Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold2469.1
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: 239916
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.31
Warning! 12315 characters in sequence are not A, C, G, or T
Found at i:11142 original size:30 final size:30
Alignment explanation
Indices: 11108--11164 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11098 TCCTAATGAC
* *
11108 TTAAAT-AAAGATTTTCGAATAGTTCAGGAT
1 TTAAATCAAA-ATTCTCAAATAGTTCAGGAT
11138 TTAAATCAAAATTCTCAAATAGTTCAG
1 TTAAATCAAAATTCTCAAATAGTTCAG
11165 AGATCATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (30 bp):
TTAAATCAAAATTCTCAAATAGTTCAGGAT
Found at i:17071 original size:22 final size:23
Alignment explanation
Indices: 17032--17075 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
17022 TATTTTTTAA
*
17032 ATATTTTTTACTTTTTTATTTTTC
1 ATATTTTTTA-TTATTTATTTTTC
17056 ATATTTTTT-TTATTTATTTT
1 ATATTTTTTATTATTTATTTT
17076 CACTTAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
24 9 0.47
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (23 bp):
ATATTTTTTATTATTTATTTTTC
Found at i:25876 original size:30 final size:30
Alignment explanation
Indices: 25809--25877 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
25799 AACTGTAGAC
* * *
25809 GATGGTGCATAAAATGGTGTCGGGGACGAT
1 GATGGTGCAAAAAATGATGGCGGGGACGAT
* * **
25839 AAAGGTGCAAAAAATGATGGCGGGTTCGAT
1 GATGGTGCAAAAAATGATGGCGGGGACGAT
25869 GATGGTGCA
1 GATGGTGCA
25878 TAATAAGATG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.10, G:0.38, T:0.22
Consensus pattern (30 bp):
GATGGTGCAAAAAATGATGGCGGGGACGAT
Found at i:28333 original size:131 final size:128
Alignment explanation
Indices: 28115--28560 Score: 547
Period size: 131 Copynumber: 3.4 Consensus size: 128
28105 GCACAGTAGA
* * * ** * * * *
28115 GCACGATTCCTCGAATTTCTAGACATTGAACATTGCCTT-ATTTT-AGAATTTTGAAAACATGAG
1 GCACGATTCCCCAAATTTC-AAACATCAAACGTTGCCTTCGTTTTAAGAATTTTTAAAACATGAT
*
28178 TGAAATTCTAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATAGG
65 TGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATAGG
* * * * *
28242 GCACGATTCCCCGAATTGTCAAACGTTAAACATTACCTTCGTTTTGAAGAATTTTTAAAGACATG
1 GCACGATTCCCCAAATT-TCAAACATCAAACGTTGCCTTCGTTTT-AAGAATTTTTAAA-ACATG
*
28307 ATTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCATGATTA
63 ATTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGA-TA
28372 -G
127 GG
* * * * * *
28373 GCACAATTCCCTAAATTTCCAAACCTCAAACGTTGCATTCGTTTTAAAAATTTTTAAAACATGGT
1 GCACGATTCCCCAAATTT-CAAACATCAAACGTTGCCTTCGTTTTAAGAATTTTTAAAACATGAT
* *
28438 TGAAATTCCAAAGGAATATTCGATTATTTTGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
65 TGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATAGG
* * * *
28502 GCACGATTCTCCAAATTCCCCAACATCGAACGTTGCCTTCGTTTTTAAGAATTTTTAAA
1 GCACGATTCCCCAAATT-TCAAACATCAAACGTTGCCTTCG-TTTTAAGAATTTTTAAA
28561 TGAATAATTA
Statistics
Matches: 277, Mismatches: 32, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
127 31 0.11
128 7 0.03
129 97 0.35
130 40 0.14
131 100 0.36
132 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (128 bp):
GCACGATTCCCCAAATTTCAAACATCAAACGTTGCCTTCGTTTTAAGAATTTTTAAAACATGATT
GAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATAGG
Found at i:28505 original size:129 final size:128
Alignment explanation
Indices: 28115--28560 Score: 549
Period size: 129 Copynumber: 3.4 Consensus size: 128
28105 GCACAGTAGA
* * * ** * * *
28115 GCACGATTCCTCGAATTTCTAGACATTGAACATTGCCTT-ATTTT-AGAATTTTGAAAACATGAG
1 GCACGATTCC-CAAATTTCCAAACATCAAACGTTGCCTTCGTTTTAAGAATTTTTAAAACATG-G
* *
28178 -TGAAATTCTAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATAGG
64 TTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
* * * * *
28242 GCACGATTCCCCGAATTGT-CAAACGTTAAACATTACCTTCGTTTTGAAGAATTTTTAAAGACAT
1 GCACGATT-CCCAAATT-TCCAAACATCAAACGTTGCCTTCGTTTT-AAGAATTTTTAAA-ACAT
* *
28306 GATTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCATGATT
62 GGTTGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATT
*
28371 AG
127 GG
* * * *
28373 GCACAATTCCCTAAATTTCCAAACCTCAAACGTTGCATTCGTTTTAAAAATTTTTAAAACATGGT
1 GCACGATTCCC-AAATTTCCAAACATCAAACGTTGCCTTCGTTTTAAGAATTTTTAAAACATGGT
*
28438 TGAAATTCCAAAGGAATATTCGATTATTTTGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
65 TGAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
* * *
28502 GCACGATTCTCCAAATTCCCCAACATCGAACGTTGCCTTCGTTTTTAAGAATTTTTAAA
1 GCACGATTC-CCAAATTTCCAAACATCAAACGTTGCCTTCG-TTTTAAGAATTTTTAAA
28561 TGAATAATTA
Statistics
Matches: 277, Mismatches: 31, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
127 29 0.10
128 7 0.03
129 99 0.36
130 45 0.16
131 97 0.35
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (128 bp):
GCACGATTCCCAAATTTCCAAACATCAAACGTTGCCTTCGTTTTAAGAATTTTTAAAACATGGTT
GAAATTCCAAAGGAATATTCGATTATTTCGAAGAAACGGGAAATTGCAACCCAGCACGATTGG
Found at i:34502 original size:2 final size:2
Alignment explanation
Indices: 34495--34524 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
34485 GGTTTAAAAA
34495 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
34525 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:35025 original size:45 final size:45
Alignment explanation
Indices: 34962--35049 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
34952 TCTCTACCTA
* *
34962 TTTATTTCATTCATCATGGATATCAAACACCTTTACCCTAAGTAT
1 TTTATTTCATTCAACATGGATATCAAACACCTTTACCCCAAGTAT
* * *
35007 TTTA-TTCTATTCAACATGGTTATCAAATACTTTTACCCCAAGT
1 TTTATTTC-ATTCAACATGGATATCAAACACCTTTACCCCAAGT
35050 CTATATTAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
44 3 0.08
45 34 0.92
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (45 bp):
TTTATTTCATTCAACATGGATATCAAACACCTTTACCCCAAGTAT
Found at i:35798 original size:66 final size:66
Alignment explanation
Indices: 35680--35811 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 66
35670 TTTGAAGCTA
* * *
35680 TAGCTGGAGTTCGTCATATTTTCTTGTTGCCTTTGCTTCCCTTATTGTTGCCTCCACTTTAAGTT
1 TAGCTGGAGTTCATCATATTTTCTTGTAGCCTTTGCTTCCCTTATTGCTGCCTCCACTTTAAGTT
35745 G
66 G
* * *
35746 TAGCTGGAGTTCATCATATTTTCTT-TGAGCCTTTGCTT-CTTTCTATGCTGCCTCCGCTTTAAG
1 TAGCTGGAGTTCATCATATTTTCTTGT-AGCCTTTGCTTCCCTTAT-TGCTGCCTCCACTTTAAG
35809 TTG
64 TTG
35812 AGCAATTTGT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
65 5 0.09
66 53 0.91
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (66 bp):
TAGCTGGAGTTCATCATATTTTCTTGTAGCCTTTGCTTCCCTTATTGCTGCCTCCACTTTAAGTT
G
Found at i:37839 original size:41 final size:40
Alignment explanation
Indices: 37794--37870 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
37784 CAATTATGAG
* *
37794 AAAAACACCGCTA-TAGGTTTAACCTTTTGTGGCGTTTATGC
1 AAAAACACCGCTACT-GCTTT-ACCTTTTGCGGCGTTTATGC
*
37835 AAAAACGCCGCTACTGCTTTACCTTTTGCGGCGTTT
1 AAAAACACCGCTACTGCTTTACCTTTTGCGGCGTTT
37871 TTCTCATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 15 0.47
41 16 0.50
42 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (40 bp):
AAAAACACCGCTACTGCTTTACCTTTTGCGGCGTTTATGC
Found at i:43006 original size:19 final size:19
Alignment explanation
Indices: 42982--43069 Score: 146
Period size: 19 Copynumber: 4.8 Consensus size: 19
42972 ATCTTCAATT
42982 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
43001 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
43020 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
43037 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
43055 ACATGCAATCTTAGA
1 ATATGCAATCTTAGA
43070 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
17 16 0.25
18 15 0.23
19 34 0.52
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:43050 original size:35 final size:37
Alignment explanation
Indices: 42987--43076 Score: 134
Period size: 35 Copynumber: 2.5 Consensus size: 37
42977 CAATTATATG
42987 CAATCTTAGATATGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
*
43023 CAATCTTAGATATGAT-TGCAATCTTAGATATGACATG
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
43060 CAATCTTAGA-A-GATATG
1 CAATCTTAGATATGATATG
43077 ATTTTGTAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
35 19 0.38
36 19 0.38
37 12 0.24
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:43382 original size:17 final size:17
Alignment explanation
Indices: 43358--43392 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43348 ATGTTTCCCG
*
43358 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
43376 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
43393 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:50667 original size:47 final size:47
Alignment explanation
Indices: 50598--50690 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
50588 TGATGGGGCA
50598 TCCAATGCAGTGGGAAATGGAATTGGGGCAGTCTTGGTATCCCCAAT
1 TCCAATGCAGTGGGAAATGGAATTGGGGCAGTCTTGGTATCCCCAAT
50645 TCCAATGCAGTGGGAAATGGAATTGGGGCAGTCTTGGTATCCCCAA
1 TCCAATGCAGTGGGAAATGGAATTGGGGCAGTCTTGGTATCCCCAA
50691 ATGGTGATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
TCCAATGCAGTGGGAAATGGAATTGGGGCAGTCTTGGTATCCCCAAT
Found at i:53492 original size:78 final size:78
Alignment explanation
Indices: 53363--53596 Score: 441
Period size: 78 Copynumber: 3.0 Consensus size: 78
53353 GTGTTTACGC
*
53363 TGAAGCAGATCCAAGATAATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
53428 ATTTGACCTTCAT
66 ATTTGACCTTCAT
53441 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
53506 ATTTGACCTTCAT
66 ATTTGACCTTCAT
*
53519 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
*
53584 ATCTGACCTTCAT
66 ATTTGACCTTCAT
53597 GTGTTTACAT
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 153 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (78 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAG
ATTTGACCTTCAT
Found at i:53781 original size:89 final size:89
Alignment explanation
Indices: 53626--53795 Score: 254
Period size: 89 Copynumber: 1.9 Consensus size: 89
53616 TCCAAGATGA
*
53626 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACAAATTTGGCATCTCTATAT
1 CAGATTTGGCATCCCTGTATTAGACAGGGAGCAAATCGAAGATAACAAATTTGGCATCTCTATAT
*
53691 TAGACGGTGAGCAGATTGAAGAAG
66 TAGACGGGGAGCAGATTGAAGAAG
* * * *
53715 CAGATTTGGCGTCCCTGTATTAGAC-GAGGAG-AAGATCGAAGATAACAGATTTGGCGTCTCTGT
1 CAGATTTGGCATCCCTGTATTAGACAG-GGAGCAA-ATCGAAGATAACAAATTTGGCATCTCTAT
53778 ATTAGACGGGGAGCAGAT
64 ATTAGACGGGGAGCAGAT
53796 CAAAGGTAGC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
88 3 0.04
89 70 0.96
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (89 bp):
CAGATTTGGCATCCCTGTATTAGACAGGGAGCAAATCGAAGATAACAAATTTGGCATCTCTATAT
TAGACGGGGAGCAGATTGAAGAAG
Found at i:53809 original size:45 final size:45
Alignment explanation
Indices: 53536--53796 Score: 260
Period size: 45 Copynumber: 5.8 Consensus size: 45
53526 GATCCAAGAT
*
53536 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * *
53583 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* *
53628 GATTTGGCATCTCTGTATTAGACAGGGAGCAAATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * * *
53673 AATTTGGCATCTCTATATTAGACGGTGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
53717 GATTTGGCGTCCCTGTATTAGACGAGGAGAAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
*
53762 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATC
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC
53797 AAAGGTAGCA
Statistics
Matches: 170, Mismatches: 37, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
43 1 0.01
44 39 0.23
45 99 0.58
46 4 0.02
47 22 0.13
48 4 0.02
49 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:54191 original size:36 final size:35
Alignment explanation
Indices: 54151--54230 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 35
54141 ATGGAAATAT
54151 AATCTTCAATGATATGCAATCTTAGATATGATATGC
1 AATCTT-AATGATATGCAATCTTAGATATGATATGC
*
54187 AATCTTAGAT-ATGATACAATCTTAGATATGATATGC
1 AATCTTA-ATGAT-ATGCAATCTTAGATATGATATGC
54223 AATCTTAA
1 AATCTTAA
54231 AGGATATGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
35 4 0.10
36 37 0.90
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (35 bp):
AATCTTAATGATATGCAATCTTAGATATGATATGC
Found at i:54238 original size:17 final size:19
Alignment explanation
Indices: 54159--54229 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
54149 ATAATCTTCA
54159 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
54178 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
54197 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
54214 ATGATATGCAATCTTA
1 ATGATATGCAATCTTA
54230 AAGGATATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.34
19 33 0.66
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:54545 original size:17 final size:17
Alignment explanation
Indices: 54521--54555 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
54511 TGTTTCCCGG
*
54521 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
54539 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
54556 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:57930 original size:15 final size:15
Alignment explanation
Indices: 57910--57940 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57900 ATCCCTTTGA
57910 TTTTCTAACAAAATT
1 TTTTCTAACAAAATT
57925 TTTTCTAACAAAATT
1 TTTTCTAACAAAATT
57940 T
1 T
57941 GGTCCCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTTCTAACAAAATT
Found at i:60917 original size:16 final size:16
Alignment explanation
Indices: 60896--60963 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
60886 TTTGGTTCGC
60896 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60912 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
60928 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
60944 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
60960 TGTA
1 TGTA
60964 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:61003 original size:45 final size:41
Alignment explanation
Indices: 60944--61053 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
60934 GGATTAGAGG
*
60944 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
60986 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
61029 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
61054 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:61246 original size:14 final size:15
Alignment explanation
Indices: 61197--61248 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
61187 ATAAAATATA
61197 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
61212 TATTAAATATATTAT
1 AATTAAATATATTAT
61227 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
61240 AATTTAATA
1 AATTAAATA
61249 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:61310 original size:120 final size:120
Alignment explanation
Indices: 61175--61430 Score: 503
Period size: 120 Copynumber: 2.1 Consensus size: 120
61165 TAATTTAATC
*
61175 ATATTTGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATAT
1 ATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATAT
61240 AATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
66 AATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
61295 ATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATAT
1 ATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATAT
61360 AATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
66 AATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
61415 ATATATGATACTATAA
1 ATATATGATACTATAA
61431 TTTACTCAAA
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 135 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (120 bp):
ATATATGATACTATAAAATATAAATTAACATAATTATTATTAAATATATTATAATTAAAATATAT
AATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Found at i:61366 original size:14 final size:15
Alignment explanation
Indices: 61317--61368 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
61307 ATAAAATATA
61317 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
61332 TATTAAATATATTAT
1 AATTAAATATATTAT
61347 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
61360 AATTTAATA
1 AATTAAATA
61369 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:61419 original size:59 final size:59
Alignment explanation
Indices: 61236--61419 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 59
61226 TAATTAAAAT
61236 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
61295 ATAT-ATGATACTATAAAA-TATAAATTAA-CATAATTATTATTAAAT-ATATTATAATTAAA--
1 ATATAAT-TTA--ATAAAATTCTTAA-TAATC--AA-TATTCTTATATGA-ATT-TACTCAAATC
61354 AT-
57 ATA
61356 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
61415 ATATA
1 ATATA
61420 TGATACTATA
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 7 0.07
59 20 0.21
60 10 0.11
61 15 0.16
62 7 0.07
63 12 0.13
64 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Found at i:61420 original size:61 final size:61
Alignment explanation
Indices: 61233--61420 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
61223 TTATAATTAA
61233 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
61294 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
61353 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
61414 AATATAT
1 AATATAT
61421 GATACTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 24 0.25
61 37 0.38
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:66340 original size:10 final size:9
Alignment explanation
Indices: 66314--66349 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
66304 GCCTAGGTGA
66314 TTTATAATT
1 TTTATAATT
66323 TTTATAATT
1 TTTATAATT
66332 TTTATTAATT
1 TTTA-TAATT
66342 TTATATAA
1 TT-TATAA
66350 AAATAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.52
10 10 0.40
11 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:67916 original size:19 final size:22
Alignment explanation
Indices: 67875--67918 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
67865 ATTTTGATTG
*
67875 ATTGAATTTATTTTTAATATCA
1 ATTGAATTTATTTTAAATATCA
67897 ATTG-ATTT-TTTTAAAT-TCA
1 ATTGAATTTATTTTAAATATCA
67916 ATT
1 ATT
67919 CACTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
21 4 0.19
22 4 0.19
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATTGAATTTATTTTAAATATCA
Found at i:81989 original size:44 final size:44
Alignment explanation
Indices: 81928--82018 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 44
81918 GCAACACATT
* * *
81928 ATAGCATATCAACTTTCATAACGAAGCATAACTTATAAGATATC
1 ATAGCATATCAACTTTCATAACGAAACATAACTTATAACATAAC
* ** *
81972 ATAGCATATTAGA-TTTCATATGGAAACATATCTTATAACATAAC
1 ATAGCATATCA-ACTTTCATAACGAAACATAACTTATAACATAAC
82016 ATA
1 ATA
82019 TCCTACCCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 38 0.97
45 1 0.03
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (44 bp):
ATAGCATATCAACTTTCATAACGAAACATAACTTATAACATAAC
Found at i:87185 original size:16 final size:16
Alignment explanation
Indices: 87160--87192 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
87150 GGGTTTAGTC
87160 TTTATCTTCA-TCTTT
1 TTTATCTTCATTCTTT
87175 TTTACTCTTCATTCTTT
1 TTTA-TCTTCATTCTTT
87192 T
1 T
87193 GCCATTATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATCTTCATTCTTT
Found at i:90968 original size:22 final size:21
Alignment explanation
Indices: 90933--91008 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
90923 AAAAGGTATC
* *
90933 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
90954 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
90977 TTCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
90996 TGC-AATCATATCT
1 TACAAATCATATCT
91009 AAGATTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.13
19 10 0.22
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:91022 original size:17 final size:18
Alignment explanation
Indices: 90969--91040 Score: 101
Period size: 17 Copynumber: 3.9 Consensus size: 18
90959 AATCATATCT
*
90969 TCTAAGATTTCATATCATA
1 TCTAAGATTGC-TATCATA
*
90988 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
91006 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
91023 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
91041 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 16 0.33
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:91436 original size:45 final size:45
Alignment explanation
Indices: 91370--91569 Score: 233
Period size: 45 Copynumber: 4.5 Consensus size: 45
91360 GGAAGGCGAT
* * * *
91370 ATCTGCTATCTTTGATTTGCTCACCGTCTAATACAGGGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
91415 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
91460 ATCTGCT-CCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * * *
91504 ATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
91549 ATCTG-TCATCTTGGATCTGCT
1 ATCTGCT-ATCTTCGATCTGCT
91570 TCGATGTAAA
Statistics
Matches: 135, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 40 0.30
45 95 0.70
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:91503 original size:89 final size:89
Alignment explanation
Indices: 91387--91553 Score: 235
Period size: 89 Copynumber: 1.9 Consensus size: 89
91377 ATCTTTGATT
* *** *
91387 TGCTCACCGTCTAATACAGGGACGCCAAATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAAA
91452 GACGCCAAATCTGCTCCTTCAATC
66 GACGCCAAATCTGCTCCTTCAATC
* * * * *
91476 TGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAAA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAAA
*
91541 GATGCCAAATCTG
66 GACGCCAAATCTG
91554 TCATCTTGGA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 67 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.28
Consensus pattern (89 bp):
TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAAA
GACGCCAAATCTGCTCCTTCAATC
Found at i:91721 original size:78 final size:77
Alignment explanation
Indices: 91586--91877 Score: 406
Period size: 78 Copynumber: 3.7 Consensus size: 77
91576 TAAACACATA
* *
91586 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGTGATGCTAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGC-AAATCATCTTGG
91651 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* * * * *
91664 AAGGTCTA-ATATGTTATGTCTTTGATCTGCTCCCCATCTAATACAAAGATGTCAAATCATCTTG
1 AAGGTC-AGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTG
*
91728 AATCTGCTTCAATG
64 GATCTGCTTCAATG
*
91742 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTGG
91807 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* * * **
91820 AAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATC
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATC
91878 TATTTTTTCG
Statistics
Matches: 189, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
77 1 0.01
78 186 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (77 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCAAATCATCTTGGA
TCTGCTTCAATG
Found at i:92080 original size:78 final size:78
Alignment explanation
Indices: 91951--92242 Score: 442
Period size: 78 Copynumber: 3.7 Consensus size: 78
91941 TAAACACGTA
91951 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
92016 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* * *
92029 AAGGTCCA-ATCTGTTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCGAAATCATCTTG
1 AAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
92093 GATCTGCTTCAATG
65 GATCTGCTTCAATG
** * * *
92107 AAGGTCAGATCTATTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
92172 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* * * * **
92185 AAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCGAATATGGAGATGCCAAATC
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
92243 TATTTCTTCG
Statistics
Matches: 194, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 2 0.01
78 190 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (78 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
ATCTGCTTCAATG
Found at i:92232 original size:365 final size:364
Alignment explanation
Indices: 91554--92575 Score: 1724
Period size: 365 Copynumber: 2.8 Consensus size: 364
91544 GCCAAATCTG
* *
91554 TCATCTTG-GATCTGCTTC-GATGTAAACACATAAAGGTCAGATCTGCTATGTCTTCGATCTGCT
1 TCATC-TGAGATCTGCTTCAG-CGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCT
* * * * *
91617 CTCCGTCTAATACAGTGATGCTAAATCATCTTGGATCTGCTTCAATGAAGGTCTAATATGTTATG
64 CCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATG
* * * *
91682 TCTTTGATCTGCTCCCCATCTAATACAAAGATGTCAAATCATCTTGAATCTGCTTCAATGAAGGT
129 TCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTGGATCTGCTTCAATGAAGGT
*
91747 CAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
193 CAGATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
91812 CTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAAT
258 CTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAAT
* *
91877 CTATTTTTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAA
323 CTATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
91919 TCATCTGAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
1 TCATCTGAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
*
91984 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTC
66 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
*
92049 TTCGATTTGCTCCCCGTCTAATACAGAGATGCGAAATCATCTTGGATCTGCTTCAATGAAGGTCA
131 TTCGATCTGCTCCCCGTCTAATACAGAGATGC-AAATCATCTTGGATCTGCTTCAATGAAGGTCA
* * *
92114 GATCTATTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCTTGGATCTGCT
195 GATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
92179 TCAATGAAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCT
260 TCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCT
92244 ATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
325 ATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
* * *
92284 TCATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCC
1 TCATCTGAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
* * *
92349 CCGTCTAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAATGTCAAATCTGTTGTGTC
66 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
* *
92414 TTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGATTTGCTTCAATGAAGGTCA
131 TTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTGGATCTGCTTCAATGAAGGTCA
92479 GATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
195 GATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
92544 TCAATGAAGGTTAGATCTGCTATGTCTTCGAT
260 TCAATGAAGGTCAGATCTGCTATGTCTTCGAT
92576 TTGTTCTCTA
Statistics
Matches: 619, Mismatches: 34, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
364 3 0.00
365 614 0.99
366 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (364 bp):
TCATCTGAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
TTCGATCTGCTCCCCGTCTAATACAGAGATGCAAATCATCTTGGATCTGCTTCAATGAAGGTCAG
ATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
CAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCTA
TTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
Found at i:92453 original size:78 final size:78
Alignment explanation
Indices: 92314--92575 Score: 434
Period size: 78 Copynumber: 3.4 Consensus size: 78
92304 CGTAAACACG
*
92314 TGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
92379 GGATCTGCTTCAA
66 GGATCTGCTTCAA
* * * *
92392 TGAATGTCAAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
*
92457 GGATTTGCTTCAA
66 GGATCTGCTTCAA
* * *
92470 TGAAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
92535 GGATCTGCTTCAA
66 GGATCTGCTTCAA
*
92548 TGAAGGTTAGATCTGCTATGTCTTCGAT
1 TGAAGGTCAGATCTGCTATGTCTTCGAT
92576 TTGTTCTCTA
Statistics
Matches: 169, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 169 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (78 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
GGATCTGCTTCAA
Found at i:92523 original size:287 final size:277
Alignment explanation
Indices: 91678--92529 Score: 912
Period size: 287 Copynumber: 3.0 Consensus size: 277
91668 TCTAATATGT
* * *
91678 TATGTCTTTGATCTGCTCCCC-ATCTAATACAAAGATGTCAAATCATCTT-GAATCTGCTTCAAT
1 TATGTCTTCGATCTGCTCCCCGA-CTAATACAGAGATGCCAAATCATCTTAG-ATCTGCTTCAAT
*
91741 GAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
64 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
* * * * * *
91806 GATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATG
129 GATCTGCTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATG
* * ** * * ** *
91871 CCAAATCTATTTTTTCGATTTG-TTCTCTGACA-GTACAGAGATGCCAAATCATCTGAGATCTGC
194 CCAAATC-A--TCTTGGATTTGCTTCAATGA-AGGT-C--AGAT--CTACTTGTCTTAGATCTGC
* * * * *
91934 T-TCAG-CGTAA-ACACGTAAAGGTCAGATCTGC
250 TCTCCGTC-TAATACA-G-AGATGCCA-A-AT-C
* *
91965 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGACTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGA
* * *
92030 AGGTCCA-ATCTGTTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCGAAATCATCTTGG
66 AGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
* * * *
92094 ATCTGCTTCAATGAAGGTCAGATCTATTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATAC
130 ATCTGCTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGC
* * * * *
92159 CAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCG
195 CAAATCATCTTGGATTTGCTTCAATGAAGGTCAGATCTACT-TGTCTTAGATCTGCTCTCCGTCT
**
92224 AATATGGAGATGCCAAATC
259 AATACAGAGATGCCAAATC
* * * * *
92243 TATTTCTTCGATTTGTTCTCTGAC-AATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGT
1 TATGTCTTCGATCTGCTCCCCGACTAATACAGAGATGCCAAATCATCTTAGATCTGCTT---C--
* *
92307 AAACACGTGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAA
61 --A-A--TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
* *
92372 TCATCTTGGATCTGCTTCAATGAATGTCAAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATA
121 TCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATA
*
92437 TAGAGATGCCAAATCATCTTGGATTTGCTTCAATGAAGGTCAGATCTACTGTGTCTTCGATCTGC
186 TAGAGATGCCAAATCATCTTGGATTTGCTTCAATGAAGGTCAGATCTACT-TGTCTTAGATCTGC
*
92502 TCCCCGTCTAATACAGAGATGCCAAATC
250 TCTCCGTCTAATACAGAGATGCCAAATC
92530 ATCTTGGATC
Statistics
Matches: 479, Mismatches: 66, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
277 33 0.07
278 19 0.04
279 1 0.00
280 4 0.01
281 15 0.03
282 10 0.02
283 2 0.00
284 11 0.02
285 9 0.02
286 3 0.01
287 369 0.77
288 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (277 bp):
TATGTCTTCGATCTGCTCCCCGACTAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAATGA
AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
TCTGCTTCAATGAAGGTCAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCC
AAATCATCTTGGATTTGCTTCAATGAAGGTCAGATCTACTTGTCTTAGATCTGCTCTCCGTCTAA
TACAGAGATGCCAAATC
Found at i:92704 original size:87 final size:89
Alignment explanation
Indices: 92596--92757 Score: 231
Period size: 89 Copynumber: 1.8 Consensus size: 89
92586 ACAGTACAGA
* *
92596 GATGCCAAATCATCTTAGATCTACTTC-A-GTGTAAACA-CGTGAAAGCCAAATCTGCTATGTCT
1 GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATC-CGAAAGCCAAATCTGCTATGTCT
92658 TCGATCTGCTCCTTGTCAACGCAAG
65 TCGATCTGCTCCTTGTCAACGCAAG
* * ** *
92683 GATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATCCGAAAGCCAAATCTGCTATGTCTT
92748 CGATCTGCTC
66 CGATCTGCTC
92758 TCCGTCGAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 26 0.40
88 1 0.02
89 37 0.57
90 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATCCGAAAGCCAAATCTGCTATGTCTT
CGATCTGCTCCTTGTCAACGCAAG
Found at i:92754 original size:89 final size:88
Alignment explanation
Indices: 92549--92757 Score: 239
Period size: 87 Copynumber: 2.4 Consensus size: 88
92539 CTGCTTCAAT
* * *
92549 GAAGGTTAGATCTGCTATGTCTTCGATTTG-TTCTCTAACAGTACAGAGATGCCAAATCATCTTA
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCTCTAACAGCACAGAGATGCCAAATCATCTTA
* *
92613 GATCTACTTCAGTGTAAACACGT
66 GATCTACTTCAGTGAAAACACGC
* ** * *
92636 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAAC-GCA-AG-GATGCCAAATCATCT
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCC-TCT-AACAGCACAGAGATGCCAAATCATCT
*
92698 TGGATCTACTTCGATGTGAAAACATC-C
64 TAGATCTACTTC-A-GTGAAAACA-CGC
92725 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTC
92758 TCCGTCGAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
87 51 0.50
88 5 0.05
89 41 0.41
90 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (88 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCTCTAACAGCACAGAGATGCCAAATCATCTTA
GATCTACTTCAGTGAAAACACGC
Found at i:101213 original size:22 final size:21
Alignment explanation
Indices: 101178--101253 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
101168 AAAAGGTATC
* *
101178 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
101199 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
101222 TTCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
101241 TGC-AATCATATCT
1 TACAAATCATATCT
101254 AAGATTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.13
19 10 0.22
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:101267 original size:17 final size:18
Alignment explanation
Indices: 101214--101285 Score: 101
Period size: 17 Copynumber: 3.9 Consensus size: 18
101204 AATCATATCT
*
101214 TCTAAGATTTCATATCATA
1 TCTAAGATTGC-TATCATA
*
101233 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
101251 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
101268 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
101286 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 16 0.33
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:101681 original size:45 final size:45
Alignment explanation
Indices: 101615--101814 Score: 233
Period size: 45 Copynumber: 4.5 Consensus size: 45
101605 GGAAGGCGAT
* * * *
101615 ATCTGCTATCTTTGATTTGCTCACCGTCTAATACAGGGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
101660 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
101705 ATCTGCT-CCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * * *
101749 ATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
101794 ATCTG-TCATCTTGGATCTGCT
1 ATCTGCT-ATCTTCGATCTGCT
101815 TCGATGTAAA
Statistics
Matches: 135, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 40 0.30
45 95 0.70
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:101748 original size:89 final size:89
Alignment explanation
Indices: 101632--101798 Score: 235
Period size: 89 Copynumber: 1.9 Consensus size: 89
101622 ATCTTTGATT
* *** *
101632 TGCTCACCGTCTAATACAGGGACGCCAAATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAAA
101697 GACGCCAAATCTGCTCCTTCAATC
66 GACGCCAAATCTGCTCCTTCAATC
* * * * *
101721 TGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAAA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAAA
*
101786 GATGCCAAATCTG
66 GACGCCAAATCTG
101799 TCATCTTGGA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 67 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.28
Consensus pattern (89 bp):
TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAAA
GACGCCAAATCTGCTCCTTCAATC
Found at i:101966 original size:78 final size:77
Alignment explanation
Indices: 101831--102610 Score: 798
Period size: 78 Copynumber: 9.7 Consensus size: 77
101821 TAAACACATA
* * * *
101831 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGTGATGCTAAATCATCTTGG
1 AAGGTCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
101896 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* * * * * *
101909 AAGGTCTAATATGTTATGTCTTTGATCTGCTCCCCATCTAATACAAAGATGTCAAATCATCTTGA
1 AAGGTC-AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
101974 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* * * *
101987 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTCCT
1 AAGGTCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC--AT-CT
**
102052 TCAATCTGCTCCCCGTCTAATACAG
62 TGGATCTGCT-----TC-AAT---G
* * * * * * *
102077 AGACGCCAAATCTG--CT-CCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTCC
1 A-AGGTC-AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC--AT-C
**
102139 TTCAATCTGCTCCCCGTCTAATACAG
61 TTGGATCTGCT-----TC-AAT---G
* * *
102165 AGACGCCAAATCTG---TGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTG
1 A-AGGTC-AATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
102227 GATCTGCTTCAATG
64 GATCTGCTTCAATG
*
102241 AAGGTCCAATCTGTTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGT-CAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
102306 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* *
102319 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
102384 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* *
102397 AAGGTCCAATCTGTTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCGAAATCATCTTGG
1 AAGGT-CAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
102462 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* * * *
102475 AAGGTCAGATCTATTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCTTGG
1 AAGGTCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
102540 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* * * * * **
102553 AAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCGAATATGGAGATGCCAAATC
1 AAGGTCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
102611 TATTTCTTCG
Statistics
Matches: 620, Mismatches: 58, Indels: 48
0.85 0.08 0.07
Matches are distributed among these distances:
75 8 0.01
76 3 0.00
77 5 0.01
78 435 0.70
79 6 0.01
80 3 0.00
81 11 0.02
85 10 0.02
86 3 0.00
87 4 0.01
88 120 0.19
89 1 0.00
90 2 0.00
91 8 0.01
92 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (77 bp):
AAGGTCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
TCTGCTTCAATG
Found at i:102061 original size:44 final size:44
Alignment explanation
Indices: 102006--102220 Score: 369
Period size: 44 Copynumber: 4.9 Consensus size: 44
101996 TCTGCTGTGT
*
102006 CTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTC
1 CTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTC
102050 CTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTC
1 CTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTC
102094 CTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTC
1 CTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTC
*
102138 CTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG-TGT
1 CTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCT-C
* * *
102182 CTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATC
1 CTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATC
102221 ATCTTGGATC
Statistics
Matches: 165, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
43 1 0.01
44 164 0.99
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (44 bp):
CTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTC
Found at i:102284 original size:332 final size:334
Alignment explanation
Indices: 101668--102376 Score: 1041
Period size: 332 Copynumber: 2.1 Consensus size: 334
101658 AAATCTGCTA
*
101668 TCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCT
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCT
* * * * * *
101733 AATACAGAGATGCCAAATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAAAGATGCCAAATCT
66 AATACAGAGACGCCAAATCTGCTACCTCCAATCTGCTCCCCGTCTAATACAAAGACGCCAAATCT
** * * * * * *
101798 GTCATCTTGGATCTGCTTCGATGTAAACACATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTC
131 GTCA-CTTCAATCTGCTCCGATCTAAACACAGAAACGCCAAATCTG--ATGTCTTCGATCTGCTC
* * * *
101863 TCCGTCTAATACAGTGATGCTAAATCATCTTGGATCTGCTTCAATGAAGGTCTAATATGTTATGT
193 CCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATATGTTATGT
* *
101928 CTTTGATCTGCTCCCCATCTAATACAAAGATGTCAAATCATCTTGAATCTGCTTCAATGAAGGTC
258 CTTCGATCTGCTCCCCATCTAATACAAAGATGCCAAATCATCTTGAATCTGCTTCAATGAAGGTC
101993 AGATCTGCTGTG
323 AGATCTGCTGTG
102005 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCT
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCT
* *
102070 AATACAGAGACGCCAAATCTGCT-CCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
66 AATACAGAGACGCCAAATCTGCTACCTCCAATCTGCTCCCCGTCTAATACAAAGACGCCAAATCT
* *
102134 GCTC-CTTCAATCTGCTCCCCG-TCT-AATACAGAGACGCCAAATCTG-TGTCTTCGATCTGCTC
131 G-TCACTTCAATCTGCT--CCGATCTAAACACAGAAACGCCAAATCTGATGTCTTCGATCTGCTC
* *
102195 CCCGTCTAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGT
193 CCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATATGTTATGT
* * * *
102260 CTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTC
258 CTTCGATCTGCTCCCCATCTAATACAAAGATGCCAAATCATCTTGAATCTGCTTCAATGAAGGTC
102325 AGATCTGCTGTG
323 AGATCTGCTGTG
*
102337 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATC
102377 ATCTTGGATC
Statistics
Matches: 337, Mismatches: 32, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
332 185 0.55
335 25 0.07
336 38 0.11
337 89 0.26
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (334 bp):
TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCT
AATACAGAGACGCCAAATCTGCTACCTCCAATCTGCTCCCCGTCTAATACAAAGACGCCAAATCT
GTCACTTCAATCTGCTCCGATCTAAACACAGAAACGCCAAATCTGATGTCTTCGATCTGCTCCCC
GTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATATGTTATGTCTT
CGATCTGCTCCCCATCTAATACAAAGATGCCAAATCATCTTGAATCTGCTTCAATGAAGGTCAGA
TCTGCTGTG
Found at i:102348 original size:410 final size:418
Alignment explanation
Indices: 101632--102454 Score: 1182
Period size: 410 Copynumber: 2.0 Consensus size: 418
101622 ATCTTTGATT
* * **
101632 TGCTCACCGTCTAATACAGGGACGCCAAATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTACCTTCAATCTGCTCCCCGTCTAATACAGA
*
101697 GACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCC
66 GACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCC
* *
101762 AATTTTCTCCCCGTCTAATACAAAGATGCCAAATCTGTCATCTTGGATCTGCTTCGATGTAAACA
131 AATCTGCTCCCCGTCTAATACAAAGATGCCAAA--T-TCATCTTGGATCTG--TC-ATGT--ACA
* * *
101827 CATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGTGATGCTAAATCATC
188 CATAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
* *
101892 TTGGATCTGCTTCAATGAAGGTCTAATATGTTATGTCTTTGATCTGCTCCCCATCTAATACAAAG
253 TTGGATCTGCTTCAATGAAGGTCTAATATGCTATGTCTTCGATCTGCTCCCCATCTAATACAAAG
* *
101957 ATGTCAAATCATCTTGAATCTGCTTCAATGAAGGT-CAGATCTGCTGTGTCTTCGATCTGCTCCC
318 ATGCCAAATCATCTTGAATCTGCTTCAATGAAGGTCCA-ATCTGCTATGTCTTCGATCTGCTCCC
102021 CGTCTAATACAGAGACGCCAAATCTGCTCCTTCAATC
382 CGTCTAATACAGAGACGCCAAATCTGCTCCTTCAATC
*
102058 TGCTCCCCGTCTAATACAGAGACGCCAAATCTGCT-CCTTCAATCTGCTCCCCGTCTAATACAGA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTACCTTCAATCTGCTCCCCGTCTAATACAGA
* *
102122 GACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG-TGTCTTC
66 GACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCC
* * * *
102186 GATCTGCTCCCCGTCTAATATAGAGATGCCAAA-TCATCTTGGATCTG-C-T-T-CA-ATGAAGG
131 AATCTGCTCCCCGTCTAATACAAAGATGCCAAATTCATCTTGGATCTGTCATGTACACATAAAGG
* *
102245 TCCA-ATCTGTTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
196 T-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
* * * *
102309 TGCTTCAATGAAGGTC-AGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCA
260 TGCTTCAATGAAGGTCTA-ATATGCTATGTCTTCGATCTGCTCCCCATCTAATACAAAGATGCCA
* * *
102373 AATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCGATTTGCTCCCCGTCTAA
324 AATCATCTTGAATCTGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAA
* *
102438 TACAGAGATGCGAAATC
389 TACAGAGACGCCAAATC
102455 ATCTTGGATC
Statistics
Matches: 362, Mismatches: 32, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
409 1 0.00
410 190 0.52
411 6 0.02
414 1 0.00
415 1 0.00
417 1 0.00
420 14 0.04
424 33 0.09
425 82 0.23
426 33 0.09
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (418 bp):
TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTACCTTCAATCTGCTCCCCGTCTAATACAGA
GACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCC
AATCTGCTCCCCGTCTAATACAAAGATGCCAAATTCATCTTGGATCTGTCATGTACACATAAAGG
TCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCT
GCTTCAATGAAGGTCTAATATGCTATGTCTTCGATCTGCTCCCCATCTAATACAAAGATGCCAAA
TCATCTTGAATCTGCTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATA
CAGAGACGCCAAATCTGCTCCTTCAATC
Found at i:102468 original size:332 final size:326
Alignment explanation
Indices: 101668--102580 Score: 924
Period size: 332 Copynumber: 2.8 Consensus size: 326
101658 AAATCTGCTA
* *
101668 TCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCT
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATC-GATCCTTCAATCTGCT---C-TCT
* * * * *
101733 AATACAGAGATGCCAAATCTGTTAT-CTCCAATTTTCTCCCCGTCTAATACAAAGATGCCAAATC
61 AATACAGAGA-GCCAAATCTG--ATCCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATC
** * * * * * * * *
101797 TG-TCATCTTGGATCTGCT--TCGATGTAAACACATAAAGGTCAGATCTGCTATGTCTTCGATCT
123 TGCTC--CTTCAATCTGCTCCCCG-TCT-AATACAGAGACGCCAAATCTG---TGTCTTCGATCT
* * * *
101859 GCTCTCCGTCTAATACAGTGATGCTAAATCATCTTGGATCTGCTTCAATGAAGGTCTAATATGTT
181 GCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATATGTT
* *
101924 ATGTCTTTGATCTGCTCCCCATCTAATACAAAGATGTCAAATCATCTTGAATCTGCTTCAATGAA
246 ATGTCTTCGATCTGCTCCCCATCTAATACAAAGATGCCAAATCATCTTGAATCTGCTTCAATGAA
101989 GGTCAGATCTGCTGTG
311 GGTCAGATCTGCTGTG
*
102005 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCT
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATC-GATCCTTCAATCTGCT---C-TCT
*
102070 AATACAGAGACGCCAAATCTGCTCCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
61 AATACAGAGA-GCCAAATCTGATCCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
102135 CTCCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTGTCTTCGATCTGCTCCCCGT
125 CTCCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTGTCTTCGATCTGCTCCCCGT
* *
102200 CTAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTCTTCG
190 CTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATATGTTATGTCTTCG
* * * *
102265 ATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATC
255 ATCTGCTCCCCATCTAATACAAAGATGCCAAATCATCTTGAATCTGCTTCAATGAAGGTCAGATC
102330 TGCTGTG
320 TGCTGTG
* **
102337 TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC-AT-CTTGGATCTGCT-TC-AATGA
1 TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCGATCCTTCAATCTGCTCTCTAAT-A
* * * * * * *
102398 -AG-G-TCC-AATCTGTTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCGAAATC--AT
65 CAGAGAGCCAAATCTG--AT-CCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCT
** * * * *
102457 -CTTGGATCTGCT-----TC-AAT---GA-AGGTCAGATCTATTGTGTCTTTGATCTGCTCCCCG
127 CCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATC---TGTGTCTTCGATCTGCTCCCCG
* * *
102511 TCTAATACAGAGATACCAAATCATCTTGGATCTGCTTCAATGAAGGT-CAGATCTGCTATGTCTT
189 TCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-ATATGTTATGTCTT
*
102575 TGATCT
253 CGATCT
102581 TCTCTCCGTC
Statistics
Matches: 511, Mismatches: 53, Indels: 49
0.83 0.09 0.08
Matches are distributed among these distances:
309 7 0.01
310 2 0.00
311 2 0.00
312 83 0.16
313 3 0.01
314 2 0.00
319 16 0.03
320 3 0.01
321 1 0.00
322 36 0.07
323 5 0.01
324 3 0.01
329 10 0.02
330 1 0.00
332 185 0.36
335 26 0.05
336 38 0.07
337 88 0.17
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.32
Consensus pattern (326 bp):
TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCGATCCTTCAATCTGCTCTCTAATAC
AGAGAGCCAAATCTGATCCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCTCCTT
CAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTGTCTTCGATCTGCTCCCCGTCTAATA
CAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATATGTTATGTCTTCGATCTGC
TCCCCATCTAATACAAAGATGCCAAATCATCTTGAATCTGCTTCAATGAAGGTCAGATCTGCTGT
G
Found at i:102821 original size:78 final size:78
Alignment explanation
Indices: 102682--102943 Score: 434
Period size: 78 Copynumber: 3.4 Consensus size: 78
102672 CGTAAACACG
*
102682 TGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
102747 GGATCTGCTTCAA
66 GGATCTGCTTCAA
* * * *
102760 TGAATGTCAAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
*
102825 GGATTTGCTTCAA
66 GGATCTGCTTCAA
* * *
102838 TGAAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
102903 GGATCTGCTTCAA
66 GGATCTGCTTCAA
*
102916 TGAAGGTTAGATCTGCTATGTCTTCGAT
1 TGAAGGTCAGATCTGCTATGTCTTCGAT
102944 TTGTTCTCTA
Statistics
Matches: 169, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 169 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (78 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
GGATCTGCTTCAA
Found at i:103072 original size:87 final size:89
Alignment explanation
Indices: 102964--103125 Score: 231
Period size: 89 Copynumber: 1.8 Consensus size: 89
102954 ACAGTACAGA
* *
102964 GATGCCAAATCATCTTAGATCTACTTC-A-GTGTAAACA-CGTGAAAGCCAAATCTGCTATGTCT
1 GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATC-CGAAAGCCAAATCTGCTATGTCT
103026 TCGATCTGCTCCTTGTCAACGCAAG
65 TCGATCTGCTCCTTGTCAACGCAAG
* * ** *
103051 GATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATCCGAAAGCCAAATCTGCTATGTCTT
103116 CGATCTGCTC
66 CGATCTGCTC
103126 TCCGTCGAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 26 0.40
88 1 0.02
89 37 0.57
90 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATCCGAAAGCCAAATCTGCTATGTCTT
CGATCTGCTCCTTGTCAACGCAAG
Found at i:103122 original size:89 final size:88
Alignment explanation
Indices: 102917--103125 Score: 239
Period size: 87 Copynumber: 2.4 Consensus size: 88
102907 CTGCTTCAAT
* * *
102917 GAAGGTTAGATCTGCTATGTCTTCGATTTG-TTCTCTAACAGTACAGAGATGCCAAATCATCTTA
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCTCTAACAGCACAGAGATGCCAAATCATCTTA
* *
102981 GATCTACTTCAGTGTAAACACGT
66 GATCTACTTCAGTGAAAACACGC
* ** * *
103004 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAAC-GCA-AG-GATGCCAAATCATCT
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCC-TCT-AACAGCACAGAGATGCCAAATCATCT
*
103066 TGGATCTACTTCGATGTGAAAACATC-C
64 TAGATCTACTTC-A-GTGAAAACA-CGC
103093 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTC
103126 TCCGTCGAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
87 51 0.50
88 5 0.05
89 41 0.41
90 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (88 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCTCTAACAGCACAGAGATGCCAAATCATCTTA
GATCTACTTCAGTGAAAACACGC
Found at i:111582 original size:22 final size:21
Alignment explanation
Indices: 111547--111715 Score: 98
Period size: 18 Copynumber: 8.7 Consensus size: 21
111537 AAAAGGTATC
* *
111547 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
111568 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
111591 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
111610 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
111628 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
111647 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
111665 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
111684 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
111702 TGCATATCATATCT
1 TACAAATCATATCT
111716 AAGATTGCAT
Statistics
Matches: 131, Mismatches: 10, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
18 51 0.39
19 51 0.39
21 4 0.03
22 15 0.11
23 10 0.08
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:111590 original size:23 final size:22
Alignment explanation
Indices: 111547--111604 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
111537 AAAAGGTATC
* *
111547 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
111568 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
111591 TGCATATCATATCT
1 TACAAATCATATCT
111605 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:111607 original size:19 final size:19
Alignment explanation
Indices: 111583--111730 Score: 275
Period size: 19 Copynumber: 7.9 Consensus size: 19
111573 AATCATATCT
111583 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111602 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
111620 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111639 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
111657 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111676 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
111694 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
111713 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
111731 TGAAGATTAT
Statistics
Matches: 126, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
18 54 0.43
19 72 0.57
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:111750 original size:37 final size:37
Alignment explanation
Indices: 111583--111730 Score: 287
Period size: 37 Copynumber: 4.0 Consensus size: 37
111573 AATCATATCT
111583 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
111620 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
111657 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
111694 TCTAAGATTGCATATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCAT
111731 TGAAGATTAT
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
37 105 0.95
38 5 0.05
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
Found at i:112946 original size:11 final size:11
Alignment explanation
Indices: 112932--112959 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
112922 ATTTTTTTAA
112932 AATTTTTAAAT
1 AATTTTTAAAT
112943 AATTTTTAAAT
1 AATTTTTAAAT
112954 AATTTT
1 AATTTT
112960 ATTTTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
AATTTTTAAAT
Found at i:112976 original size:27 final size:27
Alignment explanation
Indices: 112933--112985 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
112923 TTTTTTTAAA
*
112933 ATTTTTAAATAATTTTTAAATAATTTT
1 ATTTTTAAATAAGTTTTAAATAATTTT
112960 ATTTTTACAA-AAGTTTTAAATAATTT
1 ATTTTTA-AATAAGTTTTAAATAATTT
112986 AAATAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (27 bp):
ATTTTTAAATAAGTTTTAAATAATTTT
Found at i:112977 original size:38 final size:37
Alignment explanation
Indices: 112920--113003 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 37
112910 ACTACTTTTA
** *
112920 TTATTTTTTTAAAATTTTTAAATAATTTTTAAATAA-TT
1 TTATTTTTACAAAAGTTTTAAATAA--TTTAAATAACTT
112958 TTATTTTTACAAAAGTTTTAAATAATTTAAATAACTT
1 TTATTTTTACAAAAGTTTTAAATAATTTAAATAACTT
112995 TCTATTTTT
1 T-TATTTTT
113004 TAGATTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
36 9 0.22
37 3 0.07
38 29 0.71
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (37 bp):
TTATTTTTACAAAAGTTTTAAATAATTTAAATAACTT
Found at i:113832 original size:14 final size:14
Alignment explanation
Indices: 113810--113841 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
113800 ACCCATTATT
*
113810 TATATATATATAGA
1 TATAGATATATAGA
113824 TATAGATATATAGA
1 TATAGATATATAGA
113838 TATA
1 TATA
113842 AAAAGCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (14 bp):
TATAGATATATAGA
Found at i:114780 original size:17 final size:17
Alignment explanation
Indices: 114740--114782 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
114730 TTCCTCTTCA
* *
114740 TCCTCTATTTATTTTCT
1 TCCTCTTTTTATTTTCC
*
114757 TCCTCTTTTTCTTTTCC
1 TCCTCTTTTTATTTTCC
114774 TCCTCTTTT
1 TCCTCTTTT
114783 CTCTCATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.05, C:0.30, G:0.00, T:0.65
Consensus pattern (17 bp):
TCCTCTTTTTATTTTCC
Found at i:116372 original size:32 final size:32
Alignment explanation
Indices: 116331--116402 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
116321 TCACACTGAG
116331 CTTTATAGGTCATGCCCCTATTCTATTTCCAT
1 CTTTATAGGTCATGCCCCTATTCTATTTCCAT
*
116363 CTTTATAGGTCATGCGCCTATTCTATTTCCAT
1 CTTTATAGGTCATGCCCCTATTCTATTTCCAT
116395 CTTTATAG
1 CTTTATAG
116403 ATAACCTATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.19, C:0.25, G:0.11, T:0.44
Consensus pattern (32 bp):
CTTTATAGGTCATGCCCCTATTCTATTTCCAT
Found at i:118110 original size:18 final size:18
Alignment explanation
Indices: 118087--118122 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
118077 GATATGATAC
118087 TAAAAT-TATTAAAAAAAT
1 TAAAATATA-TAAAAAAAT
118105 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
118123 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:118419 original size:23 final size:22
Alignment explanation
Indices: 118376--118433 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
118366 AAAAGGTATC
* *
118376 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
118397 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
118420 TGCATATCATATCT
1 TACAAATCATATCT
118434 AAGATTTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:118427 original size:17 final size:19
Alignment explanation
Indices: 118412--118483 Score: 107
Period size: 17 Copynumber: 3.9 Consensus size: 19
118402 AATCATATCT
118412 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
118431 TCTAAGATTTG--TATCATA
1 TCTAAGA-TTGCATATCATA
118449 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
118466 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
118484 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 20 0.40
18 14 0.28
19 13 0.26
20 3 0.06
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:118885 original size:45 final size:46
Alignment explanation
Indices: 118834--118972 Score: 169
Period size: 45 Copynumber: 3.1 Consensus size: 46
118824 GGAAGGCGAT
*
118834 ATCTGCTATCTTTC-ATCTCCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTTCAATCTCCTCCCCGTCTAATACAGAGATGCCAA
* * *
118879 ATCTGCT-T-TTTCAACCTTCTCCCCATCTAATACAGAGATGCCAA
1 ATCTGCTATCTTTCAATCTCCTCCCCGTCTAATACAGAGATGCCAA
* * * * *
118923 ATCTGTTATC-TCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTTCAATCTCCTCCCCGTCTAATACAGAGATGCCAA
118968 ATCTG
1 ATCTG
118973 TCATCTTGGA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
43 4 0.05
44 34 0.43
45 42 0.52
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.31
Consensus pattern (46 bp):
ATCTGCTATCTTTCAATCTCCTCCCCGTCTAATACAGAGATGCCAA
Found at i:119131 original size:78 final size:78
Alignment explanation
Indices: 119002--119529 Score: 754
Period size: 78 Copynumber: 6.8 Consensus size: 78
118992 ATGTAAACAC
* * * * * * *
119002 ATGAAGGTCAAACCTGCTATGTCTACGATCTGCTCCCCTTCTAATACAGAGATGCTAAATCATCT
1 ATGAAGGTCCAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
119067 TGGATCTGCTTCA
66 TGGATCTACTTCA
* * * **
119080 ATGAAGGCCCAATCTGTTATGTCTTTGATCTGCTCCATGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
119145 TGGATCTGCTTCA
66 TGGATCTACTTCA
* * *
119158 ATGAAGGT-TAGATCTGCTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCCA-ATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
119222 TTGGATCTACTTCG
65 TTGGATCTACTTCA
*
119236 ATGAAGGTCCAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTATTACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
119301 TGGATCTACTTCG
66 TGGATCTACTTCA
*
119314 ATGAAGGTCCAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTATTACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
119379 TGGATCTACTTCG
66 TGGATCTACTTCA
*
119392 ATGAAGGTCCAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTATTACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
119457 TGGATCTGCTTCA
66 TGGATCTACTTCA
* * * * **
119470 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
1 ATGAAGGTCCA-ATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
119530 TTGTTTCTTC
Statistics
Matches: 416, Mismatches: 31, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
77 3 0.01
78 412 0.99
79 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCCAATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTACTTCA
Found at i:119871 original size:220 final size:220
Alignment explanation
Indices: 119479--120061 Score: 988
Period size: 220 Copynumber: 2.6 Consensus size: 220
119469 AATGAAGGTC
*
119479 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATTTGTTTCTTCGATT
1 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATT
* * *
119544 TGTTCTCTGACAGTACAGAGATGCCAAAACATCTTAGATCTGCTTCAGCATAAACACGTGAAAGC
66 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGG
* *
119609 CAAATCTGCTATGTCTTCGATCTGCTCCTTATAAATGCAAGGATGCCAAATCATCTTGGATCTAC
131 CAAATCTGCTATGTCTTCGATCTACTCCTTATAAACGCAAGGATGCCAAATCATCTTGGATCTAC
119674 TTCGATGTGAAAACATCCGAAGATT
196 TTCGATGTGAAAACATCCGAAGATT
*
119699 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGAAGATGCCAAATCTGTTTCTTCGATT
1 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATT
*
119764 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGTTTCAGCGTAAACACGTGAAAGG
66 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGG
* *
119829 CAAATCTGCTATGTCTTCGATCTACTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTAC
131 CAAATCTGCTATGTCTTCGATCTACTCCTTATAAACGCAAGGATGCCAAATCATCTTGGATCTAC
* *
119894 TTTGATGTGAAAACATCCGAAGGTT
196 TTCGATGTGAAAACATCCGAAGATT
119919 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATT
1 AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATT
* ** * * *
119984 TGTTCTCTGACAATACAGAGATGTTAAATCATCTTGGATCCGCTTCAGCGTAAACACCTG-AAGG
66 TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGG
120048 TCAAATCTGCTATG
131 -CAAATCTGCTATG
120062 CTTTAGCCTG
Statistics
Matches: 342, Mismatches: 20, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
219 4 0.01
220 338 0.99
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (220 bp):
AGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATT
TGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGG
CAAATCTGCTATGTCTTCGATCTACTCCTTATAAACGCAAGGATGCCAAATCATCTTGGATCTAC
TTCGATGTGAAAACATCCGAAGATT
Found at i:126226 original size:17 final size:17
Alignment explanation
Indices: 126204--126236 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
126194 GATATGATAC
126204 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
126221 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
126237 AACAGGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:126237 original size:18 final size:17
Alignment explanation
Indices: 126204--126237 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
126194 GATATGATAC
*
126204 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
126221 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
126238 ACAGGGAAAC
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:126526 original size:22 final size:22
Alignment explanation
Indices: 126491--126548 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
126481 AAAAGGTATC
* *
126491 TACAAATTAAATCTT-TAAGAT
1 TACAAATCATATCTTCTAAGAT
126512 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
126535 TGCATATCATATCT
1 TACAAATCATATCT
126549 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 20 0.65
23 8 0.26
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:126583 original size:35 final size:37
Alignment explanation
Indices: 126527--126617 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
126517 AATCATATCT
*
126527 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATACCATA
126564 TCTAAGATTG-TATCATATCTAAGATTGCATACCATA
1 TCTAAGATTGATATCATATCTAAGATTGCATACCATA
126600 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
126618 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.38
36 15 0.30
37 10 0.20
38 6 0.12
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATACCATA
Found at i:126625 original size:17 final size:19
Alignment explanation
Indices: 126527--126617 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
126517 AATCATATCT
126527 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
126546 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
126564 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
126581 TCTAAGATTGCATACCATA
1 TCTAAGATTGCATATCATA
126600 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
126618 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:127266 original size:21 final size:21
Alignment explanation
Indices: 127231--127284 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
127221 TCGAATCTTC
*
127231 GACGTTGCAAACATCCTTCCAT
1 GACGTCGC-AACATCCTTCCAT
*
127253 GACGTCGCAACATCTTTCCAT
1 GACGTCGCAACATCCTTCCAT
127274 GACGTCGCAAC
1 GACGTCGCAAC
127285 CTTACATGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (21 bp):
GACGTCGCAACATCCTTCCAT
Found at i:132740 original size:92 final size:92
Alignment explanation
Indices: 132567--132741 Score: 291
Period size: 92 Copynumber: 1.9 Consensus size: 92
132557 TTTCGATCCA
132567 AAGTGGGGATCGGGATTCGGGTGTGGAGGCTGAGATCCCAACTCTGTTGACTGAATGAAACGATT
1 AAGTGGGGATCGGGATTCGGGTGTGGAGGCTGAGATCCCAACTCTGTTGACTGAATGAAACGATT
** *
132632 GTGCTTAGTTCTGGGGGGGGGGGGTTC
66 GTGCTTAGGGCGGGGGGGGGGGGGTTC
*
132659 AAGTGGTGATCGGGATTCGGGTGTGGAGGCTGAGATCCCAACTCTGTTGACTGAATGAAACGATT
1 AAGTGGGGATCGGGATTCGGGTGTGGAGGCTGAGATCCCAACTCTGTTGACTGAATGAAACGATT
*
132724 GTG-TTTGGG-GGGGGGGGG
66 GTGCTTAGGGCGGGGGGGGG
132742 TTCTTCCTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
90 8 0.10
91 3 0.04
92 67 0.86
ACGTcount: A:0.19, C:0.13, G:0.42, T:0.26
Consensus pattern (92 bp):
AAGTGGGGATCGGGATTCGGGTGTGGAGGCTGAGATCCCAACTCTGTTGACTGAATGAAACGATT
GTGCTTAGGGCGGGGGGGGGGGGGTTC
Found at i:136676 original size:26 final size:26
Alignment explanation
Indices: 136647--136698 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
136637 TCTCTCTTTT
136647 CTTTTC-GATATATTAACAGAAAATTC
1 CTTTTCAG-TATATTAACAGAAAATTC
*
136673 CTTTTCAGTATATTAATAGAAAATTC
1 CTTTTCAGTATATTAACAGAAAATTC
136699 AAATTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (26 bp):
CTTTTCAGTATATTAACAGAAAATTC
Found at i:153444 original size:33 final size:33
Alignment explanation
Indices: 153407--153497 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 33
153397 CTCTGTTTCA
*
153407 GGTTGCTGGACAGGAGCTGGGATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
153440 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
* *
153473 GGTTACTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
153498 CAAGAAGAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.19, C:0.10, G:0.42, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:160563 original size:1 final size:1
Alignment explanation
Indices: 160559--160593 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
160549 AGGAAAAAGT
**
160559 AAAAAAAAAAAAAAAAAAAAAAAAGGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
160594 TTTAGGTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:163255 original size:10 final size:9
Alignment explanation
Indices: 163240--163293 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 9
163230 TATAAGAATC
163240 ATAAAAAATT
1 ATAAAAAA-T
*
163250 ATAAAATAT
1 ATAAAAAAT
*
163259 ATTAAAAAT
1 ATAAAAAAT
163268 A-AAAAAAT
1 ATAAAAAAT
163276 ATTAAAAAAT
1 A-TAAAAAAT
163286 ATTAAAAA
1 A-TAAAAA
163294 CCATTGAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
8 7 0.18
9 9 0.24
10 22 0.58
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:163273 original size:8 final size:9
Alignment explanation
Indices: 163240--163293 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
163230 TATAAGAATC
163240 ATAAAAAATT
1 ATAAAAAA-T
*
163250 ATAAAATAT
1 ATAAAAAAT
*
163259 ATTAAAAAT
1 ATAAAAAAT
163268 A-AAAAAAT
1 ATAAAAAAT
163276 ATTAAAAAAT
1 A-TAAAAAAT
*
163286 ATTAAAAA
1 ATAAAAAA
163294 CCATTGAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
8 7 0.19
9 15 0.41
10 15 0.41
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:163281 original size:27 final size:26
Alignment explanation
Indices: 163240--163293 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
163230 TATAAGAATC
* *
163240 ATAAAAAATTATAAAATATATTAAAA
1 ATAAAAAAATATAAAAAATATTAAAA
163266 ATAAAAAAATATTAAAAAATATTAAAA
1 ATAAAAAAATA-TAAAAAATATTAAAA
163293 A
1 A
163294 CCATTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (26 bp):
ATAAAAAAATATAAAAAATATTAAAA
Found at i:164312 original size:43 final size:43
Alignment explanation
Indices: 164253--164338 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
164243 ATGCGTCGTA
164253 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
1 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
164296 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
1 ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
164339 CATTTGAGCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (43 bp):
ATATAGTTGTATTACACCCTTACGTGGGCTATGTTAAGGTGAT
Found at i:165980 original size:31 final size:31
Alignment explanation
Indices: 165944--166005 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
165934 GGACAAAATA
* *
165944 TTCTTTTTTTTTCCCTTTC-CTCGCCTTTTCT
1 TTCTTTTCTTATCCCTTTCTCTC-CCTTTTCT
*
165975 TTCTTTTCTTATCTCTTTCTCTCCCTTTTCT
1 TTCTTTTCTTATCCCTTTCTCTCCCTTTTCT
166006 CCCCTCTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.02, C:0.32, G:0.02, T:0.65
Consensus pattern (31 bp):
TTCTTTTCTTATCCCTTTCTCTCCCTTTTCT
Found at i:167936 original size:13 final size:14
Alignment explanation
Indices: 167920--167958 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
167910 AAAAAATTAA
167920 TTATTTATAAA-AT
1 TTATTTATAAATAT
167933 TTATTTATAAATAT
1 TTATTTATAAATAT
* *
167947 TAAATTATAAAT
1 TTATTTATAAAT
167959 TACATTAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTATTTATAAATAT
Found at i:177736 original size:16 final size:16
Alignment explanation
Indices: 177712--177748 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
177702 AAATTTTCAA
*
177712 TTCATTTAAATTATTT
1 TTCAATTAAATTATTT
177728 TTCAATTAAATTATTT
1 TTCAATTAAATTATTT
177744 TTCAA
1 TTCAA
177749 AATTTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (16 bp):
TTCAATTAAATTATTT
Found at i:186176 original size:21 final size:21
Alignment explanation
Indices: 186149--186223 Score: 132
Period size: 21 Copynumber: 3.6 Consensus size: 21
186139 AACCAGGTCT
*
186149 TGGAGGTGGAGCAGCATACTG
1 TGGAGGTGGAGCAGCATATTG
*
186170 CGGAGGTGGAGCAGCATATTG
1 TGGAGGTGGAGCAGCATATTG
186191 TGGAGGTGGAGCAGCATATTG
1 TGGAGGTGGAGCAGCATATTG
186212 TGGAGGTGGAGC
1 TGGAGGTGGAGC
186224 CATGACTGGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.23, C:0.12, G:0.45, T:0.20
Consensus pattern (21 bp):
TGGAGGTGGAGCAGCATATTG
Found at i:187473 original size:6 final size:6
Alignment explanation
Indices: 187462--187497 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
187452 ACAATGCCTT
187462 TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA
1 TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA TGGCTA
187498 CATTAGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (6 bp):
TGGCTA
Found at i:190715 original size:9 final size:9
Alignment explanation
Indices: 190701--190725 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
190691 TATAAGAGCT
190701 GAAGAAGGA
1 GAAGAAGGA
190710 GAAGAAGGA
1 GAAGAAGGA
190719 GAAGAAG
1 GAAGAAG
190726 ACGTAATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (9 bp):
GAAGAAGGA
Found at i:192873 original size:21 final size:21
Alignment explanation
Indices: 192849--192889 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
192839 GTGATGGCAC
*
192849 CACCTCCACATTATGCTGCTG
1 CACCTCCACAGTATGCTGCTG
192870 CACCTCCACAGTATGCTGCT
1 CACCTCCACAGTATGCTGCT
192890 CCGCCTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.39, G:0.15, T:0.27
Consensus pattern (21 bp):
CACCTCCACAGTATGCTGCTG
Found at i:192896 original size:21 final size:21
Alignment explanation
Indices: 192848--192896 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
192838 AGTGATGGCA
*
192848 CCACCTCCACATTATGCTGCT
1 CCACCTCCACAGTATGCTGCT
*
192869 GCACCTCCACAGTATGCTGCT
1 CCACCTCCACAGTATGCTGCT
*
192890 CCGCCTC
1 CCACCTC
192897 TAAGGCCTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.16, C:0.45, G:0.14, T:0.24
Consensus pattern (21 bp):
CCACCTCCACAGTATGCTGCT
Found at i:208740 original size:25 final size:25
Alignment explanation
Indices: 208712--208764 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
208702 AAAATTTGCC
*
208712 TTTAATGAAAATATAATATTTTAAT
1 TTTAATGAAAATAAAATATTTTAAT
* * *
208737 TTTAATTAATATAAAATATTTTACT
1 TTTAATGAAAATAAAATATTTTAAT
208762 TTT
1 TTT
208765 TCGTTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
TTTAATGAAAATAAAATATTTTAAT
Found at i:218937 original size:12 final size:12
Alignment explanation
Indices: 218920--218949 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
218910 ATTTATCAAG
218920 ATAAATATTAGA
1 ATAAATATTAGA
218932 ATAAATATTAGA
1 ATAAATATTAGA
*
218944 TTAAAT
1 ATAAAT
218950 TTAATATTAA
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:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
ATAAATATTAGA
Found at i:219047 original size:20 final size:19
Alignment explanation
Indices: 218997--219048 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
218987 CTACAAGATA
218997 AATATTAAATT-A-ACTTT
1 AATATTAAATTAATACTTT
219014 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-ACTTT
219034 AATATTAAATTAATA
1 AATATTAAATTAATA
219049 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 9 0.30
18 2 0.07
19 2 0.07
20 17 0.57
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATTAAATTAATACTTT
Found at i:220739 original size:16 final size:16
Alignment explanation
Indices: 220718--220748 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
220708 CTATGTATGC
*
220718 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
220734 AAAATACAAAAGACA
1 AAAATACAAAAGACA
220749 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:227703 original size:16 final size:17
Alignment explanation
Indices: 227672--227704 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
227662 TCTTTTTTTC
*
227672 ATTATTTTTTCATTTAT
1 ATTATTTTCTCATTTAT
227689 ATTATTTTCTC-TTTAT
1 ATTATTTTCTCATTTAT
227705 TTTTTCTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTATTTTCTCATTTAT
Found at i:230697 original size:656 final size:651
Alignment explanation
Indices: 229378--230636 Score: 1708
Period size: 656 Copynumber: 1.9 Consensus size: 651
229368 GTTTCCACTG
*
229378 TAAAGGAACTCCAGCAGTGATTCCAGTTCTTCTGTGTTCAACTCAGGTAGTGTAATTGCATCACT
1 TAAAGGAACTCCAGCAGTGATTCCAGTTCTTCTGTGTTCAACTCAGATAGTGTAATTGCATCACT
229443 TGGTGGAGCTTTGCACCCATCTGAGTCTAGCATGTTCCTGAATATCTCTGATCTTGCTGCCTATA
66 TGGTGGAGCTTTGCACCCATCTGAGTCTAGCATGTTCCTGAATATCTCTGATCTTGCTGCCTATA
229508 TTTCACATGATACTACTTGTTAATTTTTAGTTTACACAAAACTTAAACAACCCTAACTAATATAT
131 TTTCACATGATACTACTTGTTAATTTTTAGTTTACACAAAACTTAAACAACCCTAACTAATATAT
229573 ATATATATATACACATACATGTATGATTATAAATAAAATGTTAAAAAGAGTATAGAGACTAACAG
196 ATATATATATACACATACATGTATGATTATAAATAAAATGTTAAAAAGAGTATAGAGACTAACAG
229638 TGTATTTAAACGTAATATAAAATAAAAAGCAATAATAAATGATAATAGTGGAGAGGGAATTACAT
261 TGTATTTAAACGTAATATAAAATAAAAAGCAATAATAAATGATAATAGTGGAGAGGGAATTACAT
229703 ACAAGTAAAGCCCTGTGAGCTGGTATGGAAGGACCATCGTTGCCCGGTTTGAGCTGAATATCAGT
326 ACAAGTAAAGCCCTGTGAGCTGGTATGGAAGGACCATCGTTGCCCGGTTTGAGCTGAATATCAGT
229768 GTGAATTTGATCTCTAAAAGCCACAATAAGTCCACTCAAGAAGCTTATTTTCTTGTTCAGATCTT
391 GTGAATTTGATCTCTAAAAGCCACAATAAGTCCACTCAAGAAGCTTATTTTCTTGTTCAGATCTT
229833 CTTCTATCTCCTTCATGCTTGTCATCCATTTGCTCAGATTTCCAAGTGGCTGTTGCTATCATCCA
456 CTTCTATCTCCTTCATGCTTGTCATCCATTTGCTCAGATTTCCAAGTGGCTGTTGCTATCATCCA
**********************************************************
229898 AATAAAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
521 AATAAAAAACACATACTTTTTTTTATATATTTTTCAAAATTAGTCATTCAAATATATATATATAA
************** * ** * ** * *
229963 NNNNNNNNNNNNNNGCCAGGAACAACGAATACACATGTTTCTCCAGCTTGTCCCAACCCAGGTTT
586 GATAATAATATATGGCCAGGAACAACGAATACACATATTAATCAAGAATG--CAAACCCAAG--T
* **
230028 CCACTG
647 -AACAA
230034 TAAAGGAACTCCAGCAGTGATTCCAGTTCTTCTGTGTTCAACTCAGATAGTGTAATTGCATCACT
1 TAAAGGAACTCCAGCAGTGATTCCAGTTCTTCTGTGTTCAACTCAGATAGTGTAATTGCATCACT
230099 TGGTGGAGCTTTGCACCCATCTGAGTCTAGCATGTTCCTGAATATCTCTGATCTTGCTGCCTATA
66 TGGTGGAGCTTTGCACCCATCTGAGTCTAGCATGTTCCTGAATATCTCTGATCTTGCTGCCTATA
230164 TTTCACATGATACTACTTGTTAATTTTTAGTTTACACAAAACTTAAACAACCCTAACTAATATAT
131 TTTCACATGATACTACTTGTTAATTTTTAGTTTACACAAAACTTAAACAACCCTAACTAATATAT
230229 ATATATATATACACATACATGTATGATTATAAATAAAATGTTAAAAAGAGTATAGAGACTAACAG
196 ATATATATATACACATACATGTATGATTATAAATAAAATGTTAAAAAGAGTATAGAGACTAACAG
230294 TGTATTTAAACGTAATATAAAATAAAAAGCAATAATAAATGATAATAGTGGAGAGGGAATTACAT
261 TGTATTTAAACGTAATATAAAATAAAAAGCAATAATAAATGATAATAGTGGAGAGGGAATTACAT
230359 ACAAGTAAAGCCCTGTGAGCTGGTATGGAAGGACCATCGTTGCCCGGTTTGAGCTGAATATCAGT
326 ACAAGTAAAGCCCTGTGAGCTGGTATGGAAGGACCATCGTTGCCCGGTTTGAGCTGAATATCAGT
230424 GTGAATTTGATCTCTAAAAGCCACAATAAGTCCACTCAAGAAGCTTATTTTCTTGTTCAGATCTT
391 GTGAATTTGATCTCTAAAAGCCACAATAAGTCCACTCAAGAAGCTTATTTTCTTGTTCAGATCTT
230489 CTTCTATCTCCTTCATGCTTGTCATCCATTTGCTCAGATTTCCAAGTGGCTGTTGCTATCATCCA
456 CTTCTATCTCCTTCATGCTTGTCATCCATTTGCTCAGATTTCCAAGTGGCTGTTGCTATCATCCA
230554 AATAAAAGAACACATACTTTTTTTTATATATTTTTCAAAATTAGTCATTCAAATATATATATATA
521 AATAAAA-AACACATACTTTTTTTTATATATTTTTCAAAATTAGTCATTCAAATATATATATATA
230619 AGATAATAATATATGGCC
585 AGATAATAATATATGGCC
230637 TTTGAATTGT
Statistics
Matches: 529, Mismatches: 73, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
656 526 0.99
657 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.31
Consensus pattern (651 bp):
TAAAGGAACTCCAGCAGTGATTCCAGTTCTTCTGTGTTCAACTCAGATAGTGTAATTGCATCACT
TGGTGGAGCTTTGCACCCATCTGAGTCTAGCATGTTCCTGAATATCTCTGATCTTGCTGCCTATA
TTTCACATGATACTACTTGTTAATTTTTAGTTTACACAAAACTTAAACAACCCTAACTAATATAT
ATATATATATACACATACATGTATGATTATAAATAAAATGTTAAAAAGAGTATAGAGACTAACAG
TGTATTTAAACGTAATATAAAATAAAAAGCAATAATAAATGATAATAGTGGAGAGGGAATTACAT
ACAAGTAAAGCCCTGTGAGCTGGTATGGAAGGACCATCGTTGCCCGGTTTGAGCTGAATATCAGT
GTGAATTTGATCTCTAAAAGCCACAATAAGTCCACTCAAGAAGCTTATTTTCTTGTTCAGATCTT
CTTCTATCTCCTTCATGCTTGTCATCCATTTGCTCAGATTTCCAAGTGGCTGTTGCTATCATCCA
AATAAAAAACACATACTTTTTTTTATATATTTTTCAAAATTAGTCATTCAAATATATATATATAA
GATAATAATATATGGCCAGGAACAACGAATACACATATTAATCAAGAATGCAAACCCAAGTAACA
A
Found at i:235163 original size:27 final size:27
Alignment explanation
Indices: 235125--235178 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
235115 AACATAAAGC
235125 AATACTATGATAAAAGTTCCACTATCA
1 AATACTATGATAAAAGTTCCACTATCA
*
235152 AATACTATGATAAAATTTCCACTATCA
1 AATACTATGATAAAAGTTCCACTATCA
235179 TAACTTCTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (27 bp):
AATACTATGATAAAAGTTCCACTATCA
Found at i:238898 original size:27 final size:26
Alignment explanation
Indices: 238866--238952 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 26
238856 GCCGTGTGTC
238866 CCCTATTTTTCAAATTTTACAGTTTT
1 CCCTATTTTTCAAATTTTACAGTTTT
238892 CCTCTATTTTT-AAGATTTTACAGTTTTAT
1 CC-CTATTTTTCAA-ATTTTACAG-TTT-T
* *
238921 CCCATATTTTACAAATTTTATAGTTTT
1 CCC-TATTTTTCAAATTTTACAGTTTT
*
238948 ACCTA
1 CCCTA
238953 GAATTTTATG
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
26 6 0.12
27 20 0.38
28 7 0.13
29 17 0.33
30 2 0.04
ACGTcount: A:0.26, C:0.17, G:0.05, T:0.52
Consensus pattern (26 bp):
CCCTATTTTTCAAATTTTACAGTTTT
Found at i:238938 original size:29 final size:28
Alignment explanation
Indices: 238866--238948 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 28
238856 GCCGTGTGTC
*
238866 CCCTATTTTTCAAATTTTACAG-TTT-T
1 CCCTATTTTACAAATTTTACAGTTTTAT
*
238892 CCTCTATTTTTA-AGATTTTACAGTTTTAT
1 CC-CTA-TTTTACAAATTTTACAGTTTTAT
*
238921 CCCATATTTTACAAATTTTATAGTTTTA
1 CCC-TATTTTACAAATTTTACAGTTTTA
238949 CCTAGAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
26 2 0.04
27 13 0.28
28 13 0.28
29 19 0.40
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.53
Consensus pattern (28 bp):
CCCTATTTTACAAATTTTACAGTTTTAT
Found at i:238958 original size:29 final size:28
Alignment explanation
Indices: 238870--238960 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 28
238860 TGTGTCCCCT
* *
238870 ATTTTTCAAATTTTACAGTTTT-CCTCTA
1 ATTTTACAAATTTTACAGTTTTACCT-AA
* * * *
238898 TTTTTA-AGATTTTACAGTTTTATCCCAT
1 ATTTTACAAATTTTACAGTTTTA-CCTAA
*
238926 ATTTTACAAATTTTATAGTTTTACCTAGA
1 ATTTTACAAATTTTACAGTTTTACCTA-A
238955 ATTTTA
1 ATTTTA
238961 TGATTTGTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
27 14 0.29
28 12 0.25
29 22 0.46
ACGTcount: A:0.29, C:0.13, G:0.05, T:0.53
Consensus pattern (28 bp):
ATTTTACAAATTTTACAGTTTTACCTAA
Done.