Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 42 of 93
Found at i:16047363 original size:22 final size:21
Alignment explanation
Indices: 16047329--16047371 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
16047319 TAATCTTCTG
16047329 TTTTCTAAGAATCAACTTCTTC
1 TTTTCTAAGAATCAA-TTCTTC
*
16047351 TTTTCTCAA-AATCGATTCTTC
1 TTTTCT-AAGAATCAATTCTTC
16047372 ACTATTGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 11 0.58
23 2 0.11
ACGTcount: A:0.26, C:0.23, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTTCTAAGAATCAATTCTTC
Found at i:16055195 original size:29 final size:28
Alignment explanation
Indices: 16055157--16055297 Score: 156
Period size: 29 Copynumber: 4.9 Consensus size: 28
16055147 CAGCTTTAAT
16055157 ATGTTTGTCTTAATTTAGACAAAAAAAC
1 ATGTTTGTCTTAATTTAGACAAAAAAAC
* *
16055185 ATGTTTGGTCTTAATTTAGACAAGAAAAT
1 ATGTTT-GTCTTAATTTAGACAAAAAAAC
* *
16055214 TTGTTTAGTCTTAATTTAAGACAAGAAAAAT
1 ATGTTT-GTCTTAATTT-AGACAA-AAAAAC
* * *
16055245 ATTTTTTGTCTTAATATAGACAAGAAAAC
1 A-TGTTTGTCTTAATTTAGACAAAAAAAC
* *
16055274 ATATTTGTCTCAATTTAGACAAAA
1 ATGTTTGTCTTAATTTAGACAAAA
16055298 TAAAATATTT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
28 25 0.26
29 40 0.42
30 12 0.13
31 14 0.15
32 4 0.04
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (28 bp):
ATGTTTGTCTTAATTTAGACAAAAAAAC
Found at i:16055315 original size:89 final size:89
Alignment explanation
Indices: 16055160--16055328 Score: 227
Period size: 89 Copynumber: 1.9 Consensus size: 89
16055150 CTTTAATATG
* * *
16055160 TTTGTCTTAATTTAGACAAAAAAACATGTTTGGTCTTAATTTAGACAAGAAAATTTGTTTAGTCT
1 TTTGTCTTAATATAGACAAAAAAACATATTTGGTCTCAATTTAGACAAGAAAATTTGTTTAGTCT
*
16055225 TAATTTAAGACAAGAAAAATATTT
66 TAATTAAAGACAAGAAAAATATTT
* *
16055249 TTTGTCTTAATATAGACAAGAAAACATATTT-GTCTCAATTTAGACAAAATAAAATATT-TTTA-
1 TTTGTCTTAATATAGACAAAAAAACATATTTGGTCTCAATTTAGAC--AAGAAAAT-TTGTTTAG
*
16055311 TCTTAATTAAAGATAAGA
63 TCTTAATTAAAGACAAGA
16055329 GTTGTCTTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
88 13 0.19
89 44 0.63
90 11 0.16
91 2 0.03
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (89 bp):
TTTGTCTTAATATAGACAAAAAAACATATTTGGTCTCAATTTAGACAAGAAAATTTGTTTAGTCT
TAATTAAAGACAAGAAAAATATTT
Found at i:16057178 original size:2 final size:2
Alignment explanation
Indices: 16057171--16057229 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
16057161 TGGCTTATTT
* *
16057171 TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
16057213 TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA T
16057230 GAATGATATT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16063657 original size:19 final size:19
Alignment explanation
Indices: 16063633--16063669 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
16063623 CTTCTAAACT
16063633 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
16063652 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
16063670 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:16066040 original size:30 final size:29
Alignment explanation
Indices: 16065966--16066120 Score: 179
Period size: 29 Copynumber: 5.3 Consensus size: 29
16065956 AACATGTTTA
* *
16065966 TCTTAATTTAGACAAGAAAACATGTTTAG
1 TCTTAATTTAGACAAGAAAATATGTTTGG
16065995 TCTTAATTTAGACAAGAAAATATGTTTGG
1 TCTTAATTTAGACAAGAAAATATGTTTGG
*
16066024 TCTTAATTTAAGACAAGAAAAATATTTTTGG
1 TCTTAATTT-AGACAAG-AAAATATGTTTGG
* * *
16066055 TCTTAATCTAGACAAGAAAACATATTT-G
1 TCTTAATTTAGACAAGAAAATATGTTTGG
* * *
16066083 TCTCAATTTAGACATGATAAAATAT-TTTTG
1 TCTTAATTTAGACA--AGAAAATATGTTTGG
16066113 TCTTAATT
1 TCTTAATT
16066121 AAATATAAGA
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
28 13 0.12
29 48 0.44
30 29 0.26
31 20 0.18
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (29 bp):
TCTTAATTTAGACAAGAAAATATGTTTGG
Found at i:16067946 original size:19 final size:19
Alignment explanation
Indices: 16067919--16067960 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
16067909 GATAAGAGAC
* *
16067919 AATTCTAAAGCTTGATACT
1 AATTCTAAAGCTAGACACT
*
16067938 AATTTTAAAGCTAGACACT
1 AATTCTAAAGCTAGACACT
16067957 AATT
1 AATT
16067961 GAGAAAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (19 bp):
AATTCTAAAGCTAGACACT
Found at i:16069683 original size:75 final size:77
Alignment explanation
Indices: 16069560--16069753 Score: 252
Period size: 77 Copynumber: 2.5 Consensus size: 77
16069550 CACGCTATAA
* * *
16069560 TGTTATACGCCAT-CTACAAAAATATGTTACACGCCATGGTTAGGTTGTTACACACCATG-TT-A
1 TGTTACACGCCATGC-ACAAAAACATGTTACACACCATGGTTAGGTTGTTACACACCATGTTTAA
16069622 AAAAAAATATTGT
65 AAAAAAATATTGT
* * * * *
16069635 TGTTACAGGCCATGCACAAAAACATGTTACATACTATGGTTAGGTTGTTACACGCTATGTTTAAA
1 TGTTACACGCCATGCACAAAAACATGTTACACACCATGGTTAGGTTGTTACACACCATGTTTAAA
16069700 AAAAAATATTGT
66 AAAAAATATTGT
* *
16069712 TGTTACACGTCATGTACAAAAACATGTTACA-AGCCATGGTTA
1 TGTTACACGCCATGCACAAAAACATGTTACACA-CCATGGTTA
16069754 AAAAAGGCTA
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
75 49 0.48
76 4 0.04
77 50 0.49
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (77 bp):
TGTTACACGCCATGCACAAAAACATGTTACACACCATGGTTAGGTTGTTACACACCATGTTTAAA
AAAAAATATTGT
Found at i:16069740 original size:77 final size:74
Alignment explanation
Indices: 16069560--16069807 Score: 271
Period size: 75 Copynumber: 3.2 Consensus size: 74
16069550 CACGCTATAA
* * * * * *
16069560 TGTTATACGCCATCTACAAAAATATGTTACACGCCATGGTTAGGTTGTTACACACCATGTTAAAA
1 TGTTACACGCCATGTACAAAAACATGTTACA-ACCATGGTTAGGTTGTTACACGCTATGTTAAAA
16069625 AAAATATTGT
65 AAAATATTGT
* * *
16069635 TGTTACAGGCCATGCACAAAAACATGTTACATACTATGGTTAGGTTGTTACACGCTATGTTTAAA
1 TGTTACACGCCATGTACAAAAACATGTTACA-ACCATGGTTAGGTTGTTACACGCTATG-TT-AA
16069700 AAAAAATATTGT
63 AAAAAATATTGT
* * * *
16069712 TGTTACACGTCATGTACAAAAACATGTTACAAGCCATGGTTAAAAAAGGCTATTACATGCTATGT
1 TGTTACACGCCATGTACAAAAACATGTTACAA-CCATGGTT-----AGGTTGTTACACGCTATGT
16069777 TGAAAAAAAATATTGT
60 T-AAAAAAAATATTGT
*
16069793 TGTTACACACCATGT
1 TGTTACACGCCATGT
16069808 TGGAAAAATG
Statistics
Matches: 145, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
75 49 0.34
76 3 0.02
77 49 0.34
81 29 0.20
82 15 0.10
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (74 bp):
TGTTACACGCCATGTACAAAAACATGTTACAACCATGGTTAGGTTGTTACACGCTATGTTAAAAA
AAATATTGT
Found at i:16069858 original size:29 final size:29
Alignment explanation
Indices: 16069780--16069858 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
16069770 GCTATGTTGA
* *
16069780 AAAAAAATATTGTTGTTACACACCATGTT
1 AAAAAAATATTGTTGTTACATACCATGCT
** * * * **
16069809 GGAAAAATGTTATTGCTACATGTCATGCT
1 AAAAAAATATTGTTGTTACATACCATGCT
16069838 AAAAAAATATTGTTGTTACAT
1 AAAAAAATATTGTTGTTACAT
16069859 TCTATATTTA
Statistics
Matches: 36, Mismatches: 14, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.35
Consensus pattern (29 bp):
AAAAAAATATTGTTGTTACATACCATGCT
Found at i:16070292 original size:23 final size:23
Alignment explanation
Indices: 16070261--16070306 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
16070251 CTTCGTGTTT
16070261 TGAAAGCGTAGGAA-AGAGAAATC
1 TGAAAGCGT-GGAAGAGAGAAATC
*
16070284 TGAATGCGTGGAAGAGAGAAATC
1 TGAAAGCGTGGAAGAGAGAAATC
16070307 GGGAGCATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.43, C:0.09, G:0.33, T:0.15
Consensus pattern (23 bp):
TGAAAGCGTGGAAGAGAGAAATC
Found at i:16074885 original size:20 final size:20
Alignment explanation
Indices: 16074860--16074899 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
16074850 TTCACTTCCT
16074860 TCAACTTTAA-TAGATTAAAA
1 TCAACTTTAACTA-ATTAAAA
16074880 TCAACTTTAACTAATTAAAA
1 TCAACTTTAACTAATTAAAA
16074900 ATTCTTCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (20 bp):
TCAACTTTAACTAATTAAAA
Found at i:16075552 original size:45 final size:45
Alignment explanation
Indices: 16075474--16075562 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
16075464 TTTTAGAATC
* *
16075474 AAAAGATGAGTTAAGGAAAAAAAAAGGGGAAAAAGAAAAGAAAAG
1 AAAAAATGAGCTAAGGAAAAAAAAAGGGGAAAAAGAAAAGAAAAG
16075519 AAAAAATGAGCTAAGG-AAAAAAAAGGGGAAAAAAGAAAAGAAAA
1 AAAAAATGAGCTAAGGAAAAAAAAAGGGG-AAAAAGAAAAGAAAA
16075563 ATAATTCCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 12 0.29
45 29 0.71
ACGTcount: A:0.69, C:0.01, G:0.25, T:0.06
Consensus pattern (45 bp):
AAAAAATGAGCTAAGGAAAAAAAAAGGGGAAAAAGAAAAGAAAAG
Found at i:16075553 original size:40 final size:43
Alignment explanation
Indices: 16075474--16075563 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 43
16075464 TTTTAGAATC
* *
16075474 AAAAGATGAGTTAAGGAAAAAAAAAGGGGAAAAAGAAAAGAAAAG
1 AAAAAATGAGCTAAGGAAAAAAAAAGGGG--AAAGAAAAGAAAAG
16075519 AAAAAATGAGCTAAGG-AAAAAAAAGGGG-AA-AAAAGAAAAG
1 AAAAAATGAGCTAAGGAAAAAAAAAGGGGAAAGAAAAGAAAAG
16075559 AAAAA
1 AAAAA
16075564 TAATTCCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
40 15 0.35
41 2 0.05
44 12 0.28
45 14 0.33
ACGTcount: A:0.69, C:0.01, G:0.24, T:0.06
Consensus pattern (43 bp):
AAAAAATGAGCTAAGGAAAAAAAAAGGGGAAAGAAAAGAAAAG
Found at i:16075679 original size:65 final size:64
Alignment explanation
Indices: 16075547--16075679 Score: 164
Period size: 65 Copynumber: 2.1 Consensus size: 64
16075537 AAAAAAGGGG
* * ** *
16075547 AAAAAAGAAAAGAAAAATAATTCCAAAATTTGAGCTTAGATGAGCCAAAGAAAGTTAAAGGAAAA
1 AAAAAAGAAAAGAAAAAAAATTCCAAAATTTGAGCTTAGAAGAGAAAAAGAAAG-TAAAGAAAAA
16075612 AAAAAAGAAAAGAAAAAAAATTCCAAAATTTGAGC-TA-AAGAGAAAAACGGAAAG-AAAGAAAA
1 AAAAAAGAAAAGAAAAAAAATTCCAAAATTTGAGCTTAGAAGAGAAAAA--GAAAGTAAAGAAAA
*
16075674 G
64 A
16075675 AAAAA
1 AAAAA
16075680 TAATTCCAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
63 19 0.32
64 2 0.03
65 39 0.65
ACGTcount: A:0.64, C:0.07, G:0.17, T:0.13
Consensus pattern (64 bp):
AAAAAAGAAAAGAAAAAAAATTCCAAAATTTGAGCTTAGAAGAGAAAAAGAAAGTAAAGAAAAA
Found at i:16076500 original size:19 final size:20
Alignment explanation
Indices: 16076476--16076513 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16076466 CTATAAATAC
*
16076476 CTTGAA-TTTCCAGTAGCTT
1 CTTGAATTTTCCAGCAGCTT
16076495 CTTGAATTTTCCAGCAGCT
1 CTTGAATTTTCCAGCAGCT
16076514 GGTCTTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (20 bp):
CTTGAATTTTCCAGCAGCTT
Found at i:16077356 original size:43 final size:43
Alignment explanation
Indices: 16077307--16077417 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
16077297 ATTGACTCGG
* **
16077307 CTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATAACCCGG
1 CTATGTGCGAGTAGGGAGTGCGCATAA-CCCAGTGATAACCCAA
* * *
16077350 TTATGTGTGAGTAGGGAGTGCGCATAACCCAGTGATGACCCAA
1 CTATGTGCGAGTAGGGAGTGCGCATAACCCAGTGATAACCCAA
*
16077393 CCATGTGCGAGTAGGGAGTGCGCAT
1 CTATGTGCGAGTAGGGAGTGCGCAT
16077418 GAGCTGGTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 4 0.07
43 54 0.93
ACGTcount: A:0.25, C:0.20, G:0.35, T:0.20
Consensus pattern (43 bp):
CTATGTGCGAGTAGGGAGTGCGCATAACCCAGTGATAACCCAA
Found at i:16077428 original size:43 final size:43
Alignment explanation
Indices: 16077309--16077430 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
16077299 TGACTCGGCT
* ****
16077309 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATAACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAACC
* * *
16077352 ATGTGTGAGTAGGGAGTGCGCATAACCCAGTGATGACCCAACC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAACC
* *
16077395 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
16077431 TGATGATGAG
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 1 0.02
43 64 0.98
ACGTcount: A:0.25, C:0.18, G:0.37, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAACC
Found at i:16077433 original size:3 final size:3
Alignment explanation
Indices: 16077425--16077463 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
16077415 CATGAGCTGG
*
16077425 TGA TGA TGA TGA TGA -GA TGG TG- TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
16077464 GGTATGTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:16077867 original size:39 final size:40
Alignment explanation
Indices: 16077785--16077877 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
16077775 CTATAGCTTC
* ***
16077785 TCGCTGCAGCGAGAAACTTTCTGTTTTCTGGGTTGTAATT
1 TCGCTGCAGCGAGAAACATTCTGTTTTCTGGGTAAAAATT
16077825 TCGCTGCAGCGAGAAACATTCTGTTTT-TGGGTAAAAATT
1 TCGCTGCAGCGAGAAACATTCTGTTTTCTGGGTAAAAATT
16077864 TCGCTGCAGCGAGA
1 TCGCTGCAGCGAGA
16077878 TTGAATCTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 23 0.47
40 26 0.53
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (40 bp):
TCGCTGCAGCGAGAAACATTCTGTTTTCTGGGTAAAAATT
Found at i:16078144 original size:33 final size:33
Alignment explanation
Indices: 16078085--16078148 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
16078075 ATTCCAACGT
*
16078085 CGCTGCAACGAAAATTCATTCTCGCTGCAGCTA
1 CGCTGCAACGAAAATCCATTCTCGCTGCAGCTA
* *
16078118 CGCTGCAACGAGAATGCCTTTC-CGCTGCAGC
1 CGCTGCAACGAAAAT-CCATTCTCGCTGCAGC
16078149 GAAGATTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 23 0.85
34 4 0.15
ACGTcount: A:0.23, C:0.33, G:0.22, T:0.22
Consensus pattern (33 bp):
CGCTGCAACGAAAATCCATTCTCGCTGCAGCTA
Found at i:16082842 original size:20 final size:21
Alignment explanation
Indices: 16082804--16082843 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
16082794 NNNNNNTAAT
**
16082804 TAATATTAATATTTTTATTTA
1 TAATATTAATATTAATATTTA
16082825 TAAT-TTAATATTAATATTT
1 TAATATTAATATTAATATTT
16082844 TATTAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TAATATTAATATTAATATTTA
Found at i:16086162 original size:9 final size:9
Alignment explanation
Indices: 16086148--16086174 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
16086138 CATTTCAATT
16086148 TTTTGTTTA
1 TTTTGTTTA
16086157 TTTTGTTTA
1 TTTTGTTTA
16086166 TTTTGTTTA
1 TTTTGTTTA
16086175 ATATTTCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (9 bp):
TTTTGTTTA
Found at i:16097644 original size:21 final size:22
Alignment explanation
Indices: 16097619--16097659 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
16097609 CCTAGGTGGA
*
16097619 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
16097640 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
16097660 AAAAAAGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:16097660 original size:20 final size:21
Alignment explanation
Indices: 16097619--16097663 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
16097609 CCTAGGTGGA
*
16097619 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
16097640 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
16097660 AAAA
1 AAAA
16097664 AAGGCTAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:16097664 original size:21 final size:20
Alignment explanation
Indices: 16097617--16097664 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
16097607 ACCCTAGGTG
*
16097617 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
16097637 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
16097659 GAAAAA
1 GAAAAA
16097665 AGGCTAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:16107622 original size:29 final size:28
Alignment explanation
Indices: 16107585--16107640 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
16107575 GAATGAAATT
16107585 TTATTTATGTTTGATGTAATTTATTTGC
1 TTATTTATGTTTGATGTAATTTATTTGC
*
16107613 TTATATTATGTTTGGTGTAATTTATTTG
1 TTAT-TTATGTTTGATGTAATTTATTTG
16107641 TTTGTAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.21, C:0.02, G:0.16, T:0.61
Consensus pattern (28 bp):
TTATTTATGTTTGATGTAATTTATTTGC
Found at i:16107652 original size:29 final size:29
Alignment explanation
Indices: 16107591--16107654 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
16107581 AATTTTATTT
**
16107591 ATGTTTGATGTAATTTATTTGCTTATATT
1 ATGTTTGATGTAATTTATTTGCTTATAAC
* * *
16107620 ATGTTTGGTGTAATTTATTTGTTTGTAAC
1 ATGTTTGATGTAATTTATTTGCTTATAAC
16107649 ATGTTT
1 ATGTTT
16107655 TTATTATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.03, G:0.17, T:0.58
Consensus pattern (29 bp):
ATGTTTGATGTAATTTATTTGCTTATAAC
Found at i:16114534 original size:21 final size:21
Alignment explanation
Indices: 16114508--16114550 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
16114498 TTTGCAACAA
16114508 CACATTCAAGCTAGGCATCAT
1 CACATTCAAGCTAGGCATCAT
16114529 CACATTCAAGCTAGGCATCAT
1 CACATTCAAGCTAGGCATCAT
16114550 C
1 C
16114551 TAATAGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.23
Consensus pattern (21 bp):
CACATTCAAGCTAGGCATCAT
Found at i:16117152 original size:14 final size:14
Alignment explanation
Indices: 16117114--16117144 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16117104 TTACTTTAAT
*
16117114 TTTAAAAATTATTA
1 TTTAAAAATTATAA
16117128 TTTAAAAATTATAA
1 TTTAAAAATTATAA
16117142 TTT
1 TTT
16117145 TTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTAAAAATTATAA
Found at i:16120635 original size:43 final size:43
Alignment explanation
Indices: 16120571--16120652 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
16120561 CAGGATGAAC
* *
16120571 ACACAATAAGATAATATTCCAATTAAGTCACATTCAAAAATAA
1 ACACAATAAGATAATACTCCAATTAAGTCACACTCAAAAATAA
16120614 ACACAATATA-ATAATACTCCAATTAAGTCACACTCAAAA
1 ACACAATA-AGATAATACTCCAATTAAGTCACACTCAAAA
16120653 GTAAGAAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 35 0.97
44 1 0.03
ACGTcount: A:0.52, C:0.20, G:0.04, T:0.24
Consensus pattern (43 bp):
ACACAATAAGATAATACTCCAATTAAGTCACACTCAAAAATAA
Found at i:16125536 original size:19 final size:19
Alignment explanation
Indices: 16125495--16125536 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
16125485 GAAGAATGAG
*
16125495 AAGAAGCTGCTGGAGAATG
1 AAGAAGCTGCTGGAGAATA
*
16125514 AAGAAGCTGTTGGAAGAA-A
1 AAGAAGCTGCTGG-AGAATA
16125533 AAGA
1 AAGA
16125537 TATTTATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.45, C:0.07, G:0.33, T:0.14
Consensus pattern (19 bp):
AAGAAGCTGCTGGAGAATA
Found at i:16128439 original size:19 final size:19
Alignment explanation
Indices: 16128415--16128464 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
16128405 TTAACCGAAC
16128415 GAGGGTTTCTCAACTGGCT
1 GAGGGTTTCTCAACTGGCT
16128434 GAGGGTTTCTCAACTGGCT
1 GAGGGTTTCTCAACTGGCT
16128453 GAGGGTTTCTCA
1 GAGGGTTTCTCA
16128465 CTAAACCTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.16, C:0.20, G:0.32, T:0.32
Consensus pattern (19 bp):
GAGGGTTTCTCAACTGGCT
Found at i:16128624 original size:39 final size:40
Alignment explanation
Indices: 16128580--16128674 Score: 138
Period size: 39 Copynumber: 2.4 Consensus size: 40
16128570 ATAAGATACC
* ***
16128580 AAAACAGAAAGTTTTTCGCTGCAGCAAAATTTTTACCCAG
1 AAAACAGAAAGTTTCTCGCTGCAGCAAAATTGCAACCCAG
*
16128620 -AAACAGAATGTTTCTCGCTGCAGCAAAATTGCAACCCAG
1 AAAACAGAAAGTTTCTCGCTGCAGCAAAATTGCAACCCAG
16128659 AAAACAGAAAGTTTCT
1 AAAACAGAAAGTTTCT
16128675 AACTACAGCG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
39 34 0.71
40 14 0.29
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (40 bp):
AAAACAGAAAGTTTCTCGCTGCAGCAAAATTGCAACCCAG
Found at i:16128986 original size:8 final size:8
Alignment explanation
Indices: 16128973--16129014 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
16128963 CCTATAACAA
*
16128973 ACATATTT
1 ACATATAT
16128981 ACATATAT
1 ACATATAT
*
16128989 ATATATAT
1 ACATATAT
*
16128997 ATATATAT
1 ACATATAT
16129005 ACATATAT
1 ACATATAT
16129013 AC
1 AC
16129015 CCATCATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.43
Consensus pattern (8 bp):
ACATATAT
Found at i:16128990 original size:2 final size:2
Alignment explanation
Indices: 16128983--16129013 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
16128973 ACATATTTAC
*
16128983 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16129014 CCCATCATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:16132196 original size:32 final size:32
Alignment explanation
Indices: 16132151--16132228 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
16132141 TCGTAATCTA
*
16132151 CCACGTCATCATGTCAGTGCCATG-GGACATTG
1 CCACGTCATCATGTCAGTGCCATGTGG-CACTG
* *
16132183 CCATGTCATCATGTTAGTGCCATGTGGCACTG
1 CCACGTCATCATGTCAGTGCCATGTGGCACTG
*
16132215 CCACGTCAACATGT
1 CCACGTCATCATGT
16132229 AAAAATTGTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
32 38 0.95
33 2 0.05
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (32 bp):
CCACGTCATCATGTCAGTGCCATGTGGCACTG
Found at i:16134083 original size:11 final size:11
Alignment explanation
Indices: 16134067--16134091 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16134057 CTTTGTCTAC
16134067 TTTCTTTTATT
1 TTTCTTTTATT
16134078 TTTCTTTTATT
1 TTTCTTTTATT
16134089 TTT
1 TTT
16134092 AACTCTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTATT
Found at i:16135298 original size:3 final size:3
Alignment explanation
Indices: 16135290--16135314 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16135280 CTAGCAGCTT
16135290 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
16135315 CTTTCACGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:16136137 original size:42 final size:42
Alignment explanation
Indices: 16136076--16136201 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
16136066 GTAAAGATAT
** *
16136076 TGACCC-AGCTATGTGCGAGTAAGAGTGCACATAAGTCATTGC
1 TGACCCGA-CTATGTGCGAGTGGGAGTGCACATAAGTCGTTGC
* *
16136118 TGACCCGACTATGTACGAGTGGGAGTGCACATAAGCCGTTGC
1 TGACCCGACTATGTGCGAGTGGGAGTGCACATAAGTCGTTGC
* * *
16136160 TGACCTGGCTATGTGTGAGTGGGAGTGCACATAAGTCGTTGC
1 TGACCCGACTATGTGCGAGTGGGAGTGCACATAAGTCGTTGC
16136202 ATATGAGATG
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 72 0.99
43 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.25
Consensus pattern (42 bp):
TGACCCGACTATGTGCGAGTGGGAGTGCACATAAGTCGTTGC
Found at i:16136333 original size:2 final size:2
Alignment explanation
Indices: 16136246--16136325 Score: 133
Period size: 2 Copynumber: 39.0 Consensus size: 2
16136236 TGATTGATAG
16136246 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
16136288 AT AT AGT AT AT ANT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
16136326 GGTATATAGT
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
2 70 0.95
3 4 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:16138436 original size:43 final size:43
Alignment explanation
Indices: 16138368--16138474 Score: 171
Period size: 43 Copynumber: 2.5 Consensus size: 43
16138358 TATTGACTAG
16138368 GCTATGTGCGAGT-GGGAGTGCGCATAAGCCGATACTGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAAGCCGATACTGACCCA
* *
16138410 GCTATGTGCGAGTAGGGAGTGCGCATAAGCGGATGCTGACCCA
1 GCTATGTGCGAGTAGGGAGTGCGCATAAGCCGATACTGACCCA
* *
16138453 GCTATGTGTGAGTAGAGAGTGC
1 GCTATGTGCGAGTAGGGAGTGC
16138475 ACATGAGCTG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 13 0.22
43 47 0.78
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAAGCCGATACTGACCCA
Found at i:16141967 original size:20 final size:20
Alignment explanation
Indices: 16141939--16141976 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16141929 CTACTAGAGT
*
16141939 AAATCTATCAATAAATTTGA
1 AAATATATCAATAAATTTGA
*
16141959 AAATATATCAATAGATTT
1 AAATATATCAATAAATTT
16141977 TACTCAGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (20 bp):
AAATATATCAATAAATTTGA
Found at i:16142159 original size:20 final size:20
Alignment explanation
Indices: 16142134--16142205 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
16142124 AATGAACAAG
*
16142134 TATCAATAGATTTCAAAATC
1 TATCAATAGATTGCAAAATC
* *
16142154 TATCAATACATTGCTAAATC
1 TATCAATAGATTGCAAAATC
** * *
16142174 TATTGATAGATGGCCAAATC
1 TATCAATAGATTGCAAAATC
16142194 TATCAATAGATT
1 TATCAATAGATT
16142206 TCACCATTTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
TATCAATAGATTGCAAAATC
Found at i:16145620 original size:36 final size:37
Alignment explanation
Indices: 16145543--16145643 Score: 161
Period size: 36 Copynumber: 2.8 Consensus size: 37
16145533 ATGCATACCA
16145543 TCCCTACTCGCACACTCTAACATCATCATGTGTGCAC
1 TCCCTACTCGCACACTCTAACATCATCATGTGTGCAC
16145580 TCCCTACTCGCACACTCTAACATCATCAT-TGTGCAC
1 TCCCTACTCGCACACTCTAACATCATCATGTGTGCAC
* *
16145616 TCCCTACTCACACAGT-TCAACATCATCA
1 TCCCTACTCGCACACTCT-AACATCATCA
16145644 CACAACATTA
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
35 1 0.02
36 31 0.51
37 29 0.48
ACGTcount: A:0.27, C:0.39, G:0.08, T:0.27
Consensus pattern (37 bp):
TCCCTACTCGCACACTCTAACATCATCATGTGTGCAC
Found at i:16156369 original size:39 final size:40
Alignment explanation
Indices: 16156315--16156398 Score: 134
Period size: 39 Copynumber: 2.1 Consensus size: 40
16156305 GTTGAAGTAT
*
16156315 CAGACAGGTACCAATTCATTTTGAGACAAAC-AATGAGGA
1 CAGAAAGGTACCAATTCATTTTGAGACAAACAAATGAGGA
* *
16156354 CAGAAAGGTAGCAATTCATTTTGAGACCAACAAATGAGGA
1 CAGAAAGGTACCAATTCATTTTGAGACAAACAAATGAGGA
16156394 CAGAA
1 CAGAA
16156399 CTCCATAGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 28 0.68
40 13 0.32
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (40 bp):
CAGAAAGGTACCAATTCATTTTGAGACAAACAAATGAGGA
Found at i:16163763 original size:17 final size:17
Alignment explanation
Indices: 16163741--16163780 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
16163731 GAGAGAAATT
16163741 AAAGCTACAAAGCTTCC
1 AAAGCTACAAAGCTTCC
16163758 AAAGCTACAAAGCTTCC
1 AAAGCTACAAAGCTTCC
*
16163775 TAAGCT
1 AAAGCT
16163781 GTAAGTTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.20
Consensus pattern (17 bp):
AAAGCTACAAAGCTTCC
Found at i:16166453 original size:25 final size:26
Alignment explanation
Indices: 16166402--16166468 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 26
16166392 TTTTTACCTG
** *
16166402 TTTCTCCTTCTTC-CGTCTTGCTTTT
1 TTTCTCCTTCTTCTCACCTTGCTCTT
16166427 TTTCTCCTTCTTCTCACCTTGC-CTT
1 TTTCTCCTTCTTCTCACCTTGCTCTT
* *
16166452 TTTCTCTTTTTTCTCAC
1 TTTCTCCTTCTTCTCAC
16166469 TCTCCGCAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 30 0.83
26 6 0.17
ACGTcount: A:0.03, C:0.34, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTCTCCTTCTTCTCACCTTGCTCTT
Found at i:16170210 original size:6 final size:6
Alignment explanation
Indices: 16170201--16170230 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
16170191 AATTAATAGT
16170201 AATTAG AATTAG AATTAG AATTAG AATTAG
1 AATTAG AATTAG AATTAG AATTAG AATTAG
16170231 TGGACGATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
AATTAG
Found at i:16173255 original size:20 final size:18
Alignment explanation
Indices: 16173228--16173271 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
16173218 AAATAATATT
16173228 TTTA-ATATTAAATTTTAA
1 TTTATATATT-AATTTTAA
*
16173246 TTCTATATATTATTTTTAA
1 TT-TATATATTAATTTTAA
16173265 TTTATAT
1 TTTATAT
16173272 TTTTTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 11 0.48
20 5 0.22
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATATTAATTTTAA
Found at i:16175595 original size:29 final size:29
Alignment explanation
Indices: 16175559--16175614 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
16175549 GCTTATTTAA
* *
16175559 AATAAAAATATAAAGATTTGA-TTGAATAT
1 AATAAAAAAATAAAAATTT-ATTTGAATAT
16175588 AATAAAAAAATAAAAATTTATTTGAAT
1 AATAAAAAAATAAAAATTTATTTGAAT
16175615 TTTTTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (29 bp):
AATAAAAAAATAAAAATTTATTTGAATAT
Found at i:16180401 original size:122 final size:122
Alignment explanation
Indices: 16180184--16180425 Score: 430
Period size: 122 Copynumber: 2.0 Consensus size: 122
16180174 ATCATAGCTT
*
16180184 AATAAGCCTCATATGCTCAACCAGTTTAAACATAAATTTCCATATGCTTCCACTTATCAACGTAT
1 AATAAGCCTCATATGCTCAACCAGCTTAAACATAAATTTCCATATGCTTCCACTTATCAACGTAT
* * *
16180249 ATTGATTCTTAATTGGACCATTTATCATGAATAGACTACTCCTAAATACATGACATA
66 ATTGATTCTTAATTAGACAATTTATCATGAATAGACTACTCCCAAATACATGACATA
* *
16180306 AATAAGCCTCTTATGCTTAACCAGCTTAAACATAAATTTCCATATGCTTCCACTTATCAACGTAT
1 AATAAGCCTCATATGCTCAACCAGCTTAAACATAAATTTCCATATGCTTCCACTTATCAACGTAT
16180371 ATTGATTCTTAATTAGACAATTTATCATGAATAGACTACTCCCAAATACATGACA
66 ATTGATTCTTAATTAGACAATTTATCATGAATAGACTACTCCCAAATACATGACA
16180426 CAATCTTATA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 114 1.00
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (122 bp):
AATAAGCCTCATATGCTCAACCAGCTTAAACATAAATTTCCATATGCTTCCACTTATCAACGTAT
ATTGATTCTTAATTAGACAATTTATCATGAATAGACTACTCCCAAATACATGACATA
Found at i:16181676 original size:84 final size:83
Alignment explanation
Indices: 16181535--16181698 Score: 267
Period size: 84 Copynumber: 2.0 Consensus size: 83
16181525 GTAACGACCC
* *
16181535 AAGTCCAACCACTGGCCCAGTAACTTTTTGGGCCTAAACCACTTGACCCTCAAAAACTTAAGCTC
1 AAGTCCAACCACTGGCCCAGTAACTTTTCGGGCCAAAACCACTTGACCCTCAAAAACTTAAGCTC
16181600 AAGTTGCTAGTAGTGGTG
66 AAGTTGCTAGTAGTGGTG
* *
16181618 NAAGTCCAACTACTGGTCCC-GTAACTTTTCGGGTCAAAACCACTTGACCCTCAAAAACTTAAGC
1 -AAGTCCAACCACTGG-CCCAGTAACTTTTCGGGCCAAAACCACTTGACCCTCAAAAACTTAAGC
16181682 TCAAGTTGCTAGTAGTG
64 TCAAGTTGCTAGTAGTG
16181699 ATCGGCTTGA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
84 72 0.96
85 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (83 bp):
AAGTCCAACCACTGGCCCAGTAACTTTTCGGGCCAAAACCACTTGACCCTCAAAAACTTAAGCTC
AAGTTGCTAGTAGTGGTG
Found at i:16182895 original size:68 final size:67
Alignment explanation
Indices: 16182785--16182951 Score: 210
Period size: 68 Copynumber: 2.5 Consensus size: 67
16182775 CTTATCTCAT
* * * *
16182785 ATAGTATATGGAAAAATAAATCATATACATAATCTCATGCATTCATCATGCCTTT-TCAATCATT
1 ATAGTATATGG-AATATACATCATATACATAATCTCATGCATTAATCATG-CTTTCTCAATCATG
16182849 TCAA
64 TCAA
* * *
16182853 ATAGTATATGGAATGTACATCATATACTTAATTTCATGGCATTAATCATGCTTTCTCAATCATGT
1 ATAGTATATGGAATATACATCATATACATAATCTCAT-GCATTAATCATGCTTTCTCAATCATGT
*
16182918 CAT
65 CAA
* *
16182921 GTAGTATATGGTATATACATCATATACATAA
1 ATAGTATATGGAATATACATCATATACATAA
16182952 CATAGCATCT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
67 25 0.29
68 60 0.71
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (67 bp):
ATAGTATATGGAATATACATCATATACATAATCTCATGCATTAATCATGCTTTCTCAATCATGTC
AA
Found at i:16187060 original size:27 final size:28
Alignment explanation
Indices: 16187011--16187075 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
16187001 AATGTCATTA
* * *
16187011 TGATTATTTATTTTTAAATATTAATAAT
1 TGATAATTTATTTTAAAATATTAAAAAT
*
16187039 TTATAATTTA-TTTAAAATATTAAAAAT
1 TGATAATTTATTTTAAAATATTAAAAAT
*
16187066 TGATAGTTTA
1 TGATAATTTA
16187076 AATATTAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (28 bp):
TGATAATTTATTTTAAAATATTAAAAAT
Found at i:16187167 original size:143 final size:146
Alignment explanation
Indices: 16186929--16187195 Score: 391
Period size: 143 Copynumber: 1.8 Consensus size: 146
16186919 TATTTTATTT
* *
16186929 TTTAAATATTAATATTTTATTTATAATCTAATCGTTAACATTATAAAATTATAATATTTTACTTA
1 TTTAAATATTAATATTTTATTTATAATCTAATCGTTAACATTATAAAATAATAATATTTAACTTA
* *
16186994 TAATTTAAATGTCATTATGATTATTTA-TT-TTTA-AATATTAATAATTTATAATTTATTTAAAA
66 TAATTTAAATGTCATTATGATAATTTATTTATTTACAATATTAATAATATATAATTTATTTAAAA
16187056 TATTAAAAATTGATAG
131 TATTAAAAATTGATAG
* * *
16187072 TTTAAATATTAATATTTTATTTATAATTTAATCGTTAATATTA-AAAATAATAATATTTAATTTA
1 TTTAAATATTAATATTTTATTTATAATCTAATCGTTAACATTATAAAATAATAATATTTAACTTA
* *
16187136 TAATTTAAATGTTATTATGA-AATTTACATTTTATTTACAATATTAATAATATATCATTTA
66 TAATTTAAATGTCATTATGATAATTT--A-TTTATTTACAATATTAATAATATATAATTTA
16187196 AGTATTAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
141 4 0.04
142 37 0.34
143 42 0.39
145 2 0.02
146 4 0.04
147 20 0.18
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (146 bp):
TTTAAATATTAATATTTTATTTATAATCTAATCGTTAACATTATAAAATAATAATATTTAACTTA
TAATTTAAATGTCATTATGATAATTTATTTATTTACAATATTAATAATATATAATTTATTTAAAA
TATTAAAAATTGATAG
Found at i:16187171 original size:120 final size:121
Alignment explanation
Indices: 16187036--16187276 Score: 317
Period size: 120 Copynumber: 2.0 Consensus size: 121
16187026 AAATATTAAT
* *
16187036 AATTTATAATTTATTTAAAATATTAAAAAT-TGAT-AGTTTAAATATTAATATTTTATTTATAAT
1 AATTTACAATTTATTTAAAATATTAAAAATAT-ATCA-TTTAAATATTAATATTTTATTTATAAA
* * *
16187099 TTAATCGTTAA-TATTAAAAATAATAATATTTAATTTATAATTTAAATGTTATTATGA
64 TTAATCATTAATTATTAAAAATAATAATATTTAATTTATAATTAAAATATTATTATGA
* * * *
16187156 AATTTACATTTTATTTACAATATTAATAATATATCATTTAAGTATTAATATTTTATTTATAAATT
1 AATTTACAATTTATTTAAAATATTAAAAATATATCATTTAAATATTAATATTTTATTTATAAATT
* * * * *
16187221 AATTATTAATTTTTTAAAATATTAATATTTTATTTATAATTAAAATATTATTATGA
66 AATCATTAATTATTAAAAATAATAATATTTAATTTATAATTAAAATATTATTATGA
16187277 TTATTTTTTT
Statistics
Matches: 104, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
120 62 0.60
121 42 0.40
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (121 bp):
AATTTACAATTTATTTAAAATATTAAAAATATATCATTTAAATATTAATATTTTATTTATAAATT
AATCATTAATTATTAAAAATAATAATATTTAATTTATAATTAAAATATTATTATGA
Found at i:16187257 original size:42 final size:42
Alignment explanation
Indices: 16187075--16187401 Score: 138
Period size: 42 Copynumber: 7.7 Consensus size: 42
16187065 TTGATAGTTT
* ** * *
16187075 AAATATTAATATTTTATTTATAATTTAATCGTTAA-TATTAA
1 AAATATTAATATTTTATTTATAAATTAATTATTAATTTTTTA
* * * * * * *
16187116 AAATAATAATATTTAATTTATAATTTAAATGTT-A--TTATG
1 AAATATTAATATTTTATTTATAAATTAATTATTAATTTTTTA
* * * **
16187155 AAAT-TT-ACATTTTATTTACAATATTAA-TAATATATCATTT-
1 AAATATTAATATTTTATTTATAA-ATTAATTATTA-ATTTTTTA
*
16187195 AAGTATTAATATTTTATTTATAAATTAATTATTAATTTTTTA
1 AAATATTAATATTTTATTTATAAATTAATTATTAATTTTTTA
16187237 AAATATTAATATTTTATTTAT-AATTAAAATATTATTATGATTATTTT-
1 AAATATTAATATTTTATTTATAAATT---A-ATTATTA--ATT-TTTTA
** * * *
16187284 -TTTATTTA-ATTTTATGTTTTAAATTTTAATAATTTATATGTTTATTTA
1 AAATATTAATATTTTAT-TTATAAA--TTAATTA-TTA-A--TTT-TTTA
* * * * *
16187332 AAATATTAATATTTAATTTATAATTTAATAATTAATATTATA
1 AAATATTAATATTTTATTTATAAATTAATTATTAATTTTTTA
* * *
16187374 AAATACTAATGTTTTATTTATAATTTAA
1 AAATATTAATATTTTATTTATAAATTAA
16187402 ATGNNNNNNN
Statistics
Matches: 218, Mismatches: 41, Indels: 53
0.70 0.13 0.17
Matches are distributed among these distances:
37 14 0.06
38 5 0.02
39 6 0.03
40 4 0.02
41 47 0.22
42 65 0.30
43 2 0.01
44 1 0.00
45 19 0.09
46 16 0.07
47 17 0.08
48 4 0.02
49 12 0.06
50 6 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (42 bp):
AAATATTAATATTTTATTTATAAATTAATTATTAATTTTTTA
Found at i:16194083 original size:17 final size:17
Alignment explanation
Indices: 16194061--16194093 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16194051 CTTGCCATAT
*
16194061 CTCTATTTTGTTTTTTG
1 CTCTATCTTGTTTTTTG
16194078 CTCTATCTTGTTTTTT
1 CTCTATCTTGTTTTTT
16194094 ATTCTTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.15, G:0.09, T:0.70
Consensus pattern (17 bp):
CTCTATCTTGTTTTTTG
Found at i:16197286 original size:15 final size:15
Alignment explanation
Indices: 16197266--16197350 Score: 125
Period size: 15 Copynumber: 5.7 Consensus size: 15
16197256 TTTACAATGC
16197266 AATGTGATTGCAAGT
1 AATGTGATTGCAAGT
*
16197281 AATGTGATTACAAGT
1 AATGTGATTGCAAGT
*
16197296 AATGTGATTACAAGT
1 AATGTGATTGCAAGT
*
16197311 AATGTGATTGAAAGT
1 AATGTGATTGCAAGT
* *
16197326 AATGTAATTGCAAGC
1 AATGTGATTGCAAGT
16197341 AATGTGATTG
1 AATGTGATTG
16197351 TAGGGAAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 63 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.33
Consensus pattern (15 bp):
AATGTGATTGCAAGT
Found at i:16197608 original size:28 final size:28
Alignment explanation
Indices: 16197576--16197635 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
16197566 CCATATATTT
*
16197576 TATTTTTATTTCTTATTATAATCTTATA
1 TATTTTTATTTCTTAATATAATCTTATA
* * *
16197604 TATTTTTATTTTTTAATATAATTTTTTA
1 TATTTTTATTTCTTAATATAATCTTATA
16197632 TATT
1 TATT
16197636 ATATATTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.68
Consensus pattern (28 bp):
TATTTTTATTTCTTAATATAATCTTATA
Found at i:16197644 original size:28 final size:27
Alignment explanation
Indices: 16197576--16197644 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
16197566 CCATATATTT
* *
16197576 TATTTTTATTTCTTATTATAATCTTATA
1 TATTTATATTT-TTAATATAATCTTATA
* * *
16197604 TATTTTTATTTTTTAATATAATTTTTTA
1 TATTTATA-TTTTTAATATAATCTTATA
16197632 TATTATATATTTT
1 TATT-TATATTTT
16197645 ATTTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 29 0.83
29 6 0.17
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (27 bp):
TATTTATATTTTTAATATAATCTTATA
Found at i:16197736 original size:33 final size:33
Alignment explanation
Indices: 16197675--16197745 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
16197665 TATTATATAA
16197675 ATTTTAATTTCTTATATTTTATTTTATTTTAAT
1 ATTTTAATTTCTTATATTTTATTTTATTTTAAT
*
16197708 -TTTTGATTT-TTATATTATATATTTTATTTTAAT
1 ATTTTAATTTCTTATATT-T-TATTTTATTTTAAT
16197741 ATTTT
1 ATTTT
16197746 TTACTTTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 14 0.41
34 4 0.12
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (33 bp):
ATTTTAATTTCTTATATTTTATTTTATTTTAAT
Found at i:16214365 original size:23 final size:23
Alignment explanation
Indices: 16214339--16214404 Score: 105
Period size: 23 Copynumber: 2.8 Consensus size: 23
16214329 TTTTTTGCAC
*
16214339 ATGGCGTGCAACATTTTTTCAAA
1 ATGGCGTGTAACATTTTTTCAAA
*
16214362 ATGGCGTGTAACATCTTTTCAAA
1 ATGGCGTGTAACATTTTTTCAAA
16214385 ATGGCGTGTAACATCTTTTT
1 ATGGCGTGTAACAT-TTTTT
16214405 TCTTGAATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
23 35 0.90
24 4 0.10
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (23 bp):
ATGGCGTGTAACATTTTTTCAAA
Found at i:16216463 original size:73 final size:73
Alignment explanation
Indices: 16216386--16216558 Score: 194
Period size: 73 Copynumber: 2.4 Consensus size: 73
16216376 TTAGTCAACC
* * * *
16216386 AAGAAGCATAGTTAGTCGACTAAGTG-TTCACTTCT-AGAAACTGAG-TTCAG-AGACAGAGACG
1 AAGAAGCAT-GTTAGTCGACTAAGAGCTT-A-TTCTCAAAAACTGAGATT-AGAAGACAAAAACG
16216447 ACTTAA-TCGACT
62 ACTTAAGT-GACT
* *
16216459 AAGAAGCATTGTTAGTCGACTAAGAGCTTATTGTCAAAAAGTGAGATTAGAAGACAAAAACGACT
1 AAGAAGCA-TGTTAGTCGACTAAGAGCTTATTCTCAAAAACTGAGATTAGAAGACAAAAACGACT
16216524 TAAGTGACT
65 TAAGTGACT
*
16216533 AAGAAGAATGTTAGTCGACTAAGAGC
1 AAGAAGCATGTTAGTCGACTAAGAGC
16216559 ATTCTATCTG
Statistics
Matches: 87, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
72 3 0.03
73 52 0.60
74 31 0.36
75 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (73 bp):
AAGAAGCATGTTAGTCGACTAAGAGCTTATTCTCAAAAACTGAGATTAGAAGACAAAAACGACTT
AAGTGACT
Found at i:16218041 original size:3 final size:3
Alignment explanation
Indices: 16218033--16218063 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
16218023 TTGGAGCTGA
*
16218033 AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
16218064 TAAGAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16218073 original size:15 final size:13
Alignment explanation
Indices: 16218033--16218091 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 13
16218023 TTGGAGCTGA
16218033 AAGAAG-AAGAAG
1 AAGAAGAAAGAAG
16218045 AAGAAGAAA-AAG
1 AAGAAGAAAGAAG
16218057 AAGAAGATAAGAGAG
1 AAGAAGA-AAGA-AG
*
16218072 AAGTA-AAAGAA-
1 AAGAAGAAAGAAG
*
16218083 ATGAAGAAA
1 AAGAAGAAA
16218092 AACATTGCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
11 3 0.08
12 20 0.51
13 8 0.21
14 2 0.05
15 6 0.15
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (13 bp):
AAGAAGAAAGAAG
Found at i:16236478 original size:27 final size:30
Alignment explanation
Indices: 16236445--16236524 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
16236435 GCCATACCAA
*
16236445 TATATATATTGTCAATTACATGCCAA-CTT
1 TATATATATTGTCAGTTACATGCCAAGCTT
* *
16236474 TATATATATTGTTAGTTACACGCCAAGC-T
1 TATATATATTGTCAGTTACATGCCAAGCTT
*
16236503 TATATAAATTGTCAGTTACATG
1 TATATATATTGTCAGTTACATG
16236525 GAATTCCTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
29 43 0.98
30 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (30 bp):
TATATATATTGTCAGTTACATGCCAAGCTT
Found at i:16238945 original size:321 final size:319
Alignment explanation
Indices: 16238357--16238957 Score: 827
Period size: 321 Copynumber: 1.9 Consensus size: 319
16238347 CACACCTAAA
* * *
16238357 TTACCAATGTTGCTACAGGCCATGGCAACAAATAGAGTTGTTACACGCTGAGTGTAACAACTGAC
1 TTACCAATGTTGCTACAGGCCATGCCAACAAATAGAGTAGTTACACGCT-AGCGTAACAACTGAC
* * * * *
16238422 AGATGGCTTGTATGTTCATGTGTTTGATTGAAAGCATTATATCAAGAAGCACTTGTATTCATCCA
65 AAATGGCCTGCATGTTCATGTGTTTGATTGAAAGCATCATATCAAGAAGCACTTGTATGCATCCA
* **
16238487 ACAACTTCAAATTCAGATACAAAGTTTTGAGACGTTAAATCAGTAGTTTTAATTCTCATTTTTAT
130 ACAACTTCAAATTCAGATACAAAGTTTTGAGACGTTAAATCAGTAGTCTTAATTCTCATTACTAT
* *
16238552 GATTAAATGTATAGAGACTAAATGTCTCTTCACCAACTTTCCTTGAAAACTGTTACATTTTGAAG
195 GATTAAATGTATAGAGACTAAATGTCTCTTCACCAACCTTCCATGAAAACTGTTACATTTTGAAG
16238617 CTACTCCATTTTGAATATTAATTTGTTTATATGTTTTCTATCTAGCTAAACCCTTTCACC
260 CTACTCCATTTTGAATATTAATTTGTTTATATGTTTTCTATCTAGCTAAACCCTTTCACC
* *
16238677 TTACCTAATGTTGCTATATGCCATGCCAACAAATAGAGTAGTTATGCAC-C-ATGCGTAACAACT
1 TTACC-AATGTTGCTACAGGCCATGCCAACAAATAGAGTAGTTA--CACGCTA-GCGTAACAACT
* *
16238740 GACAAATGGCCTGCATGTTCTTGTGTTTGATTGAAAGTATCATA-CTAAGAAGCACTTGTATGCA
62 GACAAATGGCCTGCATGTTCATGTGTTTGATTGAAAGCATCATATC-AAGAAGCACTTGTATGCA
* * * * *
16238804 TCCAACAACTTTAAATTTAGATGA-AGAGTTTTGAGATGTTAAATCAGTAGTCTTGATGT-TCAT
126 TCCAACAACTTCAAATTCAGAT-ACAAAGTTTTGAGACGTTAAATCAGTAGTCTTAAT-TCTCAT
* *** *
16238867 TACTATGATTAAATGTATA-AGGACTGAATGTCTCTTCACTTGCCTTCCATGAAAACTGTTTCAT
189 TACTATGATTAAATGTATAGA-GACTAAATGTCTCTTCACCAACCTTCCATGAAAACTGTTACAT
*
16238931 TTTGAAGTTACTCCATTTTGAATATTA
253 TTTGAAGCTACTCCATTTTGAATATTA
16238958 TTTTTTGTTG
Statistics
Matches: 245, Mismatches: 28, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
320 8 0.03
321 231 0.94
322 3 0.01
323 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (319 bp):
TTACCAATGTTGCTACAGGCCATGCCAACAAATAGAGTAGTTACACGCTAGCGTAACAACTGACA
AATGGCCTGCATGTTCATGTGTTTGATTGAAAGCATCATATCAAGAAGCACTTGTATGCATCCAA
CAACTTCAAATTCAGATACAAAGTTTTGAGACGTTAAATCAGTAGTCTTAATTCTCATTACTATG
ATTAAATGTATAGAGACTAAATGTCTCTTCACCAACCTTCCATGAAAACTGTTACATTTTGAAGC
TACTCCATTTTGAATATTAATTTGTTTATATGTTTTCTATCTAGCTAAACCCTTTCACC
Found at i:16245373 original size:36 final size:36
Alignment explanation
Indices: 16245321--16245393 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
16245311 TGAACGGGAA
* *
16245321 TGTTTTGTTATTATCAAAAGCACATGGAGTCAACAT
1 TGTTTTGTTATCATCAAAAGCACATGAAGTCAACAT
16245357 TGTTTTGTTATCATCAAAAGCACATGAAGTCAACAT
1 TGTTTTGTTATCATCAAAAGCACATGAAGTCAACAT
16245393 T
1 T
16245394 CTCTCTCTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (36 bp):
TGTTTTGTTATCATCAAAAGCACATGAAGTCAACAT
Found at i:16253971 original size:27 final size:26
Alignment explanation
Indices: 16253931--16253995 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
16253921 TCATGTTGAA
* *
16253931 AAAAAATATTATTATTATACGTCATAATT
1 AAAAAA-A-TATTATTACACGCCAT-ATT
*
16253960 AAAAAAATATTATTACATGCCATATT
1 AAAAAAATATTATTACACGCCATATT
16253986 AAAAAAATAT
1 AAAAAAATAT
16253996 ATTCTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.39
27 13 0.39
28 1 0.03
29 6 0.18
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (26 bp):
AAAAAAATATTATTACACGCCATATT
Found at i:16255036 original size:18 final size:17
Alignment explanation
Indices: 16255002--16255037 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16254992 TGTGCTAAGA
*
16255002 TAGAATAAAAATGTTTT
1 TAGAACAAAAATGTTTT
*
16255019 TAGAACAAAAATGCTTT
1 TAGAACAAAAATGTTTT
16255036 TA
1 TA
16255038 ACTAATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (17 bp):
TAGAACAAAAATGTTTT
Found at i:16255638 original size:15 final size:15
Alignment explanation
Indices: 16255604--16255638 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16255594 AATTACTATT
*
16255604 ATATATATACTTTTA
1 ATATATATACTTTAA
*
16255619 GTATATATACTTTAA
1 ATATATATACTTTAA
16255634 ATATA
1 ATATA
16255639 AACATATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATATATACTTTAA
Found at i:16258353 original size:43 final size:43
Alignment explanation
Indices: 16258306--16258443 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 43
16258296 TGCTGTGTGA
* * * *
16258306 TGATGATGACCTAGCTATGTGCGATGT-GGTAGTGCACATGAGC
1 TGATGATGACCCAGCTATGTGCGA-GTAAGAAGTGCACATAAGC
* * *
16258349 TGATGATGACCCGGCTATGTGAGAGTAAGAAGTGCGCATAAGC
1 TGATGATGACCCAGCTATGTGCGAGTAAGAAGTGCACATAAGC
* * * **
16258392 CGATGATGACCCCGCTATGTGCGAGTAAGGAGTGTGCATAAGC
1 TGATGATGACCCAGCTATGTGCGAGTAAGAAGTGCACATAAGC
*
16258435 CGATGATGA
1 TGATGATGA
16258444 TGACCCGGCT
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 2 0.02
43 80 0.98
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (43 bp):
TGATGATGACCCAGCTATGTGCGAGTAAGAAGTGCACATAAGC
Found at i:16258399 original size:46 final size:44
Alignment explanation
Indices: 16258348--16258456 Score: 157
Period size: 43 Copynumber: 2.5 Consensus size: 44
16258338 TGCACATGAG
16258348 CTGATGATGACCCGGCTATGTGAGAGTAAGAAGTGCGCATAAGC
1 CTGATGATGACCCGGCTATGTGAGAGTAAGAAGTGCGCATAAGC
* * * *
16258392 C-GATGATGACCCCGCTATGTGCGAGTAAGGAGTGTGCATAAGC
1 CTGATGATGACCCGGCTATGTGAGAGTAAGAAGTGCGCATAAGC
16258435 CGATGATGATGACCCGGCTATG
1 C--TGATGATGACCCGGCTATG
16258457 ACGATAAATG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
43 39 0.68
44 1 0.02
46 17 0.30
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.21
Consensus pattern (44 bp):
CTGATGATGACCCGGCTATGTGAGAGTAAGAAGTGCGCATAAGC
Found at i:16258757 original size:22 final size:21
Alignment explanation
Indices: 16258729--16258803 Score: 84
Period size: 22 Copynumber: 3.6 Consensus size: 21
16258719 CCAACCCTGT
16258729 TTCTCACTGCAGCGAAAAAGAA
1 TTCTCACTGCAGC-AAAAAGAA
*
16258751 TTCTCACTGCAGC--AAGGAA
1 TTCTCACTGCAGCAAAAAGAA
*
16258770 TT-TCACTGCAGCAAAAATGGA
1 TTCTCACTGCAGCAAAAA-GAA
*
16258791 TTCTCGCTGCAGC
1 TTCTCACTGCAGC
16258804 GAGAAACTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 10 0.22
19 7 0.16
20 2 0.04
21 4 0.09
22 22 0.49
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (21 bp):
TTCTCACTGCAGCAAAAAGAA
Found at i:16260881 original size:45 final size:45
Alignment explanation
Indices: 16260830--16260915 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
16260820 TTCCACTTGG
16260830 GGTTCTTTCTCCATT-TCTCTGTCTTCCTCATTCTCTTCAATGGTT
1 GGTTCTTTCTCCATTCT-TCTGTCTTCCTCATTCTCTTCAATGGTT
* * * * *
16260875 GGTTCTTTTTCCATTCTTTTTTCTTCTTCATTTTCTTCAAT
1 GGTTCTTTCTCCATTCTTCTGTCTTCCTCATTCTCTTCAAT
16260916 AGTTAGTGTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
45 34 0.97
46 1 0.03
ACGTcount: A:0.09, C:0.26, G:0.08, T:0.57
Consensus pattern (45 bp):
GGTTCTTTCTCCATTCTTCTGTCTTCCTCATTCTCTTCAATGGTT
Found at i:16269089 original size:15 final size:14
Alignment explanation
Indices: 16269069--16269114 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 14
16269059 TTCTTAAAAC
16269069 AACTTTAAAACCGAA
1 AACTTTAAAACC-AA
16269084 AACTTTAAAATCCAA
1 AACTTTAAAA-CCAA
*
16269099 AGCTTTAAAACCAA
1 AACTTTAAAACCAA
16269113 AA
1 AA
16269115 TCTCTGATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 5 0.18
15 21 0.75
16 2 0.07
ACGTcount: A:0.54, C:0.20, G:0.04, T:0.22
Consensus pattern (14 bp):
AACTTTAAAACCAA
Found at i:16271582 original size:19 final size:19
Alignment explanation
Indices: 16271558--16271595 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16271548 CTACCAAATC
16271558 CTCAAATTATACTCCAATA
1 CTCAAATTATACTCCAATA
16271577 CTCAAATTATACTCCAATA
1 CTCAAATTATACTCCAATA
16271596 AGTTAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (19 bp):
CTCAAATTATACTCCAATA
Found at i:16281302 original size:23 final size:23
Alignment explanation
Indices: 16281266--16281310 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
16281256 TTTAAAATGT
16281266 ATAAACAAAAAAGAATTAAAAAA
1 ATAAACAAAAAAGAATTAAAAAA
* * *
16281289 ATAAAGAAATAAGAATTGAAAA
1 ATAAACAAAAAAGAATTAAAAA
16281311 GATAGAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (23 bp):
ATAAACAAAAAAGAATTAAAAAA
Found at i:16281377 original size:2 final size:2
Alignment explanation
Indices: 16281372--16281430 Score: 81
Period size: 2 Copynumber: 31.5 Consensus size: 2
16281362 TTTAAAAATA
*
16281372 AT AT AT CT A- AT AT -T AT AT AT AT -T A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16281410 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
16281431 CAAATTTTAG
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
1 4 0.08
2 47 0.92
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:16281522 original size:23 final size:24
Alignment explanation
Indices: 16281496--16281544 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
16281486 TGGATCAAAA
* *
16281496 AAATTAATTAAATCAAA-CATTTT
1 AAATCAATTAAACCAAACCATTTT
*
16281519 AAATCGATTAAACCAAACCATTTT
1 AAATCAATTAAACCAAACCATTTT
16281543 AA
1 AA
16281545 CTAAATCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATCAATTAAACCAAACCATTTT
Found at i:16283597 original size:36 final size:38
Alignment explanation
Indices: 16283557--16283638 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
16283547 GGATAAGAAA
*
16283557 TTTAAACAATTTTGT-TTT-AGTTTTGAGTACCCTATT
1 TTTAAACAATTTTGTGTTTCAGTTTTGAATACCCTATT
* * *
16283593 TTTAAGCAGTTTTGTGTTTCGGTTTTGAATACCCTATT
1 TTTAAACAATTTTGTGTTTCAGTTTTGAATACCCTATT
16283631 TTTAAACA
1 TTTAAACA
16283639 GTTTCAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 13 0.33
37 3 0.08
38 23 0.59
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (38 bp):
TTTAAACAATTTTGTGTTTCAGTTTTGAATACCCTATT
Found at i:16285224 original size:18 final size:18
Alignment explanation
Indices: 16285177--16285234 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
16285167 ATACGTTTAC
* *
16285177 TTAATCGTCTTATCATGT
1 TTAATCGTGTTATCGTGT
* *
16285195 TTAATTGCGTTATCGTGT
1 TTAATCGTGTTATCGTGT
*
16285213 TTAATCGTGTTATCGTAT
1 TTAATCGTGTTATCGTGT
16285231 TTAA
1 TTAA
16285235 ACGTATACAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.50
Consensus pattern (18 bp):
TTAATCGTGTTATCGTGT
Found at i:16285505 original size:20 final size:20
Alignment explanation
Indices: 16285418--16285507 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
16285408 ATGTTATTAT
* *
16285418 TATTTTTATTTTATTATAAT
1 TATTTTTATTTAATTATAAA
*
16285438 TATTTTTA--TAATTATAGA
1 TATTTTTATTTAATTATAAA
* *
16285456 T-TTTATATTTAAATAATAAA
1 TATTTTTATTT-AATTATAAA
*
16285476 -A-TTATATTTAATTATAAA
1 TATTTTTATTTAATTATAAA
16285494 TATTTTTATTTAAT
1 TATTTTTATTTAAT
16285508 CGTGTTAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
17 5 0.09
18 16 0.29
19 10 0.18
20 25 0.45
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (20 bp):
TATTTTTATTTAATTATAAA
Found at i:16285521 original size:9 final size:9
Alignment explanation
Indices: 16285509--16285550 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
16285499 TTATTTAATC
16285509 GTGTTAAAT
1 GTGTTAAAT
*
16285518 GTGTTAAAC
1 GTGTTAAAT
*
16285527 GTGTTAATT
1 GTGTTAAAT
16285536 GTGTTAAAT
1 GTGTTAAAT
16285545 GTGTTA
1 GTGTTA
16285551 TTAATCGTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (9 bp):
GTGTTAAAT
Found at i:16285529 original size:18 final size:18
Alignment explanation
Indices: 16285503--16285550 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
16285493 ATATTTTTAT
*
16285503 TTAATCGTGTTAAATGTG
1 TTAAACGTGTTAAATGTG
*
16285521 TTAAACGTGTTAATTGTG
1 TTAAACGTGTTAAATGTG
*
16285539 TTAAATGTGTTA
1 TTAAACGTGTTA
16285551 TTAATCGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (18 bp):
TTAAACGTGTTAAATGTG
Found at i:16287166 original size:20 final size:21
Alignment explanation
Indices: 16287136--16287175 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
16287126 TTTTGAAAGG
16287136 CTAATAAATATTCTCATTTCC
1 CTAATAAATATTCTCATTTCC
16287157 CTAA-AAATATTCTCATTTC
1 CTAATAAATATTCTCATTTC
16287176 ATTTGTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (21 bp):
CTAATAAATATTCTCATTTCC
Found at i:16289297 original size:31 final size:30
Alignment explanation
Indices: 16289257--16289340 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 30
16289247 TTTAATAGAT
*
16289257 TTTTGTTCAATTTAATCCTTATACTCTACAA
1 TTTTATTCAATTTAATCCTTATACTCTAC-A
* *
16289288 TTTTATTCAATTTAATCTTTGTACTCTACA
1 TTTTATTCAATTTAATCCTTATACTCTACA
* *
16289318 TTTTCATCCAATTTAGTCCTTAT
1 TTTT-ATTCAATTTAATCCTTAT
16289341 GACGTGACAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 5 0.11
31 40 0.89
ACGTcount: A:0.26, C:0.19, G:0.04, T:0.51
Consensus pattern (30 bp):
TTTTATTCAATTTAATCCTTATACTCTACA
Found at i:16290381 original size:7 final size:7
Alignment explanation
Indices: 16290369--16290401 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
16290359 TTGAACAACC
16290369 AATATTA
1 AATATTA
16290376 AATATTA
1 AATATTA
16290383 AATATTA
1 AATATTA
16290390 AATATT-
1 AATATTA
16290396 AATATT
1 AATATT
16290402 GGACTATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
AATATTA
Found at i:16290721 original size:21 final size:21
Alignment explanation
Indices: 16290697--16290738 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16290687 AGGTACATAT
*
16290697 GTTGTCTTAATTAAGATAAGA
1 GTTGTCTTAATTAAGACAAGA
*
16290718 GTTGTCTTAATTTAGACAAGA
1 GTTGTCTTAATTAAGACAAGA
16290739 ATATATGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (21 bp):
GTTGTCTTAATTAAGACAAGA
Found at i:16293460 original size:30 final size:32
Alignment explanation
Indices: 16293420--16293479 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
16293410 AAGCATCAAT
* *
16293420 TATAAAAGTTT-ATTTGATTTAA-AATAAAAA
1 TATAAAAGTTTGATTTAATATAATAATAAAAA
*
16293450 TATAAGAGTTTGATTTAATATAATAATAAA
1 TATAAAAGTTTGATTTAATATAATAATAAA
16293480 TAAATTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.40
31 9 0.36
32 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (32 bp):
TATAAAAGTTTGATTTAATATAATAATAAAAA
Found at i:16293834 original size:2 final size:2
Alignment explanation
Indices: 16293827--16293857 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16293817 ATCATTACAA
16293827 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16293858 GTGGTTGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16295134 original size:19 final size:18
Alignment explanation
Indices: 16295097--16295140 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
16295087 TAATATGTTA
*
16295097 ATTTTGTAAAACAAGAAAT
1 ATTTT-TAAAACAAAAAAT
*
16295116 CATTTTTAAAATAAAAAAT
1 -ATTTTTAAAACAAAAAAT
16295135 ATTTTT
1 ATTTTT
16295141 CACAATATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 11 0.50
20 5 0.23
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (18 bp):
ATTTTTAAAACAAAAAAT
Found at i:16336276 original size:13 final size:13
Alignment explanation
Indices: 16336258--16336282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16336248 AGAGAAATTG
16336258 TGATTTTATAAAA
1 TGATTTTATAAAA
16336271 TGATTTTATAAA
1 TGATTTTATAAA
16336283 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:16342395 original size:89 final size:89
Alignment explanation
Indices: 16342302--16342475 Score: 240
Period size: 89 Copynumber: 2.0 Consensus size: 89
16342292 TTACAATGGC
* * **
16342302 TTTTTCACAAGATCAAGCGATAAACCTTACACAATCCACAAATAGATTCTTGCTTTCTAATGGGA
1 TTTTTCACAAGATCAAGCAATAAACCTTACACAATCCACAAAGAGATTCTTGCTTTCTAACAGGA
**
16342367 TCAAGTGATAACCTTTACACCGAT
66 TCAAACGATAACCTTTACACCGAT
** * * *
16342391 TTTTTCACGGGATCAAGCAATAACCCTTACACAATCCACAAAGAGATTTTTGCTTTTTAACAGGA
1 TTTTTCACAAGATCAAGCAATAAACCTTACACAATCCACAAAGAGATTCTTGCTTTCTAACAGGA
*
16342456 TTAAACGATAACCTTTACAC
66 TCAAACGATAACCTTTACAC
16342476 TAGCTTTTCG
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.30
Consensus pattern (89 bp):
TTTTTCACAAGATCAAGCAATAAACCTTACACAATCCACAAAGAGATTCTTGCTTTCTAACAGGA
TCAAACGATAACCTTTACACCGAT
Found at i:16344011 original size:66 final size:67
Alignment explanation
Indices: 16343941--16344090 Score: 187
Period size: 66 Copynumber: 2.3 Consensus size: 67
16343931 GGTTTTTTGC
** * * *
16343941 AGGCTCAGCCACAACC-TTTATCAATGGTTTTTCACGGGATCAACCAAATCCTAAAGTGGTTTTT
1 AGGCTCAGCCACAACCTTTTA-CAATAATTTTTCACGGGATAAACCAAAACCCAAAGTGGTTTTT
16344005 -CA
65 CCA
* ** * *
16344007 AGGCTCAACCACAACCTTTTACCCTAATTTTTCACGGGCTAAACTAAAACCCAAAGTGGTTTTTC
1 AGGCTCAGCCACAACCTTTTACAATAATTTTTCACGGGATAAACCAAAACCCAAAGTGGTTTTTC
16344072 CA
66 CA
16344074 AGGCTCAGCCACAACCT
1 AGGCTCAGCCACAACCT
16344091 ACAACAATCA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
66 49 0.69
67 22 0.31
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (67 bp):
AGGCTCAGCCACAACCTTTTACAATAATTTTTCACGGGATAAACCAAAACCCAAAGTGGTTTTTC
CA
Found at i:16352028 original size:66 final size:67
Alignment explanation
Indices: 16351951--16352098 Score: 174
Period size: 66 Copynumber: 2.2 Consensus size: 67
16351941 CTTTTCACAA
* * * *
16351951 GCTCAGCCACAACC-TTTATCAATGGTTTTTCACGAGATCAACCAAAACCTAAAGTGGTTTTTC-
1 GCTCAACCACAACCTTTTA-CAATAGTTTTTCACGAGATAAACCAAAACCCAAAGTGGTTTTTCG
16352014 AAG
65 AAG
* ** * * * *
16352017 GCTTAACCACAACCTTTTACCCTAGTTTTTCATGGGCTAAACTAAAACCCAAAGTGGTTTTTCGA
1 GCTCAACCACAACCTTTTACAATAGTTTTTCACGAGATAAACCAAAACCCAAAGTGGTTTTTCGA
16352082 AG
66 AG
16352084 GCTCAACCACAACCT
1 GCTCAACCACAACCT
16352099 ACAACAATCA
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
66 47 0.69
67 21 0.31
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (67 bp):
GCTCAACCACAACCTTTTACAATAGTTTTTCACGAGATAAACCAAAACCCAAAGTGGTTTTTCGA
AG
Found at i:16355300 original size:55 final size:55
Alignment explanation
Indices: 16355234--16355391 Score: 271
Period size: 55 Copynumber: 2.9 Consensus size: 55
16355224 TGATGACTGG
* * *
16355234 TGATTCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACTGGTGGGTGA
1 TGATTCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACCGGAGGATGA
**
16355289 TGATTTTAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACCGGAGGATGA
1 TGATTCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACCGGAGGATGA
16355344 TGATTCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACCGG
1 TGATTCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACCGG
16355392 CGGTTGTATA
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 96 1.00
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.27
Consensus pattern (55 bp):
TGATTCCAGCTATGTGCAGTGTGGGAGTGCACATGAGCTGATGACCGGAGGATGA
Found at i:16355327 original size:28 final size:28
Alignment explanation
Indices: 16355241--16355327 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
16355231 TGGTGATTCC
16355241 AGCTATGTGCAGTGTGGGAGTGCACATG
1 AGCTATGTGCAGTGTGGGAGTGCACATG
* * * ** *
16355269 AGCTGATG-ACTG-GTGGGTGATG-ATTTT
1 AGCT-ATGTGCAGTGTGGGAG-TGCACATG
16355296 AGCTATGTGCAGTGTGGGAGTGCACATG
1 AGCTATGTGCAGTGTGGGAGTGCACATG
16355324 AGCT
1 AGCT
16355328 GATGACCGGA
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
26 3 0.07
27 16 0.38
28 20 0.48
29 3 0.07
ACGTcount: A:0.21, C:0.13, G:0.38, T:0.29
Consensus pattern (28 bp):
AGCTATGTGCAGTGTGGGAGTGCACATG
Found at i:16357436 original size:43 final size:43
Alignment explanation
Indices: 16357311--16357437 Score: 184
Period size: 43 Copynumber: 3.0 Consensus size: 43
16357301 AATATCATCA
* * * * *
16357311 TCATGCGCGCTCCCTAC-TCGCACATAGTCGGGTCATCATCAGC
1 TCATGTGCACTCCC-ACATCGCACATAGTTGGGTCATCATTAAC
*
16357354 TCATGTGCACTCCCACATCGCACATAGCTGGGTCATCATTAAC
1 TCATGTGCACTCCCACATCGCACATAGTTGGGTCATCATTAAC
16357397 TCATGTGCACTCCCACATCGCACATAGTTGGGTCATCATTA
1 TCATGTGCACTCCCACATCGCACATAGTTGGGTCATCATTA
16357438 TCACACAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
42 2 0.03
43 74 0.97
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (43 bp):
TCATGTGCACTCCCACATCGCACATAGTTGGGTCATCATTAAC
Found at i:16366884 original size:14 final size:15
Alignment explanation
Indices: 16366865--16366903 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
16366855 AGCTTTTTCA
16366865 TTTTCTTTTCC-TTG
1 TTTTCTTTTCCTTTG
*
16366879 TTTTCTTTTCCTTTT
1 TTTTCTTTTCCTTTG
16366894 TTTTCTTTTC
1 TTTTCTTTTC
16366904 TTACTTCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTCCTTTG
Found at i:16370351 original size:13 final size:13
Alignment explanation
Indices: 16370333--16370357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16370323 TTTCAGAAAA
16370333 TTTATAAAATCAT
1 TTTATAAAATCAT
16370346 TTTATAAAATCA
1 TTTATAAAATCA
16370358 CAATTTCCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:16384190 original size:256 final size:256
Alignment explanation
Indices: 16383717--16384204 Score: 746
Period size: 256 Copynumber: 1.9 Consensus size: 256
16383707 GTGAGAGTTT
* * *
16383717 AGGTGTGATGGTAAAGACATTCGTTTACTTGTTAGAGGTCTTGGGTTTAAATATCAGAAAGTGTT
1 AGGTGTGATGGTAAAGACATTAGTTTACTTGTTAGACGTCTTGGGTTCAAATATCAGAAAGTGTT
* *** * * *
16383782 TATTTTGAAGAATAAAGTGCCACATGTTGGTATATAAAGAGTGCCACGTGGTTGCCTCTTGATGT
66 TATTTTGAAGAATAAAGTGCCACACGTTAACACATAAAGAGTGCCACATGGTTGCCTCTTGACGT
* * *
16383847 GCCACGTCAACAATCCATATCCATGGGGTGACATGGTAGTGCCACTTCATCATGTTGGTGACGTG
131 GCCACGTCAACAATCCATATCCATGGGGTGACATGGTAGTGCAACATCATCATGTTGGTGACATG
*
16383912 GCATCACCACGTCATTGGCCCAACCTTGAAGTGTGACGTGGCAATGCCACGTTACGCTTGA
196 GCATCACCACGTCATCGGCCCAACCTTGAAGTGTGACGTGGCAATGCCACGTTACGCTTGA
* *
16383973 AGGTGTGATGGTAAAGACATTAGTTTACTTGTTAGACGTCTTGGGTTCAAATCTCAGCAAGTGTT
1 AGGTGTGATGGTAAAGACATTAGTTTACTTGTTAGACGTCTTGGGTTCAAATATCAGAAAGTGTT
* * *
16384038 TCTTTTGAAGAATAAAGTGCCACGCGTTAACACCTAAAGAGTGCCACATGGTAT-CCTCTTGACG
66 TATTTTGAAGAATAAAGTGCCACACGTTAACACATAAAGAGTGCCACATGGT-TGCCTCTTGACG
* *
16384102 TGCCACGTCAACAATCCATATCCATGGGGTGACATGGTAGTGCAACATCATCTTGTTGGTGATAT
130 TGCCACGTCAACAATCCATATCCATGGGGTGACATGGTAGTGCAACATCATCATGTTGGTGACAT
*
16384167 GGCATTC-CCACTTCATCGGCCCAACCTTGAAGTGTGAC
195 GGCA-TCACCACGTCATCGGCCCAACCTTGAAGTGTGAC
16384205 ATAGCAGTCC
Statistics
Matches: 208, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
256 205 0.99
257 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (256 bp):
AGGTGTGATGGTAAAGACATTAGTTTACTTGTTAGACGTCTTGGGTTCAAATATCAGAAAGTGTT
TATTTTGAAGAATAAAGTGCCACACGTTAACACATAAAGAGTGCCACATGGTTGCCTCTTGACGT
GCCACGTCAACAATCCATATCCATGGGGTGACATGGTAGTGCAACATCATCATGTTGGTGACATG
GCATCACCACGTCATCGGCCCAACCTTGAAGTGTGACGTGGCAATGCCACGTTACGCTTGA
Found at i:16385093 original size:16 final size:17
Alignment explanation
Indices: 16385068--16385101 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16385058 TTTATTGTGA
*
16385068 TTTAGTTTTATTTAATT
1 TTTAGTTTTAATTAATT
16385085 TTTAG-TTTAATTAATT
1 TTTAGTTTTAATTAATT
16385101 T
1 T
16385102 ATTTTGACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (17 bp):
TTTAGTTTTAATTAATT
Found at i:16392587 original size:19 final size:22
Alignment explanation
Indices: 16392546--16392589 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 22
16392536 AAACCAATTA
*
16392546 AAACTAAATTCAATCAAACACT
1 AAACTAAATTCAATCAAAAACT
16392568 AAACT-AATT-AA-CAAAAACT
1 AAACTAAATTCAATCAAAAACT
16392587 AAA
1 AAA
16392590 TATTCACTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 2 0.10
21 4 0.19
22 5 0.24
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.20
Consensus pattern (22 bp):
AAACTAAATTCAATCAAAAACT
Found at i:16429885 original size:31 final size:31
Alignment explanation
Indices: 16429833--16429903 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
16429823 TTGGGAGAAA
*
16429833 GACTAAATT-AAAAGGAAAAAAAAATTAAAG
1 GACTAAATTGAAAAAGAAAAAAAAATTAAAG
** *
16429863 GACTAAATTGAAAAAGAAAAAAATGTTAAGG
1 GACTAAATTGAAAAAGAAAAAAAAATTAAAG
16429894 GACTAAATTG
1 GACTAAATTG
16429904 TAAATATGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 9 0.25
31 27 0.75
ACGTcount: A:0.59, C:0.04, G:0.17, T:0.20
Consensus pattern (31 bp):
GACTAAATTGAAAAAGAAAAAAAAATTAAAG
Found at i:16429964 original size:31 final size:31
Alignment explanation
Indices: 16429898--16429982 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 31
16429888 TTAAGGGACT
* *
16429898 AAATTGTAAATATGGAAAATTTTGGAAGACC
1 AAATTGTAAATATTGAAAAATTTGGAAGACC
* *
16429929 -AATTGTAAACATTAAAAAATTTGGAAGACC
1 AAATTGTAAATATTGAAAAATTTGGAAGACC
* *
16429959 AAATTGAAAATATTGAAAAGTTTG
1 AAATTGTAAATATTGAAAAATTTG
16429983 AAAAGCCAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
30 26 0.58
31 19 0.42
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.29
Consensus pattern (31 bp):
AAATTGTAAATATTGAAAAATTTGGAAGACC
Found at i:16430848 original size:15 final size:15
Alignment explanation
Indices: 16430828--16430858 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16430818 TAGAGATGAT
16430828 CTACAAAATGCTAGG
1 CTACAAAATGCTAGG
16430843 CTACAAAATGCTAGG
1 CTACAAAATGCTAGG
16430858 C
1 C
16430859 AAAATGTAGT
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:0.23, G:0.19, T:0.19
Consensus pattern (15 bp):
CTACAAAATGCTAGG
Found at i:16440216 original size:25 final size:26
Alignment explanation
Indices: 16440188--16440241 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 26
16440178 GATGAGTTAT
* *
16440188 TTTAAT-TTAAGTTGTTTTATTTTAG
1 TTTAATGTTAAATTGCTTTATTTTAG
16440213 TTT-ATGTTAAATTGCTTTATTTTAG
1 TTTAATGTTAAATTGCTTTATTTTAG
16440238 TTTA
1 TTTA
16440242 GTATTGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.63
Consensus pattern (26 bp):
TTTAATGTTAAATTGCTTTATTTTAG
Found at i:16443476 original size:42 final size:42
Alignment explanation
Indices: 16443429--16443546 Score: 191
Period size: 42 Copynumber: 2.8 Consensus size: 42
16443419 TATGCAATGG
* *
16443429 CTTATGCGCACTCCCACTCGCACATAGCCGGGTCAGGAACGA
1 CTTATGTGCACTCCCACTCGCACATAGCCGGGTCAGCAACGA
* *
16443471 CTTATGTGCACTCCCACTCGCACATAGCCTGGTCAGCAACGT
1 CTTATGTGCACTCCCACTCGCACATAGCCGGGTCAGCAACGA
*
16443513 CTTATGTGCACTCCTACTCGCACATAGCCGGGTC
1 CTTATGTGCACTCCCACTCGCACATAGCCGGGTC
16443547 CACATCAACA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.22
Consensus pattern (42 bp):
CTTATGTGCACTCCCACTCGCACATAGCCGGGTCAGCAACGA
Found at i:16445606 original size:31 final size:31
Alignment explanation
Indices: 16445568--16445629 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
16445558 TGGGTTAACT
16445568 TGCCAATGCCATCAATAACAAGCCTCAAGGA
1 TGCCAATGCCATCAATAACAAGCCTCAAGGA
* *
16445599 TGCCAATGCCATTAATAACAGGCCTCAAGGA
1 TGCCAATGCCATCAATAACAAGCCTCAAGGA
16445630 ACTTTACCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (31 bp):
TGCCAATGCCATCAATAACAAGCCTCAAGGA
Found at i:16446608 original size:16 final size:16
Alignment explanation
Indices: 16446587--16446629 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
16446577 TTAAGAGTAG
16446587 TTATTGCTTTTTTCTC
1 TTATTGCTTTTTTCTC
16446603 TTATTGCTTTTTTCTC
1 TTATTGCTTTTTTCTC
16446619 TTATTGCTTTT
1 TTATTGCTTTT
16446630 GTAGAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.07, C:0.16, G:0.07, T:0.70
Consensus pattern (16 bp):
TTATTGCTTTTTTCTC
Found at i:16460822 original size:2 final size:2
Alignment explanation
Indices: 16460815--16460840 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16460805 ACTATAATGC
16460815 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16460841 GTAAATCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16471271 original size:23 final size:23
Alignment explanation
Indices: 16471245--16471355 Score: 62
Period size: 23 Copynumber: 5.3 Consensus size: 23
16471235 TTCTACATGA
16471245 CGTGTAATAGATTTTGTAAATGG
1 CGTGTAATAGATTTTGTAAATGG
* *
16471268 CGTGT-A-CG---TTCTAAATGG
1 CGTGTAATAGATTTTGTAAATGG
* * *
16471286 CATGTAATAAATATTGTAAATGG
1 CGTGTAATAGATTTTGTAAATGG
* *
16471309 CGTG---TAG--CTTCTAAATGG
1 CGTGTAATAGATTTTGTAAATGG
* * *
16471327 CATGTAATAAATTTTGCAAATGG
1 CGTGTAATAGATTTTGTAAATGG
16471350 CGTGTA
1 CGTGTA
16471356 GTAAGTTGTT
Statistics
Matches: 62, Mismatches: 16, Indels: 20
0.63 0.16 0.20
Matches are distributed among these distances:
18 25 0.40
19 1 0.02
20 2 0.03
21 3 0.05
22 1 0.02
23 30 0.48
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (23 bp):
CGTGTAATAGATTTTGTAAATGG
Found at i:16471280 original size:41 final size:41
Alignment explanation
Indices: 16471247--16471356 Score: 177
Period size: 41 Copynumber: 2.7 Consensus size: 41
16471237 CTACATGACG
*
16471247 TGTAATAGATTTTGTAAATGGCGTGTA-CGTTCTAAATGGCA
1 TGTAATAAATTTTGTAAATGGCGTGTAGC-TTCTAAATGGCA
*
16471288 TGTAATAAATATTGTAAATGGCGTGTAGCTTCTAAATGGCA
1 TGTAATAAATTTTGTAAATGGCGTGTAGCTTCTAAATGGCA
*
16471329 TGTAATAAATTTTGCAAATGGCGTGTAG
1 TGTAATAAATTTTGTAAATGGCGTGTAG
16471357 TAAGTTGTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 63 0.98
42 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (41 bp):
TGTAATAAATTTTGTAAATGGCGTGTAGCTTCTAAATGGCA
Found at i:16471399 original size:29 final size:30
Alignment explanation
Indices: 16471362--16471431 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
16471352 TGTAGTAAGT
* *
16471362 TGTTGTTACACGA-AATGTTGAAAAAATGA
1 TGTTATTACACGATAAGGTTGAAAAAATGA
*
16471391 TGTTATTACAC-ATTAGGTTGAAAAAATGA
1 TGTTATTACACGATAAGGTTGAAAAAATGA
*
16471420 TGTTTTTACACG
1 TGTTATTACACG
16471432 CTATGTTCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.03
29 34 0.97
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.36
Consensus pattern (30 bp):
TGTTATTACACGATAAGGTTGAAAAAATGA
Found at i:16471444 original size:29 final size:29
Alignment explanation
Indices: 16471382--16471447 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
16471372 CGAAATGTTG
* *
16471382 AAAAAATGATGTTATTACACATTAGGTTG
1 AAAAAATGATGTTATTACACACTAGGTTC
* * *
16471411 AAAAAATGATGTTTTTACACGCTATGTTC
1 AAAAAATGATGTTATTACACACTAGGTTC
16471440 TAAAAAAT
1 -AAAAAAT
16471448 TATCTAATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.35
Consensus pattern (29 bp):
AAAAAATGATGTTATTACACACTAGGTTC
Found at i:16475151 original size:21 final size:21
Alignment explanation
Indices: 16475121--16475178 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
16475111 ACTTTTTCCC
*
16475121 AAAAACTCAAAACAAAGCATG
1 AAAAAATCAAAACAAAGCATG
16475142 AAAAAATCAAAACAAAGCATG
1 AAAAAATCAAAACAAAGCATG
*
16475163 AAAAAATCAAAGCAAA
1 AAAAAATCAAAACAAA
16475179 CAACTAGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.67, C:0.16, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAAAATCAAAACAAAGCATG
Found at i:16475748 original size:131 final size:130
Alignment explanation
Indices: 16475603--16475864 Score: 499
Period size: 131 Copynumber: 2.0 Consensus size: 130
16475593 TAATATATAA
16475603 TGTAAAATTTTTATATCTTATATGATTATCTAGTCTTTATTTATATATGTTAGATAAGTTATAAT
1 TGTAAAATTTTTATATCTTATATGATTATCTAGTCTTTATTTATATATGTTAGATAAGTTATAAT
16475668 GGGAAGGAAATAGATATAAGATATCAAATACAAATTAAAATAGTTG-AAAGATAATTAAAGTTAT
66 GGGAAGGAAATAGATATAAGATATCAAAT-CAAATTAAAATAGTTGAAAAGATAATTAAAGTTAT
16475732 T
130 T
16475733 TNGTAAAATTTTTATATCTTATATGATTATCTAGTCTTTATTTATATATGTTAGATAAGTTATAA
1 T-GTAAAATTTTTATATCTTATATGATTATCTAGTCTTTATTTATATATGTTAGATAAGTTATAA
16475798 TGGGAAGGAAATAGATATAAGATATCAAATCAAATTAAAATAGTTGAAAAGATAATTAAAGTTAT
65 TGGGAAGGAAATAGATATAAGATATCAAATCAAATTAAAATAGTTGAAAAGATAATTAAAGTTAT
16475863 T
130 T
16475864 T
1 T
16475865 CAAGAAAAAT
Statistics
Matches: 130, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
130 17 0.13
131 113 0.87
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.40
Consensus pattern (130 bp):
TGTAAAATTTTTATATCTTATATGATTATCTAGTCTTTATTTATATATGTTAGATAAGTTATAAT
GGGAAGGAAATAGATATAAGATATCAAATCAAATTAAAATAGTTGAAAAGATAATTAAAGTTATT
Done.