Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 111 of 345
Found at i:36784644 original size:201 final size:202
Alignment explanation
Indices: 36784266--36784656 Score: 599
Period size: 202 Copynumber: 1.9 Consensus size: 202
36784256 TTTCCTTATA
* * ** *
36784266 TGAGTTCCTCCTCATTTTTCCTAGATCGTTTCACGGTACATTTCGTAAGTACTTTCTTAAATATC
1 TGAGTTCCTCCTCATTTTTCCTAGATCATTTCACGATACATTTCCCAAGTAATTTCTTAAATATC
36784331 TTTTTGTTTCCTTCATCTTTCCCCCAAAATGGTCAAAATTAAACAATAGCATCGCCAAGGGCATC
66 TTTTTGTTTCCTTCATCTTTCCCCCAAAATGGTCAAAATTAAACAATAGCATCGCCAAGGGCATC
36784396 AGTTATCACAGTAATGAGACTGAGAGGGATTGTGATGGCAACGAGGTTGGACCTAGTGGCCACAG
131 AGTTATCACAGTAATGAGACTGAGAGGGATTGTGATGGCAACGAGGTTGGACCTAGTGGCCACAG
36784461 ACTCATC
196 ACTCATC
* ** *
36784468 TGAGTTCCTCCTC-TTTTTCCCTAGATCATTTCTCGATACATTTCCCGGGTAATTTCTTAAATCT
1 TGAGTTCCTCCTCATTTTT-CCTAGATCATTTCACGATACATTTCCCAAGTAATTTCTTAAATAT
* * **
36784532 CTTTTTGTTTCCTTCGTCTTTCCCCCAAAATGGT-AAAATTTAAACAATGGCATCG-TGAGGGCA
65 CTTTTTGTTTCCTTCATCTTTCCCCCAAAATGGTCAAAA-TTAAACAATAGCATCGCCAAGGGCA
* * *
36784595 TCAGTTATCATAGTAATGAGACTGAGAGGGATTTTGGTGGCAACGAGGTTGGACCTAGTGGC
129 TCAGTTATCACAGTAATGAGACTGAGAGGGATTGTGATGGCAACGAGGTTGGACCTAGTGGC
36784657 TGCGGAGTAA
Statistics
Matches: 171, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
201 74 0.43
202 97 0.57
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (202 bp):
TGAGTTCCTCCTCATTTTTCCTAGATCATTTCACGATACATTTCCCAAGTAATTTCTTAAATATC
TTTTTGTTTCCTTCATCTTTCCCCCAAAATGGTCAAAATTAAACAATAGCATCGCCAAGGGCATC
AGTTATCACAGTAATGAGACTGAGAGGGATTGTGATGGCAACGAGGTTGGACCTAGTGGCCACAG
ACTCATC
Found at i:36787529 original size:131 final size:131
Alignment explanation
Indices: 36787286--36787553 Score: 396
Period size: 131 Copynumber: 2.0 Consensus size: 131
36787276 AGTTTTGTAA
* * *
36787286 TCATGTCTTTAAAAATTCTTTAAAACGAAAGCAATGTTTGATGTTTGGAAATTCGGGGAATCGTG
1 TCATGTCTTTAAAAATCCTTTAAAACGAAAGCAATGTTCGATGTTAGGAAATTCGGGGAATCGTG
* *
36787351 CCCAATCGTGCTGGGTTGCAATTCTCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCA
66 CCCAATCGTGCTGGGTTGCAATTCTCCGTTTGTTCAAAATAACCGAATATTCCTTTAGAATTTCA
36787416 C
131 C
* * * *
36787417 TCATTTCTTTAAAAATCCTTTAAAAC-AAAGGCAGTGTTCGATGTTAGGCAATTCGGGGAATTGT
1 TCATGTCTTTAAAAATCCTTTAAAACGAAA-GCAATGTTCGATGTTAGGAAATTCGGGGAATCGT
* * *
36787481 GCCCTATCGTGCTGGGTTGTAATT-TCCTGTTTGTTTAAAATAACCGAATATTCCTTTAGAATTT
65 GCCCAATCGTGCTGGGTTGCAATTCTCC-GTTTGTTCAAAATAACCGAATATTCCTTTAGAATTT
36787545 CAC
129 CAC
36787548 TCATGT
1 TCATGT
36787554 TTTCTAAATT
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
130 6 0.05
131 116 0.95
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (131 bp):
TCATGTCTTTAAAAATCCTTTAAAACGAAAGCAATGTTCGATGTTAGGAAATTCGGGGAATCGTG
CCCAATCGTGCTGGGTTGCAATTCTCCGTTTGTTCAAAATAACCGAATATTCCTTTAGAATTTCA
C
Found at i:36794582 original size:6 final size:6
Alignment explanation
Indices: 36794571--36794615 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
36794561 TCAATTATTA
* *
36794571 TCACTT TCACTT TCAATT TCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
36794616 ATTTTGATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.22, C:0.29, G:0.00, T:0.49
Consensus pattern (6 bp):
TCACTT
Found at i:36794600 original size:24 final size:24
Alignment explanation
Indices: 36794571--36794619 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
36794561 TCAATTATTA
36794571 TCACTTTCACTTTCAATTTCAATT
1 TCACTTTCACTTTCAATTTCAATT
*
36794595 TCACTTTCACTTTCACTTTCAATT
1 TCACTTTCACTTTCAATTTCAATT
36794619 T
1 T
36794620 TGATCACAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (24 bp):
TCACTTTCACTTTCAATTTCAATT
Found at i:36795622 original size:21 final size:21
Alignment explanation
Indices: 36795587--36795627 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36795577 TATTTATCTC
* *
36795587 ATAAATATTTTTTTAATAATA
1 ATAAATATCTATTTAATAATA
*
36795608 ATAAATATCTATTTACTAAT
1 ATAAATATCTATTTAATAAT
36795628 TAAATAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAATATCTATTTAATAATA
Found at i:36801670 original size:6 final size:6
Alignment explanation
Indices: 36801659--36801715 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
36801649 TGAACAAAAT
* * * *
36801659 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAT TGAAAT TGAAAT TGAAAT
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG
36801707 TGAAAG TGA
1 TGAAAG TGA
36801716 TAAGAATTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (6 bp):
TGAAAG
Found at i:36801682 original size:18 final size:18
Alignment explanation
Indices: 36801659--36801715 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
36801649 TGAACAAAAT
*
36801659 TGAAAGTGAAAGTGAAAG
1 TGAAAGTGAAATTGAAAG
*
36801677 TGAAAGTGAAATTGAAAT
1 TGAAAGTGAAATTGAAAG
*
36801695 TGAAATTGAAATTGAAAG
1 TGAAAGTGAAATTGAAAG
36801713 TGA
1 TGA
36801716 TAAGAATTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.25
Consensus pattern (18 bp):
TGAAAGTGAAATTGAAAG
Found at i:36804937 original size:37 final size:37
Alignment explanation
Indices: 36804881--36804982 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
36804871 TCAGACGAAG
* *
36804881 TCTCCACACGAAGTTATCGGGTCTTACCCGGACAAAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
*
36804918 TCTCCACACGTAGTCATCGGGTCTTACCCGGACATAA
1 TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
36804955 TCTCCACACGTAGTCATCGGGTCTTACC
1 TCTCCACACGTAGTCATCGGGTCTTACC
36804983 TGGAATATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
TCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAA
Found at i:36805265 original size:48 final size:48
Alignment explanation
Indices: 36805136--36805416 Score: 456
Period size: 48 Copynumber: 5.8 Consensus size: 48
36805126 GTCGTTCGCC
*
36805136 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
36805186 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
36805234 TACATATCTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
36805282 TACATATTTCACATTAGCCATTTGGCTTTACCACATATACATACCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
36805330 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
36805378 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
36805417 TGCATGTTCA
Statistics
Matches: 214, Mismatches: 15, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
48 171 0.80
49 2 0.01
50 41 0.19
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:36805449 original size:47 final size:47
Alignment explanation
Indices: 36805386--36805579 Score: 264
Period size: 47 Copynumber: 4.1 Consensus size: 47
36805376 CATACATATT
* * *
36805386 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
* * * *
36805433 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
36805480 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTC-TCATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCAT-ATTCA
* * ** *
36805527 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
36805574 TCACAT
1 TCACAT
36805580 AGAATCCTAA
Statistics
Matches: 129, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
Found at i:36805506 original size:22 final size:22
Alignment explanation
Indices: 36805479--36805550 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
36805469 GCTCACATTC
36805479 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
36805501 ATCACATATATG-CATGTTC-TCATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
36805525 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
36805548 ATC
1 ATC
36805551 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:36808532 original size:12 final size:12
Alignment explanation
Indices: 36808515--36808544 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36808505 CCCTGTCTTA
36808515 AGAGTTATTTTC
1 AGAGTTATTTTC
36808527 AGAGTTATTTTC
1 AGAGTTATTTTC
*
36808539 GGAGTT
1 AGAGTT
36808545 CTTTAAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (12 bp):
AGAGTTATTTTC
Found at i:36818614 original size:13 final size:11
Alignment explanation
Indices: 36818578--36818608 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
36818568 CCGCCCGTGT
36818578 TAATTTTTATA
1 TAATTTTTATA
*
36818589 TTATTTTTATA
1 TAATTTTTATA
36818600 TAATTTTTA
1 TAATTTTTA
36818609 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:36818746 original size:30 final size:30
Alignment explanation
Indices: 36818712--36818774 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
36818702 ACTTAACAAG
36818712 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
36818742 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
36818772 CAA
1 CAA
36818775 CAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:36819972 original size:26 final size:26
Alignment explanation
Indices: 36819943--36820023 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 26
36819933 CACAGTGTAA
36819943 AACTTAATCTAATC-AC-TCAAAATCTC
1 AACTTAAT-TAA-CAACGTCAAAATCTC
*
36819969 AACTTTTATTAACAACGTCAAAATCTC
1 AAC-TTAATTAACAACGTCAAAATCTC
*
36819996 AACTTTTATTAACAACGTCAAAATCTC
1 AAC-TTAATTAACAACGTCAAAATCTC
36820023 A
1 A
36820024 TTGGCAATTT
Statistics
Matches: 51, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
25 1 0.02
26 8 0.16
27 42 0.82
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.32
Consensus pattern (26 bp):
AACTTAATTAACAACGTCAAAATCTC
Found at i:36819990 original size:27 final size:27
Alignment explanation
Indices: 36819959--36820023 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
36819949 ATCTAATCAC
36819959 TCAAAATCTCAACTTTTATTAACAACG
1 TCAAAATCTCAACTTTTATTAACAACG
36819986 TCAAAATCTCAACTTTTATTAACAACG
1 TCAAAATCTCAACTTTTATTAACAACG
36820013 TCAAAATCTCA
1 TCAAAATCTCA
36820024 TTGGCAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.32
Consensus pattern (27 bp):
TCAAAATCTCAACTTTTATTAACAACG
Found at i:36820556 original size:24 final size:24
Alignment explanation
Indices: 36820508--36820570 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
36820498 GCCAAACTTA
*
36820508 GGTGTCAAATTGGAAAAAAAACTCG
1 GGTGCCAAATT-GAAAAAAAACTCG
*
36820533 GGTGCCAAATTGAAAAAAATCTCG
1 GGTGCCAAATTGAAAAAAAACTCG
* *
36820557 CGTACCAAATTGAA
1 GGTGCCAAATTGAA
36820571 CATTATAACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 24 0.71
25 10 0.29
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.21
Consensus pattern (24 bp):
GGTGCCAAATTGAAAAAAAACTCG
Found at i:36821629 original size:49 final size:50
Alignment explanation
Indices: 36821569--36821670 Score: 179
Period size: 50 Copynumber: 2.1 Consensus size: 50
36821559 ATTATTAGAA
36821569 AAATATTTA-TTTTTTACTGAATACCATTTAAAATTTTAATTAAGATATT
1 AAATATTTATTTTTTTACTGAATACCATTTAAAATTTTAATTAAGATATT
* *
36821618 AAATATTTATTTTTTTATTGAATACCATTTAAATTTTTAATTAAGATATT
1 AAATATTTATTTTTTTACTGAATACCATTTAAAATTTTAATTAAGATATT
36821668 AAA
1 AAA
36821671 CTCCACAAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 9 0.18
50 41 0.82
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (50 bp):
AAATATTTATTTTTTTACTGAATACCATTTAAAATTTTAATTAAGATATT
Found at i:36824639 original size:85 final size:85
Alignment explanation
Indices: 36824476--36824639 Score: 197
Period size: 85 Copynumber: 1.9 Consensus size: 85
36824466 TTAATTATAA
** * * *
36824476 ATTTTAAGAGAATTAAAGTATAGTTTTATCACTGTATTAACTTATTATTTTAAAAATTTTAAAAG
1 ATTTTAAGAGAATTAAAGTATAAATTTATCACTATATTAACTTATTAATTTAAAAATTTTAAAAA
* * *
36824541 AGATTAAACTAAAAGTTATT
66 AAACTAAAATAAAAGTTATT
* * *
36824561 ATTTTAAGAGAATTAAAGTATAAATTTATCATTATATTAATTTA-TAATTT-ATAATTCTTAAAA
1 ATTTTAAGAGAATTAAAGTATAAATTTATCACTATATTAACTTATTAATTTAAAAATT-TT-AAA
36824624 AAAAACTAAAATAAAA
64 AAAAACTAAAATAAAA
36824640 ATGGGTTGCT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
83 5 0.08
84 7 0.11
85 54 0.82
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (85 bp):
ATTTTAAGAGAATTAAAGTATAAATTTATCACTATATTAACTTATTAATTTAAAAATTTTAAAAA
AAACTAAAATAAAAGTTATT
Found at i:36825807 original size:27 final size:27
Alignment explanation
Indices: 36825777--36825829 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
36825767 AACATGTGGC
*
36825777 AAAACATGATA-AAAAAATAAAAAATA
1 AAAAAATGATAGAAAAAATAAAAAATA
* * *
36825803 AAAAAATTATAGAAAAATTATAAAATA
1 AAAAAATGATAGAAAAAATAAAAAATA
36825830 CTTATTTTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (27 bp):
AAAAAATGATAGAAAAAATAAAAAATA
Found at i:36825893 original size:18 final size:19
Alignment explanation
Indices: 36825850--36825898 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
36825840 TACCATAATT
36825850 TTTATAT-TTTTTTTACAAA
1 TTTATATATTTTTTTAC-AA
36825869 TTT-TATATTTTTTTAC-A
1 TTTATATATTTTTTTACAA
36825886 TTTATATAATTTT
1 TTTATAT-ATTTT
36825899 CTTATGACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 17 0.63
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATATATTTTTTTACAA
Found at i:36825997 original size:20 final size:21
Alignment explanation
Indices: 36825974--36826012 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
36825964 TTTTTATAAA
36825974 AATTTACAAT-TTTTTATTGT
1 AATTTACAATATTTTTATTGT
**
36825994 AATTTTTAATATTTTTATT
1 AATTTACAATATTTTTATT
36826013 TTTTATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (21 bp):
AATTTACAATATTTTTATTGT
Found at i:36826024 original size:48 final size:50
Alignment explanation
Indices: 36825944--36826039 Score: 135
Period size: 48 Copynumber: 1.9 Consensus size: 50
36825934 GTTTCCATAT
*
36825944 ATTTTATAATTTTTTTATGATTTTTATAAAAATTTACA-ATTTTTTATTGTA
1 ATTTTATAATATTTTTAT-ATTTTTATAAAAATTTA-ATATTTTTTATTGTA
*
36825995 ATTTT-TAATATTTTTAT-TTTTTATTAAAATTTAATATTTTTTATT
1 ATTTTATAATATTTTTATATTTTTATAAAAATTTAATATTTTTTATT
36826040 ATTTTTTGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
47 1 0.02
48 25 0.60
50 11 0.26
51 5 0.12
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.65
Consensus pattern (50 bp):
ATTTTATAATATTTTTATATTTTTATAAAAATTTAATATTTTTTATTGTA
Found at i:36837213 original size:42 final size:42
Alignment explanation
Indices: 36837166--36837248 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
36837156 ACAAACTATT
*
36837166 AATATAATTACCCATCTTTATATTTATGGGTTAAAAAGAATC
1 AATATAATTACCCATCTTTATATTTATGAGTTAAAAAGAATC
36837208 AATATAATTACCCATCTTTATATTTATGAGTTAAAAAGAAT
1 AATATAATTACCCATCTTTATATTTATGAGTTAAAAAGAAT
36837249 TATGAGTAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (42 bp):
AATATAATTACCCATCTTTATATTTATGAGTTAAAAAGAATC
Found at i:36850052 original size:20 final size:20
Alignment explanation
Indices: 36850027--36850066 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36850017 AATATTTTCT
*
36850027 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
36850047 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
36850067 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:36850069 original size:34 final size:35
Alignment explanation
Indices: 36850015--36850081 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
36850005 CAAACACCAG
* *
36850015 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
36850050 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
36850082 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:36850073 original size:14 final size:14
Alignment explanation
Indices: 36850050--36850089 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
36850040 ACAGAAAAGT
*
36850050 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
36850064 AAATCATTTTACGG
1 AAAACATTTTACAG
36850078 AAAACATTTTAC
1 AAAACATTTTAC
36850090 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:36850682 original size:35 final size:38
Alignment explanation
Indices: 36850613--36850683 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
36850603 TAAATATAAA
* * *
36850613 AATAATTATATTAAGAATGTTATTAAGTTATATTTAAT
1 AATAATTATATTAAGAATATGATTAAGATATATTTAAT
36850651 AATAATTATATTAA-AATATGATTAA-AT-TATTTA
1 AATAATTATATTAAGAATATGATTAAGATATATTTA
36850684 TTTTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 6 0.20
36 1 0.03
37 9 0.30
38 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (38 bp):
AATAATTATATTAAGAATATGATTAAGATATATTTAAT
Found at i:36850891 original size:28 final size:28
Alignment explanation
Indices: 36850851--36850904 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
36850841 TTACAACTTT
36850851 ATTCCATTACATTCAACCAAATAATTAA
1 ATTCCATTACATTCAACCAAATAATTAA
* *
36850879 ATTCTATTACATTCAACTAAATAATT
1 ATTCCATTACATTCAACCAAATAATT
36850905 CAAACAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (28 bp):
ATTCCATTACATTCAACCAAATAATTAA
Found at i:36850915 original size:12 final size:12
Alignment explanation
Indices: 36850898--36850924 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
36850888 CATTCAACTA
36850898 AATAATTCAAAC
1 AATAATTCAAAC
36850910 AATAATTCAAAC
1 AATAATTCAAAC
36850922 AAT
1 AAT
36850925 TGAATTACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAATTCAAAC
Found at i:36855405 original size:25 final size:25
Alignment explanation
Indices: 36855377--36855439 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
36855367 ATAAATATAA
36855377 ATTAAATAAAAAAATCATCTCAC-AT
1 ATTAAATAAAAAAATCATC-CACAAT
* *
36855402 ATTAAACAAAAAAGTCATCCACAAT
1 ATTAAATAAAAAAATCATCCACAAT
**
36855427 ATTATTTAAAAAA
1 ATTAAATAAAAAA
36855440 TCTACATCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 3 0.09
25 29 0.91
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (25 bp):
ATTAAATAAAAAAATCATCCACAAT
Found at i:36855424 original size:24 final size:26
Alignment explanation
Indices: 36855377--36855430 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
36855367 ATAAATATAA
*
36855377 ATTAAATAAAAAAATCATCTCAC-AT
1 ATTAAACAAAAAAATCATCTCACAAT
*
36855402 ATTAAACAAAAAAGTCATC-CACAAT
1 ATTAAACAAAAAAATCATCTCACAAT
36855427 ATTA
1 ATTA
36855431 TTTAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.56, C:0.17, G:0.02, T:0.26
Consensus pattern (26 bp):
ATTAAACAAAAAAATCATCTCACAAT
Found at i:36863719 original size:17 final size:18
Alignment explanation
Indices: 36863697--36863730 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36863687 CTCTCCTCGA
36863697 TAATGGGT-ACTTGTTCT
1 TAATGGGTAACTTGTTCT
*
36863714 TAATGGTTAACTTGTTC
1 TAATGGGTAACTTGTTC
36863731 AGTTACCGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.47
Consensus pattern (18 bp):
TAATGGGTAACTTGTTCT
Found at i:36874391 original size:48 final size:48
Alignment explanation
Indices: 36874339--36874570 Score: 181
Period size: 48 Copynumber: 4.9 Consensus size: 48
36874329 CGGCAGTGAC
* *
36874339 ATGTGATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCATCGTT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATT
* * * * *
36874387 ATGTGATCCCATGTAAGACCATGTCCGGGACGTGGCATTAGCATCATA
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATT
** * * * * *
36874435 ATAAGA-CATCGTGTAAGACCATAG-CTGGG-CTATCAGC-TTCG-A--AAT
1 ATGTGATC-CCATGTAAGACCAT-GTCTGGGAC-ATGA-CATTGGCATCATT
* *
36874480 GTGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATT
* * * * * *
36874528 ATGTGGTCCTATGTAAGGCCATATCTGGGATATGGCATTGGCA
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
36874571 CCCTACCTTG
Statistics
Matches: 140, Mismatches: 33, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
44 2 0.01
45 26 0.19
46 3 0.02
47 3 0.02
48 104 0.74
49 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (48 bp):
ATGTGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATT
Found at i:36876719 original size:48 final size:48
Alignment explanation
Indices: 36876648--36876972 Score: 382
Period size: 48 Copynumber: 6.8 Consensus size: 48
36876638 GGGTAAGAGA
* * * *
36876648 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATAACAAGG
* ***
36876696 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATAACAAGG
* * * **
36876744 CCGATGCCAT-TTCCCAGACATGGTCTTACACTAGCTCTCAAAACAATA
1 CCGATGCCATGTT-CCAGACATGGTCTTACACTGGCTCACATAACAAGG
* ***
36876792 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATAACAAGG
* * * * *
36876840 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATAACAAGG
* ** ***
36876888 CCGATGCCATGTTCCAAACACAGTCTTACACTGGCTCACATATTGAGG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATAACAAGG
36876936 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTC
1 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTC
36876973 GCATGTACCA
Statistics
Matches: 226, Mismatches: 49, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
47 2 0.01
48 222 0.98
49 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACATAACAAGG
Found at i:36876812 original size:96 final size:96
Alignment explanation
Indices: 36876648--36876972 Score: 578
Period size: 96 Copynumber: 3.4 Consensus size: 96
36876638 GGGTAAGAGA
36876648 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
36876713 ACATGGTCTTACACTGGCTCACATATTGAGG
66 ACATGGTCTTACACTGGCTCACATATTGAGG
* * *
36876744 CCGATGCCATTTCCCAGACATGGTCTTACACTAGCTCTCAAAACAATACCGATGCCATGTTCCAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
36876809 ACATGGTCTTACACTGGCTCACATATTGAGG
66 ACATGGTCTTACACTGGCTCACATATTGAGG
*
36876840 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
**
36876905 ACACAGTCTTACACTGGCTCACATATTGAGG
66 ACATGGTCTTACACTGGCTCACATATTGAGG
* *
36876936 CCGATGCCATGTTCCAGACATGGTCTTACACTGGCTC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
36876973 GCATGTACCA
Statistics
Matches: 217, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 217 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (96 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
ACATGGTCTTACACTGGCTCACATATTGAGG
Found at i:36878906 original size:30 final size:30
Alignment explanation
Indices: 36878872--36878928 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
36878862 CCGAAGTTAG
* *
36878872 TTAAATCGCACACTTAGTGCCAAAGCTAGT
1 TTAAATCGAACACTTACTGCCAAAGCTAGT
36878902 TTAAATCGAACACTTACTGCCAAAGCT
1 TTAAATCGAACACTTACTGCCAAAGCT
36878929 TCCAATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (30 bp):
TTAAATCGAACACTTACTGCCAAAGCTAGT
Found at i:36881291 original size:41 final size:41
Alignment explanation
Indices: 36881225--36881304 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
36881215 TACACAGGTT
36881225 TTCACATGGCCTGGTACACGCCCGTGTGCCT-GACCCGTGTCC
1 TTCACATGGCCTGGTACACGCCCGTGT-CCTAG-CCCGTGTCC
36881267 TTCACATGGCCAT-G-ACACGCCCGTGTCCTAGCCCGTGT
1 TTCACATGGCC-TGGTACACGCCCGTGTCCTAGCCCGTGT
36881305 GCAAAAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
40 10 0.28
41 13 0.36
42 12 0.33
43 1 0.03
ACGTcount: A:0.14, C:0.38, G:0.25, T:0.24
Consensus pattern (41 bp):
TTCACATGGCCTGGTACACGCCCGTGTCCTAGCCCGTGTCC
Found at i:36882317 original size:47 final size:45
Alignment explanation
Indices: 36882243--36882467 Score: 215
Period size: 47 Copynumber: 4.8 Consensus size: 45
36882233 GGGGTGAGGT
* *
36882243 GTCGATGCCATGTCCTATACATAGTCTTACACTGGCTCATATCTC-AA
1 GTCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCAT-T-TCGAA
* * *
36882290 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA
1 GTCGATGCCATGTCCCAGACAT-GTCTTACACTGGC--TCATTTCGAA
*
36882338 GTCGATG-CATGTCCCAGACATGTCTTACACTGGCTTCCGTTTCGAA
1 GTCGATGCCATGTCCCAGACATGTCTTACACTGGC-T-CATTTCGAA
* * * *
36882384 GTCAATG-CATGTCCCAGACATGTCTTACACTAGCACTCGTTTCGAT
1 GTCGATGCCATGTCCCAGACATGTCTTACACT-G-GCTCATTTCGAA
*
36882430 G-CTGATGCCATGTCCCAGACATGGTCTAACACTGGCTC
1 GTC-GATGCCATGTCCCAGACAT-GTCTTACACTGGCTC
36882468 TCATAATGTG
Statistics
Matches: 152, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
45 2 0.01
46 63 0.41
47 65 0.43
48 18 0.12
49 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
GTCGATGCCATGTCCCAGACATGTCTTACACTGGCTCATTTCGAA
Found at i:36882392 original size:46 final size:48
Alignment explanation
Indices: 36882243--36882466 Score: 216
Period size: 46 Copynumber: 4.8 Consensus size: 48
36882233 GGGGTGAGGT
* * * *
36882243 GTCGATGCCATGTCCTATACATAGTCTTACACTGGC-T-CATATCTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCCGT-T-TCGAA
* * * *
36882290 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTAT-CATCTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCCGTTTCGAA
36882338 GTCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCCGTTTCGAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCCGTTTCGAA
* * * *
36882384 GTCAATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCGTTTCGAT
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTC-CGTTTCGAA
*
36882430 G-CTGATGCCATGTCCCAGACATGGTCTAACACTGGCT
1 GTC-GATGCCATGTCCCAGACATGGTCTTACACTGGCT
36882467 CTCATAATGT
Statistics
Matches: 151, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
45 3 0.02
46 63 0.42
47 62 0.41
48 19 0.13
49 4 0.03
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTCCGTTTCGAA
Found at i:36891938 original size:21 final size:22
Alignment explanation
Indices: 36891908--36891948 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
36891898 AGATTCCCAA
36891908 AAATCAAAAATCAAAA-TAAAAT
1 AAATCAAAAAT-AAAACTAAAAT
36891930 AAAT-AAAAATAAAACTAAA
1 AAATCAAAAATAAAACTAAA
36891949 TACTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (22 bp):
AAATCAAAAATAAAACTAAAAT
Found at i:36893841 original size:48 final size:48
Alignment explanation
Indices: 36893783--36894159 Score: 700
Period size: 48 Copynumber: 7.9 Consensus size: 48
36893773 ATATACACAC
*
36893783 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
36893831 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
36893879 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
36893927 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
36893975 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
36894023 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
36894071 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
36894119 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
36894160 CACATATATA
Statistics
Matches: 323, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 323 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:36898651 original size:30 final size:30
Alignment explanation
Indices: 36898617--36898677 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
36898607 TCCTTAACTC
36898617 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
36898647 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
36898677 A
1 A
36898678 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:36904378 original size:28 final size:28
Alignment explanation
Indices: 36904346--36904404 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
36904336 TTCATCCTGA
36904346 ATGGATTTATTCACTTGTGACATTCATG
1 ATGGATTTATTCACTTGTGACATTCATG
*
36904374 ATGGATTTATTCGCTTGTGACATTCATG
1 ATGGATTTATTCACTTGTGACATTCATG
36904402 ATG
1 ATG
36904405 TGACTTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.42
Consensus pattern (28 bp):
ATGGATTTATTCACTTGTGACATTCATG
Found at i:36907020 original size:23 final size:25
Alignment explanation
Indices: 36906994--36907043 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 25
36906984 TCAATATTTT
36906994 TATAATTAAA-ATATTAATA-AATA
1 TATAATTAAATATATTAATATAATA
36907017 TATAATTAAATTATATTAATATAATA
1 TATAATTAAA-TATATTAATATAATA
36907043 T
1 T
36907044 TTTTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 10 0.42
25 9 0.38
26 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TATAATTAAATATATTAATATAATA
Found at i:36912234 original size:29 final size:28
Alignment explanation
Indices: 36912170--36912234 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
36912160 AAAATGGCCT
*
36912170 AGACTGTGTGTCACACACGGGCTGTCAC
1 AGACTGTGTGTCACACACGGGCTGGCAC
* *
36912198 ACAGCTGTGTGTCGCACAC-GGCTTGGCAC
1 AGA-CTGTGTGTCACACACGGGC-TGGCAC
36912227 ATGACTGT
1 A-GACTGT
36912235 ATGACGTCGA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
28 5 0.17
29 24 0.80
30 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.23
Consensus pattern (28 bp):
AGACTGTGTGTCACACACGGGCTGGCAC
Found at i:36917579 original size:19 final size:21
Alignment explanation
Indices: 36917555--36917596 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
36917545 TGCCTAGTTA
36917555 CATCTC-ACGAACTCGG-ACT
1 CATCTCAACGAACTCGGAACT
*
36917574 CATCTCAACGAGCTCGGAACT
1 CATCTCAACGAACTCGGAACT
36917595 CA
1 CA
36917597 AATATCTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 9 0.45
21 5 0.25
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.19
Consensus pattern (21 bp):
CATCTCAACGAACTCGGAACT
Found at i:36923830 original size:19 final size:21
Alignment explanation
Indices: 36923806--36923847 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
36923796 TGCCTAGTTA
36923806 CATCTC-ACGAACTCGG-ACT
1 CATCTCAACGAACTCGGAACT
*
36923825 CATCTCAACGAGCTCGGAACT
1 CATCTCAACGAACTCGGAACT
36923846 CA
1 CA
36923848 AATATCTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 9 0.45
21 5 0.25
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.19
Consensus pattern (21 bp):
CATCTCAACGAACTCGGAACT
Found at i:36924759 original size:14 final size:13
Alignment explanation
Indices: 36924739--36924770 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
36924729 AATATTTAAC
36924739 TTGTTCTTAATTA
1 TTGTTCTTAATTA
36924752 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
36924766 TTGTT
1 TTGTT
36924771 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:36935368 original size:13 final size:13
Alignment explanation
Indices: 36935350--36935375 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36935340 AAGTAATCGT
36935350 ACACGGGCGTGTC
1 ACACGGGCGTGTC
36935363 ACACGGGCGTGTC
1 ACACGGGCGTGTC
36935376 CCTACCGACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:36941507 original size:7 final size:7
Alignment explanation
Indices: 36941484--36941518 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
36941474 AAACATTTAA
36941484 TTATTATT
1 TTATT-TT
36941492 TTATGTTT
1 TTAT-TTT
36941500 TTATTTT
1 TTATTTT
36941507 TTATTTT
1 TTATTTT
36941514 TTATT
1 TTATT
36941519 AAAATTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 15 0.58
8 10 0.38
9 1 0.04
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (7 bp):
TTATTTT
Found at i:36941556 original size:25 final size:26
Alignment explanation
Indices: 36941498--36941563 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
36941488 TATTTTATGT
*
36941498 TTTTATTTTTTATT-TTTTATTAAAA
1 TTTTATTTTTTATTATATTATTAAAA
* *
36941523 TTACT-TTTTTTATTATATT-TTAGAA
1 TT-TTATTTTTTATTATATTATTAAAA
*
36941548 TTTTATTTTTAATTAT
1 TTTTATTTTTTATTAT
36941564 CAATTTCGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
24 1 0.03
25 28 0.85
26 4 0.12
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (26 bp):
TTTTATTTTTTATTATATTATTAAAA
Found at i:36945698 original size:20 final size:20
Alignment explanation
Indices: 36945631--36945720 Score: 60
Period size: 20 Copynumber: 4.5 Consensus size: 20
36945621 TGTATAAACT
36945631 GTAATTCATTCA-TATAACCA
1 GTAATTCA-TCAGTATAACCA
* * *
36945651 GTAGTTCATCCGTATAAGCA
1 GTAATTCATCAGTATAACCA
* *
36945671 ATAGTTCATCAGTAATAA-CA
1 GTAATTCATCAGT-ATAACCA
* * *
36945691 GTAATTCAACCGTATTAA-TA
1 GTAATTCATCAGTA-TAACCA
36945711 GTAATTCATC
1 GTAATTCATC
36945721 CATTAATACT
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
19 3 0.05
20 49 0.88
21 4 0.07
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (20 bp):
GTAATTCATCAGTATAACCA
Found at i:36945727 original size:18 final size:19
Alignment explanation
Indices: 36945690--36945728 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
36945680 CAGTAATAAC
36945690 AGTAATTCAACCGTATTAAT
1 AGTAATTCAACCG-ATTAAT
*
36945710 AGTAATTCATCC-ATTAAT
1 AGTAATTCAACCGATTAAT
36945728 A
1 A
36945729 CTATACCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (19 bp):
AGTAATTCAACCGATTAAT
Found at i:36945982 original size:23 final size:24
Alignment explanation
Indices: 36945956--36946017 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 24
36945946 AGCTCTATTA
36945956 AGTTGAAACGGTAAGCTTTAT-CG
1 AGTTGAAACGGTAAGCTTTATACG
* * *
36945979 AGTT-TATCAGTAAGC-TTATACG
1 AGTTGAAACGGTAAGCTTTATACG
*
36946001 AGCTGAAACGGTAAGCT
1 AGTTGAAACGGTAAGCT
36946018 CCATTGAGCT
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
21 4 0.14
22 13 0.45
23 12 0.41
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (24 bp):
AGTTGAAACGGTAAGCTTTATACG
Found at i:36946226 original size:36 final size:36
Alignment explanation
Indices: 36946179--36946288 Score: 220
Period size: 36 Copynumber: 3.1 Consensus size: 36
36946169 AGGGCTCGAT
36946179 AACATATACATTATATCAATAAAGCATTCATACTTC
1 AACATATACATTATATCAATAAAGCATTCATACTTC
36946215 AACATATACATTATATCAATAAAGCATTCATACTTC
1 AACATATACATTATATCAATAAAGCATTCATACTTC
36946251 AACATATACATTATATCAATAAAGCATTCATACTTC
1 AACATATACATTATATCAATAAAGCATTCATACTTC
36946287 AA
1 AA
36946289 GTATTTCAAT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 74 1.00
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (36 bp):
AACATATACATTATATCAATAAAGCATTCATACTTC
Found at i:36952309 original size:20 final size:20
Alignment explanation
Indices: 36952286--36952331 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
36952276 TAAACTGTAA
* * *
36952286 TTCATTCATATAACCAGTAG
1 TTCATCCATATAAACAATAG
*
36952306 TTCATCCGTATAAACAATAG
1 TTCATCCATATAAACAATAG
36952326 TTCATC
1 TTCATC
36952332 AATAATAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (20 bp):
TTCATCCATATAAACAATAG
Found at i:36952633 original size:23 final size:22
Alignment explanation
Indices: 36952593--36952646 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
36952583 GATGATGAAT
*
36952593 AGTAAGCTCTATTAAGCTAAAAC
1 AGTAAGCTCTATCAAGCT-AAAC
* * *
36952616 AGTAAGCTCTATCGAGCTGATC
1 AGTAAGCTCTATCAAGCTAAAC
36952638 AGTAAGCTC
1 AGTAAGCTC
36952647 ATAAGAGCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (22 bp):
AGTAAGCTCTATCAAGCTAAAC
Found at i:36952654 original size:22 final size:22
Alignment explanation
Indices: 36952593--36952656 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
36952583 GATGATGAAT
* *
36952593 AGTAAGCTCTATTA-AGCTAAAAC
1 AGTAAGCTCTA-TAGAGCT-GATC
*
36952616 AGTAAGCTCTATCGAGCTGATC
1 AGTAAGCTCTATAGAGCTGATC
36952638 AGTAAGCTC-ATAAGAGCTG
1 AGTAAGCTCTAT-AGAGCTG
36952657 CGGTAAGCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.06
22 18 0.51
23 15 0.43
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (22 bp):
AGTAAGCTCTATAGAGCTGATC
Found at i:36954815 original size:18 final size:18
Alignment explanation
Indices: 36954772--36954806 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36954762 AAATCAAAAT
36954772 ATTGTGAGAGTTAAAAGC
1 ATTGTGAGAGTTAAAAGC
* *
36954790 ATGGTGAGTGTTAAAAG
1 ATTGTGAGAGTTAAAAG
36954807 TTTTGTGAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.31, T:0.29
Consensus pattern (18 bp):
ATTGTGAGAGTTAAAAGC
Found at i:36957805 original size:29 final size:30
Alignment explanation
Indices: 36957758--36957825 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
36957748 CGGCCCAAGA
* * * *
36957758 GTAAATACTTAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TGAAAAGTTGAAGGACTAATAGT
36957788 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATGAAAAGTTGAAGGACTAATAGT
*
36957818 GCAAATAT
1 GTAAATAT
36957826 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (30 bp):
GTAAATATGAAAAGTTGAAGGACTAATAGT
Found at i:36960935 original size:5 final size:5
Alignment explanation
Indices: 36960920--36960971 Score: 77
Period size: 5 Copynumber: 10.2 Consensus size: 5
36960910 AGTGGAAAAG
* *
36960920 TGAATT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT GGAAT GGAAT
1 TGAA-T TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT
36960971 T
1 T
36960972 ATGATTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
5 40 0.91
6 4 0.09
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
TGAAT
Found at i:36961444 original size:45 final size:45
Alignment explanation
Indices: 36961380--36961529 Score: 192
Period size: 45 Copynumber: 3.3 Consensus size: 45
36961370 CTGTTACCGC
* *
36961380 TACTGCTAATGTTACCGATTTGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
36961425 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGC
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * * * * *
36961470 TACTGTTACCGTTACTGATTCAGCACTTTGTGTGTTGAATACTAT
1 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
36961515 TACTGTTACTATTAC
1 TACTGCTACTGTTAC
36961530 TGTTACTGCT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 92 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:36961526 original size:12 final size:12
Alignment explanation
Indices: 36961509--36961555 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
36961499 GTGTGTTGAA
36961509 TACTATTACTGT
1 TACTATTACTGT
36961521 TACTATTACTGT
1 TACTATTACTGT
** *
36961533 TACTGCTACTAT
1 TACTATTACTGT
36961545 TACTGATTACT
1 TACT-ATTACT
36961556 ATTTTGGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 25 0.86
13 4 0.14
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.47
Consensus pattern (12 bp):
TACTATTACTGT
Found at i:36961535 original size:18 final size:18
Alignment explanation
Indices: 36961509--36961555 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
36961499 GTGTGTTGAA
* *
36961509 TACTATTACTGTTACTAT
1 TACTGTTACTGCTACTAT
36961527 TACTGTTACTGCTACTAT
1 TACTGTTACTGCTACTAT
36961545 TACTGATTACT
1 TACTG-TTACT
36961556 ATTTTGGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.47
Consensus pattern (18 bp):
TACTGTTACTGCTACTAT
Found at i:36963077 original size:29 final size:30
Alignment explanation
Indices: 36963032--36963099 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
36963022 CGGCCCAAGA
* * *
36963032 GTAAATACTTAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TGAAAATTTGAAGGACTAATAGT
36963062 GTAAATATGAAAATTTGAAGGACTAATAGT
1 GTAAATATGAAAATTTGAAGGACTAATAGT
*
36963092 GCAAATAT
1 GTAAATAT
36963100 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (30 bp):
GTAAATATGAAAATTTGAAGGACTAATAGT
Found at i:36965684 original size:70 final size:70
Alignment explanation
Indices: 36965569--36965726 Score: 190
Period size: 70 Copynumber: 2.3 Consensus size: 70
36965559 ACTACTGTAG
* ** * * ***
36965569 CTCTTTGTGAGCAACCTGTTGCATGATTCGATCTGTTGCGATCTAGCATTTATTATGGACACAAA
1 CTCTTCGTGAGCGTCCTGTTACATGATTCGATCGGTTGCGATCTAGCATTTATTACAAACACAAA
36965634 CGAAA
66 CGAAA
* * *
36965639 CTCTTCGTGAGCGTCCTGTTACATGATTTGATCGGTTGCGGTCTAGCATTTATTCCAAACACAAA
1 CTCTTCGTGAGCGTCCTGTTACATGATTCGATCGGTTGCGATCTAGCATTTATTACAAACACAAA
*
36965704 CGCAA
66 CGAAA
* *
36965709 CTTTTCGTGAGTGTCCTG
1 CTCTTCGTGAGCGTCCTG
36965727 ATATAAGCTC
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (70 bp):
CTCTTCGTGAGCGTCCTGTTACATGATTCGATCGGTTGCGATCTAGCATTTATTACAAACACAAA
CGAAA
Found at i:36965759 original size:23 final size:23
Alignment explanation
Indices: 36965744--36965792 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
36965734 CTCTTATGAG
*
36965744 CTTCTTGACATGGCTCGCTTGAA
1 CTTCCTGACATGGCTCGCTTGAA
*
36965767 CTTCCTGACATGGCTTGCTTGAA
1 CTTCCTGACATGGCTCGCTTGAA
36965790 CTT
1 CTT
36965793 TCTGTTATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (23 bp):
CTTCCTGACATGGCTCGCTTGAA
Found at i:36968437 original size:269 final size:269
Alignment explanation
Indices: 36967958--36968487 Score: 997
Period size: 269 Copynumber: 2.0 Consensus size: 269
36967948 TTCTATGTTG
* * *
36967958 CCTTATTTTCAAATTTTGAAACTTCTATGTGATGTATTTGGGGATACCTATGTGGTAGAATTTGG
1 CCTTATTTTCAAATTCTGAAACTTCTATGTGATGTATTCGGGGATACCTACGTGGTAGAATTTGG
*
36968023 TTATCCACCATTGTGGTAGGATCTGGGTAAGTTATGAGATTTCTTCGATAGATAATTCTGTAATA
66 TTATCCACCATTGTGGTAAGATCTGGGTAAGTTATGAGATTTCTTCGATAGATAATTCTGTAATA
36968088 ACGATCTGATACGTCTGAAGTTAACTTGGTTTGGTTAGTCTTGTGATGAAATCGAGTAAGTCTTA
131 ACGATCTGATACGTCTGAAGTTAACTTGGTTTGGTTAGTCTTGTGATGAAATCGAGTAAGTCTTA
*
36968153 AGGGATGTTTCCTGAAAGTAAGTATGTATCTATATTTCTAAAGAGCCATAGTAGTTTGCCAATAT
196 AGGGATGTTTCCTGAAAGTAAGTATGTATCTATAGTTCTAAAGAGCCATAGTAGTTTGCCAATAT
36968218 ACTATATTA
261 ACTATATTA
36968227 CCTTATTTTCAAATTCTGAAACTTCTATGTGATGTATTCGGGGATACCTACGTGGTAGAATTTGG
1 CCTTATTTTCAAATTCTGAAACTTCTATGTGATGTATTCGGGGATACCTACGTGGTAGAATTTGG
36968292 TTATCCACCATTGTGGTAAGATCTGGGTAAGTTATGAGATTTCTTCGATAGATAATTCTGTAATA
66 TTATCCACCATTGTGGTAAGATCTGGGTAAGTTATGAGATTTCTTCGATAGATAATTCTGTAATA
*
36968357 AGGATCTGATACGTCTGAAGTTAACTTGGTTTGGTTAGTCTTGTGATGAAATCGAGTAAGTCTTA
131 ACGATCTGATACGTCTGAAGTTAACTTGGTTTGGTTAGTCTTGTGATGAAATCGAGTAAGTCTTA
*
36968422 AGGGATGTTTCCTGAAAGTATGTATGTATCTATAGTTCTAAAGAGCCATAGTAGTTTGCCAATAT
196 AGGGATGTTTCCTGAAAGTAAGTATGTATCTATAGTTCTAAAGAGCCATAGTAGTTTGCCAATAT
36968487 A
261 A
36968488 AGAAATAGGT
Statistics
Matches: 254, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
269 254 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (269 bp):
CCTTATTTTCAAATTCTGAAACTTCTATGTGATGTATTCGGGGATACCTACGTGGTAGAATTTGG
TTATCCACCATTGTGGTAAGATCTGGGTAAGTTATGAGATTTCTTCGATAGATAATTCTGTAATA
ACGATCTGATACGTCTGAAGTTAACTTGGTTTGGTTAGTCTTGTGATGAAATCGAGTAAGTCTTA
AGGGATGTTTCCTGAAAGTAAGTATGTATCTATAGTTCTAAAGAGCCATAGTAGTTTGCCAATAT
ACTATATTA
Found at i:36970326 original size:28 final size:28
Alignment explanation
Indices: 36970285--36970340 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
36970275 ATGCCGTTGA
* *
36970285 ATACTCAATGTCTCACACATTAAGTGCC
1 ATACTCAATATCTCACACACTAAGTGCC
*
36970313 ATACTCAATATCTCGCACACTAAGTGCC
1 ATACTCAATATCTCACACACTAAGTGCC
36970341 GTACGTAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (28 bp):
ATACTCAATATCTCACACACTAAGTGCC
Found at i:36970428 original size:40 final size:41
Alignment explanation
Indices: 36970325--36970459 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 41
36970315 ACTCAATATC
** ** * *
36970325 TCGCACACTAAGTGCCGTACGTAGCC-GAAGCTATCTCAAA
1 TCGCACACTAAGTGCTATATATAGCCAGAAGCTATGTCGAA
* * * *
36970365 TCTCACACTAAGCGCTATTTATAG-TAGAAGCTATGTCGAA
1 TCGCACACTAAGTGCTATATATAGCCAGAAGCTATGTCGAA
* *
36970405 TCGCACACTAAGTG-TCATATATAGCCA-AAGCTATGTTGTA
1 TCGCACACTAAGTGCT-ATATATAGCCAGAAGCTATGTCGAA
36970445 TCGCACACTAAGTGC
1 TCGCACACTAAGTGC
36970460 CACAAATAAT
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
39 1 0.01
40 73 0.97
41 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (41 bp):
TCGCACACTAAGTGCTATATATAGCCAGAAGCTATGTCGAA
Found at i:36977842 original size:40 final size:40
Alignment explanation
Indices: 36977792--36977886 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
36977782 ATCTCAAATT
*
36977792 GCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATC
1 GCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATC
* * * * *
36977832 TCACATTAAGTGCCATATATAGTCAAAGCTATGTTGTATC
1 GCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATC
36977872 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
36977887 CAAATAATCG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (40 bp):
GCACACTAAGTGCCATATATAGCCAAAGCTATGTCGAATC
Found at i:36979745 original size:40 final size:38
Alignment explanation
Indices: 36979660--36979754 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 38
36979650 ACCATCTCCG
* *
36979660 TCCAACCCAACACACCATGTGGGGATAGAATCGACCCA
1 TCCAACCCTACACACCATGTGGGGATAGAATCAACCCA
* * *
36979698 -CCTAACCCTACATACCATGTATGGGGATATAATCAACTCA
1 TCC-AACCCTACACACCATG--TGGGGATAGAATCAACCCA
36979738 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
36979755 AAAGGTATCG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
37 2 0.04
38 14 0.30
40 29 0.62
41 2 0.04
ACGTcount: A:0.35, C:0.35, G:0.13, T:0.18
Consensus pattern (38 bp):
TCCAACCCTACACACCATGTGGGGATAGAATCAACCCA
Found at i:36980480 original size:30 final size:30
Alignment explanation
Indices: 36980444--36980503 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
36980434 GGCTTTTGCT
36980444 GAAACTCGTTTTCTACGCGATCAGAGTATA
1 GAAACTCGTTTTCTACGCGATCAGAGTATA
*
36980474 GAAACTCGTTTTCTACGTGATCAGAGTATA
1 GAAACTCGTTTTCTACGCGATCAGAGTATA
36980504 CACCTAGTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (30 bp):
GAAACTCGTTTTCTACGCGATCAGAGTATA
Found at i:36986909 original size:38 final size:40
Alignment explanation
Indices: 36986858--36986950 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
36986848 ATCTCTGTCT
* * *
36986858 AACCCAACACACCATGTA-GAG-ATAGAATCGACCCACCC
1 AACCCTACACACCAAGTATGAGAATAGAATCAACCCACCC
* * *
36986896 AACCCTACACACCAAGTATGGGAATATAATCAACCCATCC
1 AACCCTACACACCAAGTATGAGAATAGAATCAACCCACCC
36986936 AACCCTACACACCAA
1 AACCCTACACACCAA
36986951 AAGGTACCGT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 16 0.34
39 2 0.04
40 29 0.62
ACGTcount: A:0.41, C:0.37, G:0.10, T:0.13
Consensus pattern (40 bp):
AACCCTACACACCAAGTATGAGAATAGAATCAACCCACCC
Found at i:37002080 original size:18 final size:18
Alignment explanation
Indices: 37002057--37002098 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
37002047 TGATGGCGCA
37002057 GACATGATCAGCTAATTG
1 GACATGATCAGCTAATTG
37002075 GACATGATCAGCTAATTG
1 GACATGATCAGCTAATTG
37002093 GACATG
1 GACATG
37002099 TTCCAAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (18 bp):
GACATGATCAGCTAATTG
Found at i:37002734 original size:5 final size:4
Alignment explanation
Indices: 37002707--37002802 Score: 54
Period size: 4 Copynumber: 23.0 Consensus size: 4
37002697 TGGGGTTAAT
* * *
37002707 AATA AATTA AAT- AA-A AATA AATA GAAT- ACTA ATATA GAATG AATT
1 AATA AA-TA AATA AATA AATA AATA -AATA AATA A-ATA -AATA AATA
* * *
37002752 AATA AAGA AATAA AATA CAATA AAAA AATA AATGA AATA AATA AAAA AATA
1 AATA AATA AAT-A AATA -AATA AATA AATA AAT-A AATA AATA AATA AATA
37002803 GGGAAAAAGA
Statistics
Matches: 71, Mismatches: 11, Indels: 20
0.70 0.11 0.20
Matches are distributed among these distances:
3 6 0.08
4 41 0.58
5 23 0.32
6 1 0.01
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:37002796 original size:21 final size:22
Alignment explanation
Indices: 37002759--37002802 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
37002749 ATTAATAAAG
37002759 AAATAAAATACAATAAAAAAAT
1 AAATAAAATACAATAAAAAAAT
*
37002781 AAATGAAATA-AATAAAAAAAT
1 AAATAAAATACAATAAAAAAAT
37002802 A
1 A
37002803 GGGAAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (22 bp):
AAATAAAATACAATAAAAAAAT
Found at i:37005473 original size:38 final size:38
Alignment explanation
Indices: 37005389--37005578 Score: 209
Period size: 38 Copynumber: 4.9 Consensus size: 38
37005379 GAATCCAGTC
* * **
37005389 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAAATATAAT
1 ACCAGCACAAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
*
37005429 ACCAGCACAAAGCCTACGGGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
37005467 ACCAGCACGAAGCCTGCCGGATTTAACCCGGATATATT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAAT
* * * *
37005505 ACTAGTACAAAGGCTGCGAGATTTAACCCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAAT
* **
37005543 ACCAGCACATAGCCTGCGAGTCTTTAAGCCCGGATA
1 ACCAGCACAAAGCCTGCG-GGATTTAA-CCCGGATA
37005579 CACATCAAAT
Statistics
Matches: 125, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
38 88 0.70
39 10 0.08
40 27 0.22
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (38 bp):
ACCAGCACAAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:37008348 original size:36 final size:36
Alignment explanation
Indices: 37008308--37008379 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
37008298 TTAAATAGGT
*
37008308 AAATTGGTTATTAAATGTTAATTAAATAAAATAAAA
1 AAATTGGTTATTAAAGGTTAATTAAATAAAATAAAA
37008344 AAATTGGTTATTAAAGGTTAATTAAATAAAATAAAA
1 AAATTGGTTATTAAAGGTTAATTAAATAAAATAAAA
37008380 CATTTTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.35
Consensus pattern (36 bp):
AAATTGGTTATTAAAGGTTAATTAAATAAAATAAAA
Found at i:37015046 original size:48 final size:47
Alignment explanation
Indices: 37014927--37015091 Score: 208
Period size: 48 Copynumber: 3.5 Consensus size: 47
37014917 TATGTGTCCT
* * * * *
37014927 AGTGTAAGACATGTCTGGGACATTCATCGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATAT-AAAGCC
* *
37014973 AGTGTAAGACATGTCTGGGATATGCATCGGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATA-AAGCC
* *
37015021 AGTGTAAGACATGTCTAGGACATGCATCGGCCTTGAGATATAAAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATAAAGCC
*
37015068 AGTGTAAGACCTGTCTAGGACATG
1 AGTGTAAGACATGTCTAGGACATG
37015092 GCGTCAGCTT
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
46 31 0.29
47 29 0.27
48 46 0.43
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATAAAGCC
Found at i:37015174 original size:49 final size:49
Alignment explanation
Indices: 37015114--37015241 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 49
37015104 TGTGTTTCAA
*
37015114 TGTAAGACCTGTCTGGGACATGGCATCGACACCAG-CAGATGAGAGCCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGAC-CCAGACAGATGAAAGCCAG
* * ** * * *
37015163 TGTAAGGCCTGTTTGGGACATGGCATC-AGCCTTGATATATGAAAGTCAG
1 TGTAAGACCTGTCTGGGACATGGCATCGA-CCCAGACAGATGAAAGCCAG
37015212 TGTAAGACCTGTCTGGGACATGGCATCGAC
1 TGTAAGACCTGTCTGGGACATGGCATCGAC
37015242 TTTGATGTGC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
48 3 0.05
49 62 0.94
50 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (49 bp):
TGTAAGACCTGTCTGGGACATGGCATCGACCCAGACAGATGAAAGCCAG
Found at i:37015247 original size:49 final size:49
Alignment explanation
Indices: 37014963--37015282 Score: 227
Period size: 48 Copynumber: 6.7 Consensus size: 49
37014953 TCGGCCACAT
* * * * *
37014963 TATGAGAGCCAGTGTAAGACATGTCTGGGATAT-GCATCGGCCTCGAGA
1 TATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGAGA
* * *
37015011 TAT-ACAAGCCAGTGTAAGACATGTCTAGGACAT-GCATCGGCCTTGAGA
1 TATGA-AAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGAGA
* * * *
37015059 TAT-AAAGCTAGTGTAAGACCTGTCTAGGACATGGCGTC-AGCTT--G-
1 TATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGAGA
***** * *
37015103 T-TGTGTTTCAATGTAAGACCTGTCTGGGACATGGCATCGACAC--CAGCA
1 TATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTTGAG-A
* * * * *
37015151 GATGAGAGCCAGTGTAAGGCCTGTTTGGGACATGGCATC-AGCCTTGATA
1 TATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTTGAGA
* *
37015200 TATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATCGA-CTT-TGA
1 TATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGAGA
* ** *
37015247 TGTGCTAGCTAGTGTAAGACCATGTCTGGGACATGG
1 TATGAAAGCCAGTGTAAGACC-TGTCTGGGACATGG
37015283 TGTCGGCATC
Statistics
Matches: 216, Mismatches: 41, Indels: 30
0.75 0.14 0.10
Matches are distributed among these distances:
43 1 0.00
44 27 0.12
45 2 0.01
46 2 0.01
47 47 0.22
48 69 0.32
49 66 0.31
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (49 bp):
TATGAAAGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTTGAGA
Found at i:37024479 original size:48 final size:48
Alignment explanation
Indices: 37024427--37024524 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
37024417 TATAGAGACT
37024427 TAGTTTTTATGATAGATGTTGTTATGATCAGCCAAATGTATTTACTTA
1 TAGTTTTTATGATAGATGTTGTTATGATCAGCCAAATGTATTTACTTA
*
37024475 TAGTTTTTATGATAGATGTTGTTATGATCATCCAAATGTATTTACTTA
1 TAGTTTTTATGATAGATGTTGTTATGATCAGCCAAATGTATTTACTTA
37024523 TA
1 TA
37024525 TTGATTCATT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (48 bp):
TAGTTTTTATGATAGATGTTGTTATGATCAGCCAAATGTATTTACTTA
Found at i:37029862 original size:48 final size:46
Alignment explanation
Indices: 37029755--37029970 Score: 222
Period size: 46 Copynumber: 4.6 Consensus size: 46
37029745 TATGTGTGCT
* *
37029755 AGTGTAAGACATGTCTGGGACATGCATCGGCCAT-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TGAGATAT-AAAGCC
*
37029801 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-GAGATATA-AAGCC
* ** ** * *
37029849 AGTGTAAGACATGTTTGGGACATGCATCGGAATTGAGA-CGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CCTGAGATATAAAGCC
* * *
37029895 AGTGTAAGACATGTCTGGGACATGCATCGGTCTGGAGATACAAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-GAGATATAAAGCC
*
37029942 AGTGTAAGACCTGTCTGGGACATGGCATC
1 AGTGTAAGACATGTCTGGGACAT-GCATC
37029971 AACTTGTTGT
Statistics
Matches: 144, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
45 2 0.01
46 67 0.47
47 30 0.21
48 44 0.31
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTGAGATATAAAGCC
Found at i:37029904 original size:94 final size:92
Alignment explanation
Indices: 37029755--37029970 Score: 283
Period size: 94 Copynumber: 2.3 Consensus size: 92
37029745 TATGTGTGCT
*
37029755 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGAGAGCCAGTGTAAGACATGTCTAGG
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATATTACGAGAGCCAGTGTAAGACATGTCTAGG
*
37029820 ACATGCATCGGCCTCGAGATATACAAGCC
65 ACATGCATCGGCCTCGAGATACA-AAGCC
* * *
37029849 AGTGTAAGACATGTTTGGGACATGCATCGG-A-ATTGAGACGAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATATT---ACGAGAGCCAGTGTAAGACATGTCTA
* * *
37029912 GGACATGCATCGGTCTGGAGATACAAAGCT
63 GGACATGCATCGGCCTCGAGATACAAAGCC
*
37029942 AGTGTAAGACCTGTCTGGGACATGGCATC
1 AGTGTAAGACATGTCTGGGACAT-GCATC
37029971 AACTTGTTGT
Statistics
Matches: 108, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
91 3 0.03
92 1 0.01
93 25 0.23
94 79 0.73
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATATTACGAGAGCCAGTGTAAGACATGTCTAGGA
CATGCATCGGCCTCGAGATACAAAGCC
Found at i:37040017 original size:25 final size:26
Alignment explanation
Indices: 37039969--37040020 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
37039959 GGATTTTGGC
*
37039969 ATATTTGCTATCTGAATCTAAAACTG
1 ATATTTGCAATCTGAATCTAAAACTG
* *
37039995 ATATTTG-AATCTGAGTCTGAAACTG
1 ATATTTGCAATCTGAATCTAAAACTG
37040020 A
1 A
37040021 GTCTATATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (26 bp):
ATATTTGCAATCTGAATCTAAAACTG
Found at i:37043999 original size:13 final size:13
Alignment explanation
Indices: 37043981--37044015 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
37043971 AAAATGACTT
*
37043981 AATTAAGCTTACC
1 AATTAAACTTACC
37043994 AATTAAACTTACC
1 AATTAAACTTACC
37044007 AATTAAACT
1 AATTAAACT
37044016 CCAAGCTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (13 bp):
AATTAAACTTACC
Found at i:37044201 original size:24 final size:25
Alignment explanation
Indices: 37044169--37044233 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 25
37044159 TGTTTTATTT
*
37044169 ATTTTATTAACTTAATATAT-TATA
1 ATTTAATTAACTTAATATATCTATA
*
37044193 ATTTAATT-ACTATAA-ATATCTATC
1 ATTTAATTAACT-TAATATATCTATA
*
37044217 ATATAATTAA--TAATATA
1 ATTTAATTAACTTAATATA
37044234 ATAGAAATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 3 0.09
23 10 0.29
24 20 0.59
25 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTTAATTAACTTAATATATCTATA
Found at i:37044690 original size:3 final size:3
Alignment explanation
Indices: 37044682--37044736 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
37044672 TTTATTTCAA
* *
37044682 AAT AAT AAT AAT AAT AAT AAT AAT -AT AATT CAAT -TT AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T -AAT AAT AAT AAT AAT
37044727 AAT -AT AAT AA
1 AAT AAT AAT AA
37044737 GATATGCTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
2 5 0.12
3 34 0.79
4 2 0.05
5 2 0.05
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:37051305 original size:13 final size:12
Alignment explanation
Indices: 37051272--37051305 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
37051262 GAAATTAAAA
*
37051272 TAATTATACCAT
1 TAATTATAACAT
37051284 TAATTATAACAT
1 TAATTATAACAT
37051296 TAATTTATAA
1 TAA-TTATAA
37051306 TAATAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATTATAACAT
Found at i:37051890 original size:24 final size:25
Alignment explanation
Indices: 37051858--37051922 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 25
37051848 TGTTTTATTT
*
37051858 ATTTTATTAACTTAATATAT-TATA
1 ATTTAATTAACTTAATATATCTATA
*
37051882 ATTTAATT-ACTATAA-ATATCTATC
1 ATTTAATTAACT-TAATATATCTATA
*
37051906 ATATAATTAA--TAATATA
1 ATTTAATTAACTTAATATA
37051923 ATAGAAATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 3 0.09
23 10 0.29
24 20 0.59
25 1 0.03
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTTAATTAACTTAATATATCTATA
Found at i:37057605 original size:6 final size:6
Alignment explanation
Indices: 37057577--37057620 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
37057567 CATATTTGCC
*
37057577 ATCTTA ATCTGAA AT-TGA TATCTGA ATCTGA ATCTGA ATCTGA A
1 ATCTGA ATCTG-A ATCTGA -ATCTGA ATCTGA ATCTGA ATCTGA A
37057621 AATGAGTCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
5 1 0.03
6 27 0.79
7 6 0.18
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (6 bp):
ATCTGA
Found at i:37065749 original size:12 final size:12
Alignment explanation
Indices: 37065716--37065752 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
37065706 AAAATACTTG
*
37065716 AAATAAATAAAT
1 AAATAAATAGAT
37065728 AAATAAATAGAT
1 AAATAAATAGAT
*
37065740 AAATATATAGAT
1 AAATAAATAGAT
37065752 A
1 A
37065753 TAGTTAATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (12 bp):
AAATAAATAGAT
Found at i:37068472 original size:6 final size:6
Alignment explanation
Indices: 37068463--37068487 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37068453 CCTTAATCAT
37068463 AATTAC AATTAC AATTAC AATTAC A
1 AATTAC AATTAC AATTAC AATTAC A
37068488 TAACCATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
AATTAC
Found at i:37071967 original size:2 final size:2
Alignment explanation
Indices: 37071960--37072022 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
37071950 TATTAACAGA
37071960 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
37072002 TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG T
37072023 ACGTATGATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:37076763 original size:43 final size:43
Alignment explanation
Indices: 37076716--37076829 Score: 185
Period size: 43 Copynumber: 2.7 Consensus size: 43
37076706 TGTGACTACA
*
37076716 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTAT-G
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTATGATT-TCG
37076759 TGTAAGACCATGTCTGGGACATTGGCATTGTATTATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTATGATTTCG
* *
37076802 TGTAAGACCCTGTCTGGGACAATGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
37076830 CAATATGTGA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
42 1 0.01
43 66 0.99
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTATGATTTCG
Found at i:37079001 original size:46 final size:46
Alignment explanation
Indices: 37078923--37079047 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 46
37078913 GGTTGAGCAT
* * * * *
37078923 CCGAAGTCGTTGAGTTGAGTCCGAGTTTACTTACGGACGTGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGACGCGAACGC
* * *
37078969 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGACGCGAACGC
* *
37079015 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
37079048 GGGGCGGGTT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 68 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGACGCGAACGC
Found at i:37080606 original size:17 final size:17
Alignment explanation
Indices: 37080584--37080618 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
37080574 CATATGGCCT
37080584 TGGTACACGGCCGTGTG
1 TGGTACACGGCCGTGTG
37080601 TGGTACACGGCCGTGTG
1 TGGTACACGGCCGTGTG
37080618 T
1 T
37080619 CTCCTGGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.23, G:0.40, T:0.26
Consensus pattern (17 bp):
TGGTACACGGCCGTGTG
Found at i:37084240 original size:93 final size:93
Alignment explanation
Indices: 37084127--37084298 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
37084117 CGCCCATAAG
* *
37084127 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37084192 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
* *
37084220 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37084285 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
37084299 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:37084295 original size:46 final size:46
Alignment explanation
Indices: 37084120--37084295 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
37084110 TGTAACCCGC
* * * *
37084120 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
37084166 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
37084216 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
37084259 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
37084296 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 62 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:37084314 original size:46 final size:46
Alignment explanation
Indices: 37084169--37084307 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
37084159 TTCGCATCCA
*
37084169 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
37084217 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
37084262 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
37084308 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:37093034 original size:34 final size:34
Alignment explanation
Indices: 37092990--37093068 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
37092980 GTATTATTTA
*
37092990 GTGTGTTGGATGGTTTAACTCATACGAGCAAT-TG
1 GTGTGCTGGATGGTTTAACTCATACGAGC-ATCTG
* * *
37093024 GTGTGCTGGATGGTTTAGCTTATAGGAGCATCTG
1 GTGTGCTGGATGGTTTAACTCATACGAGCATCTG
*
37093058 ATGTGCTGGAT
1 GTGTGCTGGAT
37093069 CATTAACTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 2 0.05
34 37 0.95
ACGTcount: A:0.20, C:0.11, G:0.33, T:0.35
Consensus pattern (34 bp):
GTGTGCTGGATGGTTTAACTCATACGAGCATCTG
Found at i:37097125 original size:3 final size:3
Alignment explanation
Indices: 37097099--37097158 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
37097089 AAAAAGATAT
* * * * *
37097099 TTA TTA TAA TTA TAA TAA TAA TTA TTA TTG TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37097147 TTA TTA TTA TTA
1 TTA TTA TTA TTA
37097159 ATTAGTATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:37100889 original size:15 final size:15
Alignment explanation
Indices: 37100869--37100898 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37100859 ATCAAATGAT
37100869 GGTTAAAGAGACTGA
1 GGTTAAAGAGACTGA
37100884 GGTTAAAGAGACTGA
1 GGTTAAAGAGACTGA
37100899 TGTTTATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (15 bp):
GGTTAAAGAGACTGA
Found at i:37111118 original size:34 final size:34
Alignment explanation
Indices: 37111044--37111118 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
37111034 CAGTATTATT
*
37111044 TGGTGTGCTGGATGGTTTAGCTCATACGAGCAAT
1 TGGTGTGCTGGATGGTTTAGCTCATACGAGCAAC
* * *
37111078 TCGTGTGCTGGATGGTTTAGCTTATATGAG-AACC
1 TGGTGTGCTGGATGGTTTAGCTCATACGAGCAA-C
37111112 TGGTGTG
1 TGGTGTG
37111119 TGCTAGACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 2 0.06
34 33 0.94
ACGTcount: A:0.19, C:0.13, G:0.33, T:0.35
Consensus pattern (34 bp):
TGGTGTGCTGGATGGTTTAGCTCATACGAGCAAC
Found at i:37120267 original size:2 final size:2
Alignment explanation
Indices: 37120260--37120319 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
37120250 TTAGTAGATA
37120260 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
37120302 TG TG TG TG TG TG T- TG TG T
1 TG TG TG TG TG TG TG TG TG T
37120320 TTTTAAATTT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:37124990 original size:43 final size:43
Alignment explanation
Indices: 37124909--37125047 Score: 154
Period size: 43 Copynumber: 3.2 Consensus size: 43
37124899 GAGATTACAA
** *
37124909 GTAAGACCATGTCTGGGACATTGGCATTATATTGTGATTACGT
1 GTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTACGT
**
37124952 GTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTTGT
1 GTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTACGT
* * * * * *
37124995 GTAAGACCCTGTTTGGGATAGTGGCATCG-ATATATGATAACAT
1 GTAAGACCATGTCTGGGACATTGGCATCGTAT-TATGATTACGT
*
37125038 GTAACACCAT
1 GTAAGACCAT
37125048 ATCTAGGATA
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
42 2 0.03
43 78 0.98
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
GTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTACGT
Found at i:37127194 original size:21 final size:21
Alignment explanation
Indices: 37127168--37127211 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
37127158 TGAGTCCTCG
37127168 AGCTCTGTGAAATAGGGAAAA
1 AGCTCTGTGAAATAGGGAAAA
37127189 AGCTCTGTGAAATAGGGAAAA
1 AGCTCTGTGAAATAGGGAAAA
37127210 AG
1 AG
37127212 AGAGGGGTAA
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:0.43, C:0.09, G:0.30, T:0.18
Consensus pattern (21 bp):
AGCTCTGTGAAATAGGGAAAA
Found at i:37141324 original size:126 final size:128
Alignment explanation
Indices: 37141180--37141412 Score: 389
Period size: 128 Copynumber: 1.8 Consensus size: 128
37141170 ATTAAAATAG
* *
37141180 TGCCCAAGAAAAATCTTGACCATATCGGCACAAATAAAT-AAAAAAATCATAAGGGATTATTAGG
1 TGCCCAAGAAAAATCTTGACCATATCGGCACAAATAAATAAAAAAAATCATAAGGGATTATCAAG
*
37141244 GAAATATTACTGCATTAGAGTTCAAAGCATGGACAAAAATACTAATATAACCCTTTATAAAAA
66 GAAATATTACTGCATTAGAGTTCAAAGCATGGAAAAAAATACTAATATAACCCTTTATAAAAA
* * *
37141307 TGCCCAA-AAAAATCTTGATCGTATTGGCACAAATAAATAAAAAAAAATCATAAGGGATTATCAA
1 TGCCCAAGAAAAATCTTGACCATATCGGCACAAATAAAT-AAAAAAAATCATAAGGGATTATCAA
37141371 GGAAATATTACTGCATTAGAGTTCAAAGCATGGAAAAAAATA
65 GGAAATATTACTGCATTAGAGTTCAAAGCATGGAAAAAAATA
37141413 AGCCGAGTAG
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
126 28 0.29
127 7 0.07
128 63 0.64
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (128 bp):
TGCCCAAGAAAAATCTTGACCATATCGGCACAAATAAATAAAAAAAATCATAAGGGATTATCAAG
GAAATATTACTGCATTAGAGTTCAAAGCATGGAAAAAAATACTAATATAACCCTTTATAAAAA
Found at i:37150019 original size:28 final size:28
Alignment explanation
Indices: 37149956--37150106 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
37149946 ATATTAAGTC
*
37149956 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
37149983 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
37150011 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
37150039 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
37150067 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
37150096 CGCACACTTAG
1 CGCACACTTAG
37150107 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:37155737 original size:28 final size:28
Alignment explanation
Indices: 37155701--37155769 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 28
37155691 CTTTAGGTCA
*
37155701 AATCTCATTCATATGGCCCATCACGCCC
1 AATCACATTCATATGGCCCATCACGCCC
*
37155729 AATCACATTCATATGGCCCATCAGGCCC
1 AATCACATTCATATGGCCCATCACGCCC
*
37155757 AACCACATTCATA
1 AATCACATTCATA
37155770 GTCATGAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.36, G:0.10, T:0.23
Consensus pattern (28 bp):
AATCACATTCATATGGCCCATCACGCCC
Found at i:37155851 original size:17 final size:18
Alignment explanation
Indices: 37155829--37155862 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37155819 TGCCTATTAT
37155829 GGGCCC-TATAGCCCATC
1 GGGCCCATATAGCCCATC
*
37155846 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
37155863 TTTGGCCCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.38, G:0.24, T:0.21
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:37164266 original size:29 final size:29
Alignment explanation
Indices: 37164233--37164306 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
37164223 GTTGTGAGAT
* *
37164233 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
37164262 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
37164291 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
37164307 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:37166350 original size:40 final size:40
Alignment explanation
Indices: 37166292--37166453 Score: 263
Period size: 40 Copynumber: 4.0 Consensus size: 40
37166282 CGGATGATAA
37166292 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37166332 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
**
37166372 CCGGGCTAAGTCCCGAAGGCATTCATGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
37166412 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
37166452 CC
1 CC
37166454 AGCTAAATCC
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
39 2 0.02
40 111 0.98
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:37174718 original size:13 final size:14
Alignment explanation
Indices: 37174702--37174737 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
37174692 TTTTTTCTAA
37174702 AATTAAATATAT-T
1 AATTAAATATATAT
37174715 AATT-AATA-ATAT
1 AATTAAATATATAT
37174727 AATTAAATATA
1 AATTAAATATA
37174738 ATATTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 2 0.10
12 9 0.45
13 8 0.40
14 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTAAATATATAT
Found at i:37174927 original size:17 final size:17
Alignment explanation
Indices: 37174886--37174929 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
37174876 TCAACTCAAT
* *
37174886 TAATTAAATTATTTTTA
1 TAATTAAAATATTTATA
*
37174903 -AATAAAAATATTTATA
1 TAATTAAAATATTTATA
37174919 TAATTAAAATA
1 TAATTAAAATA
37174930 AATATTGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATTAAAATATTTATA
Found at i:37175815 original size:20 final size:22
Alignment explanation
Indices: 37175781--37175820 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
37175771 ATTTACTCTT
37175781 AATTATAATTAAAATTATTTAA
1 AATTATAATTAAAATTATTTAA
37175803 AATTA-AATT-AAATTATTT
1 AATTATAATTAAAATTATTT
37175821 TGTATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTATAATTAAAATTATTTAA
Found at i:37177647 original size:25 final size:25
Alignment explanation
Indices: 37177598--37177650 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
37177588 GTAAGCTTAG
* *
37177598 AAAGTTTAGTAAGTCATAAGCAAAT
1 AAAGCTTAGTAAGCCATAAGCAAAT
37177623 AAAGCTTAGTAAGCCATAAGCAAAT
1 AAAGCTTAGTAAGCCATAAGCAAAT
37177648 AAA
1 AAA
37177651 TCATCTCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.11, G:0.15, T:0.23
Consensus pattern (25 bp):
AAAGCTTAGTAAGCCATAAGCAAAT
Found at i:37178747 original size:34 final size:34
Alignment explanation
Indices: 37178702--37178790 Score: 153
Period size: 34 Copynumber: 2.6 Consensus size: 34
37178692 TTTCAAAGCT
*
37178702 CAACTTAATTCAGCAACATATATATATTTCTTTA
1 CAACTCAATTCAGCAACATATATATATTTCTTTA
*
37178736 CAATTCAATTCAGCAACATATATATATTTCTTTA
1 CAACTCAATTCAGCAACATATATATATTTCTTTA
37178770 CAACTCAATTCAGC-ACATATA
1 CAACTCAATTCAGCAACATATA
37178791 ATGCACATGC
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 7 0.13
34 45 0.87
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.37
Consensus pattern (34 bp):
CAACTCAATTCAGCAACATATATATATTTCTTTA
Done.