTCAATTT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 2 0.02
40 88 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:64264403 original size:80 final size:80
Alignment explanation
Indices: 64264269--64264418 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
64264259 ATAACCACGT
* *
64264269 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
64264334 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
64264349 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
64264412 CCCGGAT
64 CCCGGAT
64264419 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:64268385 original size:40 final size:40
Alignment explanation
Indices: 64268258--64268387 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
64268248 ATGCTGGAAA
* *
64268258 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
64268298 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
64268338 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
64268378 TTATATCCGG
1 TTATATCCGG
64268388 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:64273300 original size:40 final size:40
Alignment explanation
Indices: 64273255--64273421 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
64273245 CGGAATATAA
64273255 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
64273295 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
64273335 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
64273375 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
64273414 CCGGATAT
1 CCGGATAT
64273422 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:64273405 original size:80 final size:79
Alignment explanation
Indices: 64273271--64273421 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
64273261 ATAATCACGT
*
64273271 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
64273336 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
64273351 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
64273414 CCGGATAT
64 CCGGATAT
64273422 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:64287636 original size:71 final size:71
Alignment explanation
Indices: 64287548--64287711 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
64287538 GAGATGTATC
64287548 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
64287613 AGGACA
66 AGGACA
*
64287619 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
64287684 CGGACA
66 AGGACA
64287690 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
64287712 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:64293235 original size:18 final size:18
Alignment explanation
Indices: 64293212--64293246 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
64293202 TCGTAACGTT
64293212 GTGTTGTTTGGAAAACAA
1 GTGTTGTTTGGAAAACAA
*
64293230 GTGTTGTTTTGAAAACA
1 GTGTTGTTTGGAAAACA
64293247 CGTCCCATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (18 bp):
GTGTTGTTTGGAAAACAA
Found at i:64293861 original size:26 final size:26
Alignment explanation
Indices: 64293800--64293931 Score: 162
Period size: 26 Copynumber: 5.2 Consensus size: 26
64293790 GGCCTGGCCT
* *
64293800 CTTTT-AAT-AACTAGGGCAAAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
** * *
64293824 C-TTTCGGTAAACTGGGGTATAAGAC
1 CTTTTCAATAAACTGGGGCATAAGCC
*
64293849 CTTTTCAATAAACTAGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
**
64293875 CTTTTCGGTAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
64293901 CTTTTCAATAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCC
64293927 CTTTT
1 CTTTT
64293932 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
23 3 0.03
24 2 0.02
25 13 0.15
26 71 0.80
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (26 bp):
CTTTTCAATAAACTGGGGCATAAGCC
Found at i:64293898 original size:52 final size:52
Alignment explanation
Indices: 64293800--64293931 Score: 207
Period size: 52 Copynumber: 2.6 Consensus size: 52
64293790 GGCCTGGCCT
* *
64293800 CTTTT-AAT-AACTAGGGCAAAAGCCC-TTTCGGTAAACTGGGGTATAAGAC
1 CTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGAC
*
64293849 CTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCC
1 CTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGAC
*
64293901 CTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 CTTTTCAATAAACTAGGGCATAAGCCCTTTT
64293932 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
49 5 0.07
50 3 0.04
51 16 0.21
52 52 0.68
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (52 bp):
CTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGAC
Found at i:64294006 original size:20 final size:20
Alignment explanation
Indices: 64293981--64294055 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
64293971 TTATGAATAC
*
64293981 ATCATGTGCGTATCATACAT
1 ATCATGTGCATATCATACAT
* * *
64294001 ATCATGTGCATTTTATACCT
1 ATCATGTGCATATCATACAT
*
64294021 ATCATGTGAATATCATATCA-
1 ATCATGTGCATATCATA-CAT
64294041 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
64294056 TCCCACGTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 8 0.17
20 37 0.80
21 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:64295919 original size:207 final size:207
Alignment explanation
Indices: 64295478--64296163 Score: 1078
Period size: 207 Copynumber: 3.3 Consensus size: 207
64295468 AGAATATTCC
*
64295478 GTCCTCCGTCAAATATGGAGACGCTAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAAT
1 GTCCTCCGTCAAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAAT
* * * *
64295543 CATCTTAGACTTGCTTC-A-GCATAAGCACGCGAAAACCAAATTAGCTATGTCTTCGATTTGCTC
66 CATCTTAGACTTGCTTCAACGCA-AA-CACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTC
* * *
64295606 CTTGTAAG--CAAGGATGCCAAATCATCTTAGATCTTGCTTTAGTACAAACATCTGAAGGCCAGA
129 CTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGA
* *
64295669 TCTACTATGTATCT
194 TCTGCTATGTGTCT
* *
64295683 GCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAAT
1 GTCCTCCGTCAAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAAT
* *
64295748 CATCTTAGACTTGCTTCAACGCAAACACGTGAAAGCCAAATCAGCTATATCTTTGATTTGTTCCT
66 CATCTTAGACTTGCTTCAACGCAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCT
* * * *
64295813 TGCAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAGTATAAACATCTAAAGGCAAGATC
131 TGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATC
64295878 TGCTATGTGTCT
196 TGCTATGTGTCT
64295890 GTCCTCCGTCAAATATGGAGACGCCAAACTTTC-ATTTGTTCTCTGACAATACAGAGATGCCAAA
1 GTCCTCCGTCAAATATGGAGACGCCAAAC-TTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
* *
64295954 TCACCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCC
65 TCATCTTAGACTTGCTTCAACGCAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCC
64296019 TTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGAT
130 TTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGAT
64296084 CTGCTATGTGTCT
195 CTGCTATGTGTCT
* * * *
64296097 G-CCTTCCGTCGAATATGGAGACGCCAAACCTCGATTTGTTCTCTGAAAATACAGAGATACCAAA
1 GTCC-TCCGTCAAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
64296161 TCA
65 TCA
64296164 GCTATTTCTT
Statistics
Matches: 442, Mismatches: 32, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
205 118 0.27
206 7 0.02
207 314 0.71
208 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (207 bp):
GTCCTCCGTCAAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAAT
CATCTTAGACTTGCTTCAACGCAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCT
TGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATC
TGCTATGTGTCT
Found at i:64308356 original size:15 final size:15
Alignment explanation
Indices: 64308263--64308357 Score: 52
Period size: 16 Copynumber: 6.1 Consensus size: 15
64308253 TTACTAATTT
*
64308263 TATAAATAAAATATA
1 TATAAATAATATATA
* *
64308278 -AT-AATATTTTATAA
1 TATAAATAATATAT-A
*
64308292 TATAATTAATGATATA
1 TATAAATAAT-ATATA
*
64308308 TATGAA-AATGATATA
1 TATAAATAAT-ATATA
* *
64308323 TTCTAAAATCATATAATA
1 -TAT-AAATAATAT-ATA
64308341 TATAAATAATATATA
1 TATAAATAATATATA
64308356 TA
1 TA
64308358 ACGAATATAT
Statistics
Matches: 59, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
13 7 0.12
14 3 0.05
15 16 0.27
16 19 0.32
17 9 0.15
18 5 0.08
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (15 bp):
TATAAATAATATATA
Found at i:64308447 original size:17 final size:18
Alignment explanation
Indices: 64308392--64308458 Score: 61
Period size: 17 Copynumber: 3.8 Consensus size: 18
64308382 AATGTATAGT
64308392 AAAATAAATAATATAA-A
1 AAAATAAATAATATAACA
* *
64308409 AATACATATAA-CATATAGCA
1 AA-A-ATA-AATAATATAACA
64308429 AAAATAAA-AATATAAC-
1 AAAATAAATAATATAACA
64308445 AAAATAAATAATAT
1 AAAATAAATAATAT
64308459 GTATAATGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
16 8 0.20
17 15 0.37
18 4 0.10
19 9 0.22
20 5 0.12
ACGTcount: A:0.69, C:0.06, G:0.01, T:0.24
Consensus pattern (18 bp):
AAAATAAATAATATAACA
Found at i:64308587 original size:27 final size:31
Alignment explanation
Indices: 64308533--64308589 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
64308523 ATAATAAAAT
*
64308533 AATATATACTATATTATAACTAATATTAAAG
1 AATATATACTATATTATAAATAATATTAAAG
64308564 AATATATA-TATA-TA-AAATAA-ATTAAA
1 AATATATACTATATTATAAATAATATTAAA
64308590 ATTTAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 6 0.24
28 5 0.20
29 2 0.08
30 4 0.16
31 8 0.32
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (31 bp):
AATATATACTATATTATAAATAATATTAAAG
Found at i:64319904 original size:27 final size:27
Alignment explanation
Indices: 64319876--64319965 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
64319866 GGAAAAATGG
* * * *
64319876 TAATTTTACCCCACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
*
64319903 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGA
64319930 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
64319957 TAATTCTAC
1 TAATTCTAC
64319966 AACTTATCCA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:64322429 original size:29 final size:28
Alignment explanation
Indices: 64322361--64322430 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 28
64322351 TACCTGTATC
* *
64322361 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
64322389 TGGCCCACTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
*
64322418 TGGCCCGTTAGGC
1 TGGCCCATTAGGC
64322431 TTAGTCACAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
28 13 0.37
29 22 0.63
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:64322536 original size:18 final size:19
Alignment explanation
Indices: 64322513--64322548 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
64322503 ATGGGCCCAA
64322513 TAGCCCA-TCTGGCCCATT
1 TAGCCCATTCTGGCCCATT
64322531 TAGCCCATTCTGGCCCAT
1 TAGCCCATTCTGGCCCAT
64322549 ATGGTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.17, C:0.39, G:0.17, T:0.28
Consensus pattern (19 bp):
TAGCCCATTCTGGCCCATT
Found at i:64323530 original size:133 final size:133
Alignment explanation
Indices: 64323292--64323559 Score: 419
Period size: 133 Copynumber: 2.0 Consensus size: 133
64323282 ACTCGGTTTT
* * * *
64323292 AAGTGAAAACGAGTAAAAGGGCCTAATCGGTAAAAATACCTAATATTCATAAGTACATGTTAGAG
1 AAGTGAAAACGAGTAAAACGGCATAATCGGTAAAAATACCTAATATTCATAACTACATGATAGAG
* * *
64323357 TGTGAATTTGATGTTGCTATAGAAGGGAAAAATGATCAGCATGTCATAAAACATAAGAATAAGGG
66 TGGGAATTTGATGTTGCTATAGAAGAGAAAAATGATCAGCATATCATAAAACATAAGAATAAGGG
64323422 ATG
131 ATG
* *
64323425 AAGTGAAAACGAGTAAAACGGCATAATCGGTAAAAATACCTAATGTTCATAACTATATGATAGAG
1 AAGTGAAAACGAGTAAAACGGCATAATCGGTAAAAATACCTAATATTCATAACTACATGATAGAG
* * *
64323490 TGGGAATTTGATGTTGTTGTAGAAGAGAAAAATGTTCAGCATATCATAAAACATAAGAATAAGGG
66 TGGGAATTTGATGTTGCTATAGAAGAGAAAAATGATCAGCATATCATAAAACATAAGAATAAGGG
*
64323555 CTG
131 ATG
64323558 AA
1 AA
64323560 ATTAAATTCC
Statistics
Matches: 122, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 122 1.00
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.25
Consensus pattern (133 bp):
AAGTGAAAACGAGTAAAACGGCATAATCGGTAAAAATACCTAATATTCATAACTACATGATAGAG
TGGGAATTTGATGTTGCTATAGAAGAGAAAAATGATCAGCATATCATAAAACATAAGAATAAGGG
ATG
Found at i:64329682 original size:29 final size:29
Alignment explanation
Indices: 64329619--64329726 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 29
64329609 TTCACATACC
* * * *
64329619 TGTATCTGGCCCATTAAGACC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
64329647 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
* * *
64329676 TGTATATTGCCCATTCGGCCAAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* **
64329705 TTTATATGGCCCGCTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
64329727 GTCACATTTA
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
27 1 0.02
28 16 0.26
29 44 0.71
30 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:64334088 original size:29 final size:28
Alignment explanation
Indices: 64333993--64334105 Score: 129
Period size: 28 Copynumber: 4.0 Consensus size: 28
64333983 TACCCGTACC
* * *
64333993 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTTATA
**
64334021 TGGCCCATTAGGCCCAAATCAC-CGTATA
1 TGGCCCATTAGGCCC-AATCACATTTATA
*
64334049 TGGCCTATTAGGCCCGAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTTATA
* *
64334078 TGGCCCGTTAGGCCCAGTCACATTTATA
1 TGGCCCATTAGGCCCAATCACATTTATA
64334106 ATCATGCTCA
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
28 49 0.69
29 22 0.31
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTTATA
Found at i:64335559 original size:16 final size:16
Alignment explanation
Indices: 64335535--64335566 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
64335525 AAGTTCAGGA
64335535 TTTCAGGATTTTTGGG
1 TTTCAGGATTTTTGGG
*
64335551 TTTCGGGATTTTTGGG
1 TTTCAGGATTTTTGGG
64335567 GCGTTACAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCAGGATTTTTGGG
Found at i:64342897 original size:29 final size:28
Alignment explanation
Indices: 64342863--64342965 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
64342853 TACTCAATCA
64342863 CGCACACTTAGTGCCATATGATTCAAGC-
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
64342891 CTGCACACATAGTGCCATATAGTCTAAACT
1 C-GCACACTTAGTGCCATATATTC-AAGCT
* *
64342921 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
64342950 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
64342966 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
28 4 0.07
29 55 0.90
30 2 0.03
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:64345842 original size:40 final size:40
Alignment explanation
Indices: 64345740--64345923 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
64345730 AAATTGAATG
* * * * * *
64345740 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
64345780 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
64345820 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
64345860 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
64345900 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
64345924 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:64345948 original size:80 final size:80
Alignment explanation
Indices: 64345780--64345968 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
64345770 GCTGGAAATT
* * *
64345780 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
64345845 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
64345860 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
64345923 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
64345940 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
64345969 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:64354673 original size:27 final size:27
Alignment explanation
Indices: 64354632--64354720 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
64354622 TGGATAAGTT
64354632 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
* *
64354659 GTAGAATTATTGAAATA-CCCTATAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
* *
64354685 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGG
*
64354712 GTAAAATTA
1 GTAGAATTA
64354721 CCATTTTTCC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 23 0.43
27 31 0.57
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (27 bp):
GTAGAATTATCGAAATACCCCTGTAGG
Found at i:64366671 original size:29 final size:30
Alignment explanation
Indices: 64366616--64366676 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
64366606 TAATTTTTTC
*
64366616 CCTCCTAGTTCTTAAGGCTTAACTTA-GAA
1 CCTCCTAGTTCTTAAGGCTCAACTTAGGAA
* *
64366645 CCTCTCTAGTTTTTATGGCTCAA-TTAGGAA
1 CCTC-CTAGTTCTTAAGGCTCAACTTAGGAA
64366675 CC
1 CC
64366677 CCCCAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (30 bp):
CCTCCTAGTTCTTAAGGCTCAACTTAGGAA
Found at i:64367605 original size:43 final size:43
Alignment explanation
Indices: 64367552--64367660 Score: 175
Period size: 43 Copynumber: 2.5 Consensus size: 43
64367542 ACAAGCGCCA
*
64367552 CTAAAGAACATGACCTTTAGCGGTGCTTTCCCCACAAACATCG
1 CTAAAGAACATGACCTTTAGCGGTGCTTTCACCACAAACATCG
* *
64367595 CT-ATGAAACATGAACTTTAGCGGTGCTTTCACCACAAACATCG
1 CTAAAG-AACATGACCTTTAGCGGTGCTTTCACCACAAACATCG
64367638 CTAAAGAACATGACCTTTAGCGG
1 CTAAAGAACATGACCTTTAGCGG
64367661 CGTTTTTTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
42 2 0.03
43 55 0.93
44 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
CTAAAGAACATGACCTTTAGCGGTGCTTTCACCACAAACATCG
Found at i:64368282 original size:5 final size:5
Alignment explanation
Indices: 64368267--64368300 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
64368257 CGAACTGTGA
64368267 AAAAGT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAA
64368301 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:64372680 original size:5 final size:5
Alignment explanation
Indices: 64372670--64372696 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
64372660 CAATATATGA
64372670 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
64372697 CAAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:64374251 original size:30 final size:30
Alignment explanation
Indices: 64374167--64374254 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
64374157 AAAATTAAAT
* * *
64374167 ATAAATTTTAATTTAATGTGTATTTTCATAC
1 ATAAAATTTAATTTAATAT-AATTTTCATAC
* **
64374198 ATGAAATTTAATTTTGTATAATTTT-ATAC
1 ATAAAATTTAATTTAATATAATTTTCATAC
64374227 ATAAAATTTAAATTTAAT-TCAATTTTCA
1 ATAAAATTT-AATTTAATAT-AATTTTCA
64374255 CAAATCACTA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
29 13 0.29
30 17 0.38
31 15 0.33
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.50
Consensus pattern (30 bp):
ATAAAATTTAATTTAATATAATTTTCATAC
Found at i:64386953 original size:13 final size:15
Alignment explanation
Indices: 64386923--64386954 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
64386913 AAAGGAAAAA
64386923 AAAAGAATTAGTAAT
1 AAAAGAATTAGTAAT
64386938 AAAA-AATTAG-AAT
1 AAAAGAATTAGTAAT
64386951 AAAA
1 AAAA
64386955 TTTAAATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (15 bp):
AAAAGAATTAGTAAT
Found at i:64397935 original size:81 final size:80
Alignment explanation
Indices: 64397814--64398046 Score: 281
Period size: 81 Copynumber: 2.9 Consensus size: 80
64397804 TTTGGTTTAC
*
64397814 AAAATTACCAAAATACCCT-GCTTTGTAAAATTA-CTAAAATACCCTTGGTTTATAAAATTACCA
1 AAAATTACCAAAATACCCTAG-TTTGTAAAATTATC-AAAATACCCTTGGTTTGTAAAATTACCA
*
64397877 AAATACCCCTAGTTTGT
64 AAATACCCCTAATTTGT
*
64397894 AAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCTTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATA-CCCTAGTTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCAA
64397959 AATACCCCTAATTTGT
65 AATACCCCTAATTTGT
* ** *** ** * **
64397975 GAAATTACTGAAATACCCTCAACCTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCT-AGTTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCAA
*
64398040 AGTACCC
65 AATACCC
64398047 TCGATTTATA
Statistics
Matches: 133, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
80 19 0.14
81 112 0.84
82 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTAGTTTGTAAAATTATCAAAATACCCTTGGTTTGTAAAATTACCAAA
ATACCCCTAATTTGT
Found at i:64398048 original size:27 final size:27
Alignment explanation
Indices: 64397814--64398091 Score: 242
Period size: 27 Copynumber: 10.3 Consensus size: 27
64397804 TTTGGTTTAC
*
64397814 AAAATTACCAAAATACCCT-GCTTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * * *
64397840 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
*
64397867 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
*
64397894 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
* *
64397921 AAAATTATCAAAATACCCT-TAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
*
64397948 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* ** * **
64397975 GAAATTACTGAAATACCCTCAACCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
*** *
64398002 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
64398029 AAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
* ****
64398056 AGAATTACCGTTTTACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
64398083 AAAATTACC
1 AAAATTACC
64398092 GTTTTACCCT
Statistics
Matches: 213, Mismatches: 33, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
26 18 0.08
27 193 0.91
28 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:64398361 original size:27 final size:27
Alignment explanation
Indices: 64398042--64398360 Score: 424
Period size: 27 Copynumber: 11.8 Consensus size: 27
64398032 ATTACCAAAG
*
64398042 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
64398069 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
64398096 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
64398123 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
64398150 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
64398177 TACCCCCAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
64398204 TACCCCCGATTTACATAATTATCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
64398231 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
64398258 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
64398285 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
64398312 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
64398339 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
64398361 TAAAATGCCC
Statistics
Matches: 261, Mismatches: 29, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 259 0.99
28 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:64398387 original size:81 final size:81
Alignment explanation
Indices: 64398015--64398371 Score: 351
Period size: 81 Copynumber: 4.4 Consensus size: 81
64398005 ATTATTGAAA
* ** * *
64398015 TACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
** * *
64398080 TGTAAAATTACCGTTT
66 TACAGAATTATCGTTT
* *** * *
64398096 TACCCTCGATTTACAGAATTACCATTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGAT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGA-TTTATAGAATTACTGTTTTACCCTCGAT
* *
64398160 TTATAGAATTACCGTTT
65 TTACAGAATTATCGTTT
* * * **** * * * *
64398177 TACCCCCAATTTACATAATTACCGTTTTACCCCCGATTTACATAATTA-TCATTTTACCCTCGAT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACT-GTTTTACCCTCGAT
64398241 TTACAGAATTATCGTTT
65 TTACAGAATTATCGTTT
* *** *
64398258 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
64398323 TACAGAATTA-CTGTTT
66 TACAGAATTATC-GTTT
* *
64398339 TACCCTCGATTTACAAAATTACTAAAATGCCCT
1 TACCCTCGATTTACAAAATTACCAAAATACCCT
64398372 TGGTTTGTGA
Statistics
Matches: 236, Mismatches: 35, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
80 3 0.01
81 231 0.98
82 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACTGTTTTACCCTCGATT
TACAGAATTATCGTTT
Found at i:64399631 original size:25 final size:25
Alignment explanation
Indices: 64399602--64399649 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
64399592 TTATAACATG
* * *
64399602 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
64399627 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
64399650 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:64399733 original size:11 final size:11
Alignment explanation
Indices: 64399697--64399752 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
64399687 CATGGTATGT
64399697 ATGATATGCAC
1 ATGATATGCAC
* *
64399708 ATGACATG--T
1 ATGATATGCAC
64399717 ATGATATGCAC
1 ATGATATGCAC
*
64399728 ATGATATG--T
1 ATGATATGCAC
64399737 ATGATATGCAC
1 ATGATATGCAC
64399748 ATGAT
1 ATGAT
64399753 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Done.