Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 168 of 356
Found at i:54394029 original size:48 final size:46
Alignment explanation
Indices: 54393918--54394033 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 46
54393908 TGTGTGCTAG
*
54393918 TGTAAGACATGTCTGGGACATGCATAAGCCACAGTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATAAGCCACAGTATGAGAGCCAA
* * * * *
54393964 TGTAAGACATGTTTGGGACATGCATTAGCCATGAGATATTTA-AGGCAA
1 TGTAAGACATGTCTGGGACATGCATAAGCCA-CAG-TA-TGAGAGCCAA
54394012 TGTAAGACATGTCTGGGACATG
1 TGTAAGACATGTCTGGGACATG
54394034 TATCTGCATT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
46 29 0.48
47 2 0.03
48 27 0.45
49 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATAAGCCACAGTATGAGAGCCAA
Found at i:54394071 original size:46 final size:45
Alignment explanation
Indices: 54393913--54394124 Score: 139
Period size: 46 Copynumber: 4.6 Consensus size: 45
54393903 TGACATGTGT
* * **
54393913 GCTAGTGTAAGACATGTCTGGGACATGCATAAGCCA-C-AGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCAT-CGACATCGAG-AACA-A
* * * * *
54393959 GCCAGTGTAAGACATGTTTGGGACATGCATTAGCCAT-GAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCA-TCGACATCGAGA-A--CAA
* * *
54394007 GGC-AATGTAAGACATGTCTGGGACATGTATCTG-CATTGAG-ACGAGA
1 -GCTAGTGTAAGACATGTCTGGGACATGCATC-GACATCGAGAAC-A-A
* *
54394053 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGA-ACAA
*
54394099 GCTAGTGTAAGACCTGTCTGGGACAT
1 GCTAGTGTAAGACATGTCTGGGACAT
54394125 AGAGTTAGCT
Statistics
Matches: 135, Mismatches: 16, Indels: 30
0.75 0.09 0.17
Matches are distributed among these distances:
45 4 0.03
46 90 0.67
47 8 0.06
48 30 0.22
49 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAACAA
Found at i:54394094 original size:94 final size:92
Alignment explanation
Indices: 54393955--54394124 Score: 211
Period size: 94 Copynumber: 1.8 Consensus size: 92
54393945 GCCACAGTAT
* * * *
54393955 GAGAGCCAGTGTAAGACATGTTTGGGACATGCATTAGCCATGAGATATTTAAGGC-AATGTAAGA
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATGAGCCATGAGATA--CAA-GCTAATGTAAGA
54394019 CATGTCTGGGACATGTATCTGCATTGAGAC
63 CATGTCTGGGACATGTATCTGCATTGAGAC
* *
54394049 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGA-CC-TCGAGATACAAGCTAGTGTAAGAC
1 GAGAGCCAGTGTAAGACATGTCTAGGACATGCAT-GAGCCAT-GAGATACAAGCTAATGTAAGAC
*
54394112 CTGTCTGGGACAT
64 ATGTCTGGGACAT
54394125 AGAGTTAGCT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
91 2 0.03
92 23 0.35
93 1 0.02
94 39 0.59
95 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (92 bp):
GAGAGCCAGTGTAAGACATGTCTAGGACATGCATGAGCCATGAGATACAAGCTAATGTAAGACAT
GTCTGGGACATGTATCTGCATTGAGAC
Found at i:54395432 original size:20 final size:21
Alignment explanation
Indices: 54395394--54395432 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
54395384 TTATAATGAT
*
54395394 CACACGGGCGTGTTGCCCTTC
1 CACACGAGCGTGTTGCCCTTC
54395415 CACACGAGCGTG-TGCCCT
1 CACACGAGCGTGTTGCCCT
54395433 ATTTCAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACGAGCGTGTTGCCCTTC
Found at i:54401868 original size:46 final size:46
Alignment explanation
Indices: 54401673--54401884 Score: 189
Period size: 46 Copynumber: 4.6 Consensus size: 46
54401663 TGATATGTGT
* *
54401673 GCTAGTGTAAGACATGTATGGGACATGCATCAGCCAC-AG-TATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAT-A-A
* * * *
54401719 GCCAGTGTAAGACAAGTTTGGGACATGTATCAGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATA--TAA
* * * * * * *
54401767 GCCAGTGTAAGACATGTCTGAGACAT-CATCGGCATTGAGACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGA-TATAA
* **
54401812 GCTAGTGTAAGAAATGTCTGGGACATGCATTGGCCTCGAGATATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAA
* *
54401858 GCTAGTGTAAGACCTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
54401885 GCGTCAACTT
Statistics
Matches: 134, Mismatches: 25, Indels: 14
0.77 0.14 0.08
Matches are distributed among these distances:
45 25 0.19
46 68 0.51
47 12 0.09
48 27 0.20
49 1 0.01
50 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATAA
Found at i:54404317 original size:50 final size:50
Alignment explanation
Indices: 54404207--54404386 Score: 263
Period size: 50 Copynumber: 3.6 Consensus size: 50
54404197 CTGGTATGCA
* * * ** * *
54404207 TAGTAGCCTGCACATAGTACTACACAAGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
54404256 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* *
54404306 TAGTAGCCTGCACTTAGTACTACACACATGATCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
54404356 TAGTAGCCTGCACTTAGTACTACACATGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
54404387 TCACAGTTTT
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 30 0.25
50 89 0.75
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:54404388 original size:50 final size:50
Alignment explanation
Indices: 54404207--54404432 Score: 258
Period size: 50 Copynumber: 4.5 Consensus size: 50
54404197 CTGGTATGCA
* * * * ** * *
54404207 TAGTAGCCTGCACATAGTACTACACAAGCGA-CCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCTAACCATCTGATACACG
*
54404256 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCTAACCATCTGATACACG
*
54404306 TAGTAGCCTGCACTTAGTACTACACACATGATCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCTAACCATCTGATACACG
* *** * * * *
54404356 TAGTAGCCTGCACTTAGTACTACACATGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCTA-A-CCATCTGATACACG
54404407 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
54404433 TGCGACCTCA
Statistics
Matches: 155, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 29 0.19
50 93 0.60
51 33 0.21
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCTAACCATCTGATACACG
Found at i:54406569 original size:15 final size:15
Alignment explanation
Indices: 54406517--54406570 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
54406507 TAAAGATAAC
*
54406517 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
54406531 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
54406546 GAA-AAACCCAGAATA
1 -AAGAAACCCAGAATA
54406561 AAGAAACCCA
1 AAGAAACCCA
54406571 AGATACGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 11 0.33
15 19 0.58
16 3 0.09
ACGTcount: A:0.61, C:0.19, G:0.13, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:54409689 original size:51 final size:51
Alignment explanation
Indices: 54409571--54409805 Score: 282
Period size: 51 Copynumber: 4.7 Consensus size: 51
54409561 AAAGCTATCT
* * * *
54409571 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGA-C-CAATTATTC-
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT-TTCG
* *
54409620 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * *** *
54409671 GGTACGCATAGTAGCCTGCACATAGTACTACACACATGATCTA-A-CCATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCG
* * *
54409721 GATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
54409772 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
54409806 TGCGACCTCA
Statistics
Matches: 154, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
49 35 0.23
50 43 0.28
51 75 0.49
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (51 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:54409756 original size:101 final size:100
Alignment explanation
Indices: 54409571--54409805 Score: 373
Period size: 101 Copynumber: 2.3 Consensus size: 100
54409561 AAAGCTATCT
** ** *
54409571 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATTCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACATAGTACTACACACACGACCAACCATTCGATACACGTAGTAGCC
54409636 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
54409671 GGTACGCATAGTAGCCTGCACATAGTACTACACACATGATCTAACCA-TCTGATACACGTAGTAG
1 GGTACGCATAGTAGCCTGCACATAGTACTACACACACGA-CCAACCATTC-GATACACGTAGTAG
54409735 CCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
64 CCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
*
54409772 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 GGTACGCATAGTAGCCTGCACATAGTACTACACA
54409806 TGCGACCTCA
Statistics
Matches: 125, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
100 38 0.30
101 87 0.70
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACATAGTACTACACACACGACCAACCATTCGATACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:54413527 original size:46 final size:46
Alignment explanation
Indices: 54413379--54413592 Score: 141
Period size: 46 Copynumber: 4.6 Consensus size: 46
54413369 TTTATGTGCT
* ** * *
54413379 AGTGTAAGACAGGTCCAGGACATGCATCGGCC-ACATTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACA-GATGTAAGCC
* * * * * ** * *
54413425 AGTGTAAAACCATGTCCGCGACATGGCATTGGCATTGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACAGATGTA-AGCC
* **
54413473 AGGGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACAGATGTAAGCC
* * * *
54413519 AGTGTAAGACACGTTTGGGACATGCATCGG-CTACAAATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACAGATGTAAGCC
*
54413562 AGTATAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
54413593 ACATGGATAT
Statistics
Matches: 132, Mismatches: 29, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
43 10 0.08
44 12 0.09
45 13 0.10
46 52 0.39
47 25 0.19
48 19 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTACAGATGTAAGCC
Found at i:54416453 original size:28 final size:28
Alignment explanation
Indices: 54416394--54416454 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
54416384 TTGAAATTTG
** * *
54416394 AAATTTAATTTTATATTTTTATCTTTTG
1 AAATTTAATTTTATATTTTTAAATTCTA
54416422 AAATTTAATTTT-TAATTTTTAAATTCTA
1 AAATTTAATTTTAT-ATTTTTAAATTCTA
54416450 AAATT
1 AAATT
54416455 CAGGTTCAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (28 bp):
AAATTTAATTTTATATTTTTAAATTCTA
Found at i:54416597 original size:12 final size:12
Alignment explanation
Indices: 54416580--54416604 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54416570 GGTGTTCATT
54416580 CGGTTAACCGAC
1 CGGTTAACCGAC
54416592 CGGTTAACCGAC
1 CGGTTAACCGAC
54416604 C
1 C
54416605 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:54416779 original size:9 final size:9
Alignment explanation
Indices: 54416765--54416816 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
54416755 TTTGGTTAAA
54416765 AATTACCCG
1 AATTACCCG
54416774 AATTACCCG
1 AATTACCCG
54416783 AATTACCCG
1 AATTACCCG
*
54416792 AATTAACCG
1 AATTACCCG
*
54416801 AATTAACCG
1 AATTACCCG
54416810 AATTACC
1 AATTACC
54416817 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:54418485 original size:16 final size:16
Alignment explanation
Indices: 54418461--54418513 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
54418451 AAAATTGAAA
*
54418461 TATAAATTATTATATT
1 TATATATTATTATATT
*
54418477 TATATATTATTATATA
1 TATATATTATTATATT
*
54418493 TAAATACTTATT-TATT
1 TATATA-TTATTATATT
54418509 TATAT
1 TATAT
54418514 TCATCTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 26 0.84
17 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATATTATTATATT
Found at i:54419205 original size:28 final size:28
Alignment explanation
Indices: 54419147--54419211 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
54419137 AATCTTGAAT
* *
54419147 TTTTTTATTAAAAATATCTATTTATATA
1 TTTTTTATTAAAAAAATCTATTTATAGA
* *
54419175 TTTTATATTATAAAAAATCTATTT-TGGA
1 TTTTTTATTA-AAAAAATCTATTTATAGA
54419203 TTTTTTATT
1 TTTTTTATT
54419212 TTTATATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 19 0.61
29 12 0.39
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTTTTATTAAAAAAATCTATTTATAGA
Found at i:54419207 original size:29 final size:26
Alignment explanation
Indices: 54419147--54419211 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 26
54419137 AATCTTGAAT
*
54419147 TTTTTTATTAAAAATATCTATTTATA
1 TTTTTTATTAAAAAAATCTATTTATA
54419173 TATTTTATATTATAAAAAATCTATTT-TGGA
1 T-TTTT-TATTA-AAAAAATCTATTTAT--A
54419203 TTTTTTATT
1 TTTTTTATT
54419212 TTTATATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 1 0.03
27 4 0.12
28 10 0.30
29 16 0.48
30 2 0.06
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (26 bp):
TTTTTTATTAAAAAAATCTATTTATA
Found at i:54421055 original size:21 final size:21
Alignment explanation
Indices: 54421029--54421073 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
54421019 TAAACAAGTT
* *
54421029 TAACACACCATTCCATATGCA
1 TAACACACCAGTCCATATGAA
*
54421050 TAACACACTAGTCCATATGAA
1 TAACACACCAGTCCATATGAA
54421071 TAA
1 TAA
54421074 ATCTACAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.24
Consensus pattern (21 bp):
TAACACACCAGTCCATATGAA
Found at i:54421663 original size:19 final size:21
Alignment explanation
Indices: 54421639--54421724 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
54421629 CATTGTTAAT
54421639 AGAAGCTCG-AA-AGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
54421658 AGAAGCTCGTAAGAGCTGAAT
1 AGAAGCTCGTAAGAGCTGAAC
* * * *
54421679 AGAAACTCGTATGAGTTAAAC
1 AGAAGCTCGTAAGAGCTGAAC
* *
54421700 AGAAGCTCATAA-AGTCTAAAC
1 AGAAGCTCGTAAGAG-CTGAAC
54421721 AGAA
1 AGAA
54421725 AGTAAAACAC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
19 9 0.17
20 4 0.07
21 41 0.76
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:54424629 original size:31 final size:31
Alignment explanation
Indices: 54424591--54424730 Score: 237
Period size: 31 Copynumber: 4.5 Consensus size: 31
54424581 TTTAACGATT
54424591 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
54424622 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
54424653 ACTGGGCCGAAGCCTTTTCATAAATCATATT
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
54424684 ACTGGGCCAAAGCC-TTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
54424714 ACTAGGTCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
54424731 ACTGTAAACG
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 26 0.25
31 76 0.75
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:54424801 original size:42 final size:42
Alignment explanation
Indices: 54424754--54424845 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
54424744 TGGCACTTAG
*
54424754 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATTCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
54424796 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
54424838 GCCCATTT
1 GCCCATTT
54424846 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:54425010 original size:25 final size:24
Alignment explanation
Indices: 54424965--54425062 Score: 92
Period size: 25 Copynumber: 4.0 Consensus size: 24
54424955 TGCTTTATCA
**
54424965 TATAACTGGAGGCCTAG-CCTTTTT
1 TATAACTGG-GGCAAAGCCCTTTTT
54424989 TAATAACTGGGGCAAAGCCCTTTTT
1 T-ATAACTGGGGCAAAGCCCTTTTT
* *
54425014 GATAAACTGGGGCAAAGCCCTTTTCGG
1 TAT-AACTGGGGCAAAGCCCTTTT--T
*
54425041 TA-AACTGGGGCAGAGCCCTTTT
1 TATAACTGGGGCAAAGCCCTTTT
54425063 AACACTTCCT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
24 8 0.13
25 54 0.86
27 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (24 bp):
TATAACTGGGGCAAAGCCCTTTTT
Found at i:54425012 original size:24 final size:25
Alignment explanation
Indices: 54424980--54425062 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 25
54424970 CTGGAGGCCT
* *
54424980 AGCCTTTTTTAAT-AACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
54425004 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
* * *
54425029 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTTTGATAAACTGGGGCAA
54425054 AGCCCTTTT
1 AGCCCTTTT
54425063 AACACTTCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 11 0.21
25 42 0.79
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTTGATAAACTGGGGCAA
Found at i:54425364 original size:53 final size:53
Alignment explanation
Indices: 54425266--54425414 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
54425256 GGGGAAAATG
*
54425266 GTAATTTTACCC-ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTACTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTA-CCTACAGGGGTACTTCA
* * *
54425319 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACTTATAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCTACAGGGGTACTTCA
* **
54425372 GTAATTCTACCCTACAAGGGCGTTTCGGT-ATTCTACCTA-AGGG
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCTACAGGG
54425415 TTTTTTTTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.05
52 9 0.10
53 52 0.60
54 22 0.25
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (53 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCTACAGGGGTACTTCA
Found at i:54425404 original size:26 final size:27
Alignment explanation
Indices: 54425265--54425408 Score: 159
Period size: 27 Copynumber: 5.4 Consensus size: 27
54425255 AGGGGAAAAT
* *
54425265 GGTAATTTTACCC-ACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
54425291 GGTAATTCTACCCTACAGGGGTACTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
54425318 AGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
54425345 GGTAATTCTA-CTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
54425371 AGTAATTCTACCCTACAAGGGCGTTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
54425398 GGT-ATTCTACC
1 GGTAATTCTACC
54425409 TAAGGGTTTT
Statistics
Matches: 96, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 42 0.44
27 54 0.56
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:54425421 original size:1 final size:1
Alignment explanation
Indices: 54425415--54425444 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
54425405 TACCTAAGGG
*
54425415 TTTTTTTTTTTTTTTTTTTATTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
54425445 AATCATATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:54425560 original size:27 final size:27
Alignment explanation
Indices: 54425528--54425750 Score: 200
Period size: 27 Copynumber: 8.3 Consensus size: 27
54425518 TTGGTATTGT
* *
54425528 GTATTTTGGTAATTTTATAAGTT-GAGG
1 GTATTTTGGTAATTTTACAAATTAG-GG
** * *
54425555 GTATTTCAGAAATTTCACAAATTAGGG
1 GTATTTTGGTAATTTTACAAATTAGGG
* * *
54425582 GTATTTTCGTAATTTTAC-AAGTCGAGG
1 GTATTTTGGTAATTTTACAAATTAG-GG
** *
54425609 GTATTTCAGTAATTTTACAAATCAGGG
1 GTATTTTGGTAATTTTACAAATTAGGG
* *
54425636 GTATTTTGGTAATTTCACAAACTAGGG
1 GTATTTTGGTAATTTTACAAATTAGGG
** * *
54425663 GTATTTTGGTAATTTTACAAACCAAGA
1 GTATTTTGGTAATTTTACAAATTAGGG
**
54425690 GTATTTTGGTAA-TTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAATTAGGG
*
54425716 GTATTTTAGTAATTTTACAAATTGAGGG
1 GTATTTTGGTAATTTTACAAATT-AGGG
*
54425744 GCATTTT
1 GTATTTT
54425751 ATGTCTAAAG
Statistics
Matches: 159, Mismatches: 32, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
26 27 0.17
27 118 0.74
28 14 0.09
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAATTAGGG
Found at i:54425694 original size:81 final size:80
Alignment explanation
Indices: 54425553--54425750 Score: 252
Period size: 81 Copynumber: 2.5 Consensus size: 80
54425543 TATAAGTTGA
* * ** * *
54425553 GGGTATTTCAGAAATTTCACAAATTAGGGGTATTTTCGTAATTTTACAAGTCGAGGGTATTTCAG
1 GGGTATTTTAGTAATTTCACAAATTAGGGGTATTTTCGTAATTTTACAAACCAAGAGTATTTCAG
*
54425618 TAATTTTACAAATCAG
66 TAA-TTTACAAACCAG
* * * **
54425634 GGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGG
1 GGGTATTTTAGTAATTTCACAAATTAGGGGTATTTTCGTAATTTTACAAACCAAGAGTATTTCAG
54425699 TAATTTACAAACCAG
66 TAATTTACAAACCAG
* *
54425714 GGGTATTTTAGTAATTTTACAAATTGAGGGGCATTTT
1 GGGTATTTTAGTAATTTCACAAATT-AGGGGTATTTT
54425751 ATGTCTAAAG
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
80 33 0.33
81 67 0.67
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (80 bp):
GGGTATTTTAGTAATTTCACAAATTAGGGGTATTTTCGTAATTTTACAAACCAAGAGTATTTCAG
TAATTTACAAACCAG
Found at i:54438249 original size:41 final size:41
Alignment explanation
Indices: 54438153--54438258 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 41
54438143 CGGAGTAGGG
** *
54438153 TAAGACATGTCTGGACATGCATCGGCTTGAATGTAGCCAGTG
1 TAAG-CATGTCTGGACATGCATCGGCTCAAATGTAGCCAGTA
* * *
54438195 T-AG-ACCGTTTGGACATGCATCGGCTACAAATGT-GTCAGTA
1 TAAGCA-TGTCTGGACATGCATCGGCT-CAAATGTAGCCAGTA
54438235 TAAGCATGTCTGGACATGGCATCG
1 TAAGCATGTCTGGACAT-GCATCG
54438259 ACATGGATAT
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
39 1 0.02
40 24 0.47
41 18 0.35
42 8 0.16
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (41 bp):
TAAGCATGTCTGGACATGCATCGGCTCAAATGTAGCCAGTA
Found at i:54441030 original size:19 final size:20
Alignment explanation
Indices: 54440993--54441031 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
54440983 ATTTGAAATT
* *
54440993 AATTTTATTTTTATCTTTTA
1 AATTTAATTTTAATCTTTTA
54441013 AATTTAATTTTAAT-TTTTA
1 AATTTAATTTTAATCTTTTA
54441032 TTCTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (20 bp):
AATTTAATTTTAATCTTTTA
Found at i:54441040 original size:25 final size:25
Alignment explanation
Indices: 54440991--54441041 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
54440981 AAATTTGAAA
* *
54440991 TTAATTTTATTTTTATCTTTTAAAT
1 TTAATTTTATTTTTATCTCTAAAAT
54441016 TTAATTTTAATTTTTAT-TCTAAAAT
1 TTAATTTT-ATTTTTATCTCTAAAAT
54441041 T
1 T
54441042 CAGGTTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (25 bp):
TTAATTTTATTTTTATCTCTAAAAT
Found at i:54441167 original size:12 final size:12
Alignment explanation
Indices: 54441150--54441174 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54441140 GGTGTTCATT
54441150 CGGTTAACCGAC
1 CGGTTAACCGAC
54441162 CGGTTAACCGAC
1 CGGTTAACCGAC
54441174 C
1 C
54441175 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:54441348 original size:9 final size:9
Alignment explanation
Indices: 54441334--54441385 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
54441324 TTTGGTTAAA
54441334 AATTACCCG
1 AATTACCCG
54441343 AATTACCCG
1 AATTACCCG
54441352 AATTACCCG
1 AATTACCCG
*
54441361 AATTAACCG
1 AATTACCCG
*
54441370 AATTAACCG
1 AATTACCCG
54441379 AATTACC
1 AATTACC
54441386 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:54443049 original size:16 final size:16
Alignment explanation
Indices: 54443025--54443077 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
54443015 AAAATTGAAA
*
54443025 TATAAATTATTATATT
1 TATATATTATTATATT
*
54443041 TATATATTATTATATA
1 TATATATTATTATATT
*
54443057 TAAATACTTATT-TATT
1 TATATA-TTATTATATT
54443073 TATAT
1 TATAT
54443078 TCATCTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 26 0.84
17 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATATTATTATATT
Found at i:54443736 original size:28 final size:28
Alignment explanation
Indices: 54443704--54443769 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
54443694 TGAATCTTGA
* *
54443704 ATTTTTTATTA-AAAATATCTATTTATAT
1 ATTTTTTATTATAAAAAATCTATTT-TAG
* *
54443732 ATTTTATATTATAAAAAATCTATTTTGG
1 ATTTTTTATTATAAAAAATCTATTTTAG
54443760 ATTTTTTATT
1 ATTTTTTATT
54443770 TTTATATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 20 0.62
29 12 0.38
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (28 bp):
ATTTTTTATTATAAAAAATCTATTTTAG
Found at i:54443765 original size:29 final size:26
Alignment explanation
Indices: 54443704--54443769 Score: 71
Period size: 29 Copynumber: 2.4 Consensus size: 26
54443694 TGAATCTTGA
*
54443704 ATTTTTTATTAAAAATATCTATTTAT
1 ATTTTTTATTAAAAAAATCTATTTAT
54443730 ATATTTTATATTATAAAAAATCTATTT-T
1 AT-TTTT-TATTA-AAAAAATCTATTTAT
54443758 GGATTTTTTATT
1 --ATTTTTTATT
54443770 TTTATATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
26 2 0.06
27 4 0.12
28 10 0.29
29 16 0.47
30 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (26 bp):
ATTTTTTATTAAAAAAATCTATTTAT
Found at i:54445600 original size:21 final size:21
Alignment explanation
Indices: 54445574--54445618 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
54445564 TAAACAAGTT
* *
54445574 TAACACACCATTCCATATGCA
1 TAACACACCAGTCCATATGAA
*
54445595 TAACACACTAGTCCATATGAA
1 TAACACACCAGTCCATATGAA
54445616 TAA
1 TAA
54445619 ATCTACAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.27, G:0.07, T:0.24
Consensus pattern (21 bp):
TAACACACCAGTCCATATGAA
Found at i:54446208 original size:19 final size:21
Alignment explanation
Indices: 54446184--54446269 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
54446174 CATTGTTAAT
54446184 AGAAGCTCG-AA-AGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
54446203 AGAAGCTCGTAAGAGCTGAAT
1 AGAAGCTCGTAAGAGCTGAAC
* * * *
54446224 AGAAACTCGTATGAGTTAAAC
1 AGAAGCTCGTAAGAGCTGAAC
* *
54446245 AGAAGCTCATAA-AGTCTAAAC
1 AGAAGCTCGTAAGAG-CTGAAC
54446266 AGAA
1 AGAA
54446270 AGTAAAACAC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
19 9 0.17
20 4 0.07
21 41 0.76
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:54449175 original size:31 final size:31
Alignment explanation
Indices: 54449137--54449277 Score: 246
Period size: 31 Copynumber: 4.5 Consensus size: 31
54449127 TTTAACGATT
54449137 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
54449168 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
54449199 ACTGGGCCGAAGCCTTTTCATAAATCATATT
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
54449230 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
54449261 ACTAGGTCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
54449278 ACTGTAAACG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:54449348 original size:42 final size:42
Alignment explanation
Indices: 54449301--54449392 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
54449291 TGGCACTTAG
*
54449301 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATTCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
54449343 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
54449385 GCCCATTT
1 GCCCATTT
54449393 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.33
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:54449557 original size:25 final size:24
Alignment explanation
Indices: 54449512--54449609 Score: 92
Period size: 25 Copynumber: 4.0 Consensus size: 24
54449502 TGCTTTATCA
**
54449512 TATAACTGGAGGCCTAG-CCTTTTT
1 TATAACTGG-GGCAAAGCCCTTTTT
54449536 TAATAACTGGGGCAAAGCCCTTTTT
1 T-ATAACTGGGGCAAAGCCCTTTTT
* *
54449561 GATAAACTGGGGCAAAGCCCTTTTCGG
1 TAT-AACTGGGGCAAAGCCCTTTT--T
*
54449588 TA-AACTGGGGCAGAGCCCTTTT
1 TATAACTGGGGCAAAGCCCTTTT
54449610 AACACTTCCT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
24 8 0.13
25 54 0.86
27 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.30
Consensus pattern (24 bp):
TATAACTGGGGCAAAGCCCTTTTT
Found at i:54449559 original size:24 final size:25
Alignment explanation
Indices: 54449527--54449609 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 25
54449517 CTGGAGGCCT
* *
54449527 AGCCTTTTTTAAT-AACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
54449551 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCCTTTTTGATAAACTGGGGCAA
* * *
54449576 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTTTGATAAACTGGGGCAA
54449601 AGCCCTTTT
1 AGCCCTTTT
54449610 AACACTTCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 11 0.21
25 42 0.79
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTTGATAAACTGGGGCAA
Found at i:54449971 original size:54 final size:54
Alignment explanation
Indices: 54449815--54449983 Score: 250
Period size: 54 Copynumber: 3.1 Consensus size: 54
54449805 GGGAAAAATG
* *
54449815 GTAATTTTACCC-ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTACTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
54449868 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* ** *
54449922 GTAATTCTACCCTACAAGGGCGTTTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
54449976 ATAATTTT
1 GTAATTTT
54449984 GTAAATCGAG
Statistics
Matches: 103, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
53 12 0.12
54 91 0.88
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:54449981 original size:27 final size:27
Alignment explanation
Indices: 54449815--54449973 Score: 185
Period size: 27 Copynumber: 5.9 Consensus size: 27
54449805 GGGAAAAATG
* * * *
54449815 GTAATTTTACCC-ACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
54449841 GTAATTCTACCCTACAGGGGTACTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
54449868 GTAATTTTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
54449895 GTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* ** *
54449922 GTAATTCTACCCTACAAGGGCGTTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
54449949 GTAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
54449974 TAATAATTTT
Statistics
Matches: 109, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 11 0.10
27 98 0.90
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:54450069 original size:27 final size:27
Alignment explanation
Indices: 54450002--54450415 Score: 324
Period size: 27 Copynumber: 15.3 Consensus size: 27
54449992 AGGGTGAAAC
* * *
54450002 GGTAATTCTATAAATCG-GGAGTACTTT
1 GGTAATTTTACAAATCGAGG-GTATTTT
* *
54450029 GGTAATTTTTACAAGTCGAGGGTATTTC
1 GGTAA-TTTTACAAATCGAGGGTATTTT
* *
54450057 AGTAATTTTACAAATCG-GGAGTATTTC
1 GGTAATTTTACAAATCGAGG-GTATTTT
** * * *
54450084 AATAATTTTGCAAA-CTAAGGGTATTTC
1 GGTAATTTTACAAATC-GAGGGTATTTT
54450111 GGTAATTTTACAAATC-AGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
54450138 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
** * *
54450165 GGTAATTTTGTAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* * * *
54450192 GGTAATTTTATAAGTTGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * * *
54450219 AGAAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
54450246 CGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
*
54450273 AGTAATTTTACAAATC-AGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
54450300 GGTAATTTCACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
54450327 GGTAATTTTACAAACCAAGAGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
*
54450354 GGTAATTTTACAAA-CCAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
54450381 AGTAATTTTACAAATTGAGGGCATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
*
54450408 AGTAATTT
1 GGTAATTT
54450416 GGTAAACTAA
Statistics
Matches: 321, Mismatches: 50, Indels: 32
0.80 0.12 0.08
Matches are distributed among these distances:
26 10 0.03
27 282 0.88
28 27 0.08
29 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:54450120 original size:54 final size:54
Alignment explanation
Indices: 54450003--54450395 Score: 380
Period size: 54 Copynumber: 7.3 Consensus size: 54
54449993 GGGTGAAACG
* * * * *
54450003 GTAATTCTATAAATC-GGGAGTACTTTGGTAATTTTTAC-AAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCAGGG-GTATTTTGGTAA-TTTTACAAACT-AAGGGTATTTCA
*** * *
54450058 GTAATTTTACAAATC-GGGAGTATTTCAATAATTTTGCAAACTAAGGGTATTTCG
1 GTAATTTTACAAATCAGGG-GTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
* **
54450112 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
** * * * ** *
54450166 GTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTATAAGTTGAGGGTATTTCA
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
* * * * * *
54450220 GAAATTTCACAAATTAGGGGTATTTTCGTAATTTTAC-AAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTCA
* * **
54450274 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTG
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
* * * * * *
54450328 GTAATTTTACAAACCAAGAGTATTTTGGTAATTTTACAAACCAGGGGTATTTTA
1 GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
54450382 GTAATTTTACAAAT
1 GTAATTTTACAAAT
54450396 TGAGGGCATT
Statistics
Matches: 279, Mismatches: 55, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.01
54 243 0.87
55 34 0.12
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCA
Found at i:54450407 original size:81 final size:81
Alignment explanation
Indices: 54450026--54450415 Score: 419
Period size: 81 Copynumber: 4.8 Consensus size: 81
54450016 TCGGGAGTAC
* * * * *
54450026 TTTGGTAATTTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAAA-TCGGGAGTATTTCAATAA
1 TTTGGTAA-TTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAATTAGGG-GTATTTTAGTAA
* *
54450089 TTTTGCAAACTAAGGGTAT
63 TTTTACAAACCAAGGGTAT
* * * *
54450108 TTCGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTAGTAATTT
**
54450173 TGTAAACCAAGGGTAT
66 TACAAACCAAGGGTAT
* * * * * * *
54450189 TTTGGTAATTTTATAAGT-TGAGGGTATTTCAGAAATTTCACAAATTAGGGGTATTTTCGTAATT
1 TTTGGTAATTTTACAAATCAG-GGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTAGTAATT
** *
54450253 TTACAAGTCGAGGGTAT
65 TTACAAACCAAGGGTAT
** * * * *
54450270 TTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTAGTAATTT
*
54450335 TACAAACCAAGAGTAT
66 TACAAACCAAGGGTAT
* *
54450351 TTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAATT-GAGGGCATTTTAGTAATT
1 TTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATTAG-GGGTATTTTAGTAATT
54450415 T
65 T
54450416 GGTAAACTAA
Statistics
Matches: 256, Mismatches: 47, Indels: 11
0.82 0.15 0.04
Matches are distributed among these distances:
80 2 0.01
81 241 0.94
82 13 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
TTTGGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTAGTAATTT
TACAAACCAAGGGTAT
Found at i:54452156 original size:31 final size:31
Alignment explanation
Indices: 54452119--54452317 Score: 310
Period size: 31 Copynumber: 6.4 Consensus size: 31
54452109 ATGGTTACTG
54452119 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
*
54452150 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* *
54452181 GGCCGAAGCCTTTTCATAAATCATATCATTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* *
54452212 GGCCGAAGCCTTTTCATAAATCATACCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
*
54452243 GGCCGAAGCCTTTTCATGAATCATATCAC-A
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
*
54452273 GGGCCGAAGACTTTTCATAAATCATATCACTA
1 -GGCCGAAGCCTTTTCATAAATCATATCACTA
*
54452305 GGTCGAAGCCTTT
1 GGCCGAAGCCTTT
54452318 ACTGTAAACG
Statistics
Matches: 155, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
31 154 0.99
32 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:54452566 original size:25 final size:25
Alignment explanation
Indices: 54452538--54452632 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
54452528 CTCTTTTAAT
* *
54452538 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
54452563 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
54452588 AACTGGGGCAAAGCCCCTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
54452613 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
54452633 AGCACTTCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:54452568 original size:50 final size:50
Alignment explanation
Indices: 54452525--54452632 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 50
54452515 CTGGAGGCCT
* *
54452525 AGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAAAGCCCCTTTCGATAAACTGGGGCAA
** * *
54452574 AGCCCTTTTCGGTAAACTGGGGCAAAGCCCCTTTCGGTAAACTGGGGCAG
1 AGCCCTTTTCAATAAACTGGGGCAAAGCCCCTTTCGATAAACTGGGGCAA
54452624 AGCCCTTTT
1 AGCCCTTTT
54452633 AGCACTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
48 5 0.10
49 5 0.10
50 41 0.80
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGGCAAAGCCCCTTTCGATAAACTGGGGCAA
Found at i:54452894 original size:27 final size:26
Alignment explanation
Indices: 54452837--54452995 Score: 178
Period size: 27 Copynumber: 6.0 Consensus size: 26
54452827 AGGGAAAAAT
* *
54452837 GGTAATTTTACCC-ACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTAT-TC
54452863 GGTAATTCTACCCTACAGGGGTACTTC
1 GGTAATTCTACCCTACAGGGGTA-TTC
* * *
54452890 TGTAATTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTA-TTC
* *
54452917 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTA-TTC
*
54452944 AGTAATTCTACCCTACAAGGGCGT-TTC
1 GGTAATTCTACCCTAC-AGGG-GTATTC
54452971 GGTAATTCTACCCTACAGGGGTATT
1 GGTAATTCTACCCTACAGGGGTATT
54452996 TTAATAATTT
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
25 2 0.02
26 18 0.16
27 86 0.76
28 5 0.04
29 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (26 bp):
GGTAATTCTACCCTACAGGGGTATTC
Found at i:54452994 original size:54 final size:54
Alignment explanation
Indices: 54452838--54453006 Score: 241
Period size: 54 Copynumber: 3.1 Consensus size: 54
54452828 GGGAAAAATG
* * *
54452838 GTAATTTTACCC-ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTACTTCT
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* *
54452891 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
* ** *
54452945 GTAATTCTACCCTACAAGGGCGTTTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
*
54452999 ATAATTTT
1 GTAATTTT
54453007 GTAAATCGAG
Statistics
Matches: 102, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 12 0.12
54 90 0.88
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:54453004 original size:81 final size:80
Alignment explanation
Indices: 54452854--54453004 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 80
54452844 TTACCCACAA
* * * **
54452854 GGGTATCTCGGTAATTCTACCCTACAGGGGTACTTCTGTAATTTTACCCTACAAGGGTATTTCGG
1 GGGTATCTCAGTAATTCTACCCTACAGGGGTA-TTCGGTAATTCTACCCTACAAGGGTATTTCAA
54452919 TAATTCTACCTTATAG
65 TAATTCTACCTTATAG
* * *
54452935 GGGTATTTCAGTAATTCTACCCTACAAGGGCGT-TTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GGGTATCTCAGTAATTCTACCCTAC-AGGG-GTATTCGGTAATTCTACCCTACAAGGGTATTTCA
54452999 ATAATT
64 ATAATT
54453005 TTGTAAATCG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
81 54 0.90
82 4 0.07
83 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (80 bp):
GGGTATCTCAGTAATTCTACCCTACAGGGGTATTCGGTAATTCTACCCTACAAGGGTATTTCAAT
AATTCTACCTTATAG
Found at i:54453092 original size:27 final size:27
Alignment explanation
Indices: 54453025--54453384 Score: 320
Period size: 27 Copynumber: 13.3 Consensus size: 27
54453015 AGGGTGAAAC
* * *
54453025 GGTAATTCTATAAATCG-GGAGTACTTT
1 GGTAATTTTACAAATCGAGG-GTATTTT
* *
54453052 GGTAATTTTTACAAGTCGAGGGTATTTC
1 GGTAA-TTTTACAAATCGAGGGTATTTT
* * *
54453080 AGTAATTTTACAAATCGGGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** * * *
54453107 AATAATTTTGCAAA-CTAAGGGTATTTC
1 GGTAATTTTACAAATC-GAGGGTATTTT
54453134 GGTAATTTTACAAATC-AGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
54453161 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
** * *
54453188 GGTAATTTTGTAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
54453215 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
54453242 AGTAATTTCACAAATC-AGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
54453269 GGTAATTTCACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
54453296 GGTAATTTTACAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
*
54453323 GGTAATTTTACAAA-CCAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
54453350 AGTAATTTTACAAATTGAGGGCATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
*
54453377 AGTAATTT
1 GGTAATTT
54453385 GGTAAACTAA
Statistics
Matches: 284, Mismatches: 37, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.02
27 251 0.88
28 24 0.08
29 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:54453170 original size:81 final size:81
Alignment explanation
Indices: 54453049--54453384 Score: 397
Period size: 81 Copynumber: 4.1 Consensus size: 81
54453039 TCGGGAGTAC
* * * *
54453049 TTTGGTAATTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCGGGGGTATTTCAATAATT
1 TTTGGTAA-TTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTAGTAATT
*
54453114 TTGCAAACTAAGGGTAT
65 TTACAAACTAAGGGTAT
* ** *
54453131 TTCGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAAT
1 TTTGGTAATTTTACAAATCGA-GGGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTAGTAAT
** *
54453194 TTTGTAAACCAAGGGTAT
64 TTTACAAACTAAGGGTAT
* * *
54453212 TTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTAGTAATTT
* *
54453277 CACAAACTAGGGGTAT
66 TACAAACTAAGGGTAT
* * ** *
54453293 TTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTT
1 TTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTAGTAATTT
* * *
54453358 TACAAATTGAGGGCAT
66 TACAAACTAAGGGTAT
*
54453374 TTTAGTAATTT
1 TTTGGTAATTT
54453385 GGTAAACTAA
Statistics
Matches: 216, Mismatches: 34, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
80 2 0.01
81 205 0.95
82 9 0.04
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (81 bp):
TTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTAGTAATTT
TACAAACTAAGGGTAT
Found at i:54459014 original size:42 final size:42
Alignment explanation
Indices: 54458952--54459068 Score: 153
Period size: 42 Copynumber: 2.8 Consensus size: 42
54458942 AGTTACTGAG
*
54458952 ACTACGAGTAAGACCATATCTAGGATATGGCATCAATACGAA
1 ACTACGTGTAAGACCATATCTAGGATATGGCATCAATACGAA
* * *
54458994 ACTACGTGTAAGACCGTATCTAGGATATGGCATCGATACGAG
1 ACTACGTGTAAGACCATATCTAGGATATGGCATCAATACGAA
* * * * *
54459036 ATTACATGTAAGACCATGTTTGGGATATGGCAT
1 ACTACGTGTAAGACCATATCTAGGATATGGCAT
54459069 TGGTGCAATA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (42 bp):
ACTACGTGTAAGACCATATCTAGGATATGGCATCAATACGAA
Found at i:54468351 original size:35 final size:34
Alignment explanation
Indices: 54468284--54468351 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
54468274 AAGACTATGA
* *
54468284 GTAAGACCATATTTGGGATATGGCATCAATACGT
1 GTAAGACCACATCTGGGATATGGCATCAATACGT
* *
54468318 GTAAGACCACATCTGGGGTATTGGCATCGATACG
1 GTAAGACCACATCTGGGATA-TGGCATCAATACG
54468352 AGATTACATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (34 bp):
GTAAGACCACATCTGGGATATGGCATCAATACGT
Found at i:54471554 original size:31 final size:31
Alignment explanation
Indices: 54471517--54471579 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
54471507 TGTTATGAGA
54471517 TAGAAGTAGCAATGGCTACATATGGGGCACC
1 TAGAAGTAGCAATGGCTACATATGGGGCACC
54471548 TAGAAGTAGCAATGGCTACATATGGGGCACC
1 TAGAAGTAGCAATGGCTACATATGGGGCACC
54471579 T
1 T
54471580 TGTGTGCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.21
Consensus pattern (31 bp):
TAGAAGTAGCAATGGCTACATATGGGGCACC
Found at i:54472449 original size:32 final size:32
Alignment explanation
Indices: 54472413--54472477 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
54472403 TTTGGTTGCC
54472413 TAAGTATACCATTGTTTATGCCATTGAATTTG
1 TAAGTATACCATTGTTTATGCCATTGAATTTG
54472445 TAAGTATACCATTGTTTATGCCATTGAATTTG
1 TAAGTATACCATTGTTTATGCCATTGAATTTG
54472477 T
1 T
54472478 GTATGTGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (32 bp):
TAAGTATACCATTGTTTATGCCATTGAATTTG
Found at i:54474035 original size:40 final size:41
Alignment explanation
Indices: 54473980--54474077 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
54473970 TTTCCAGCTT
* * *
54473980 AATAATTCACCTATTTTACCT-ACTGGCAGCCTAACATGTG
1 AATAATTCACCTATTTTACATAACTGACAGCCTAACATGCG
* * *
54474020 AATAATTCACCTATTTTAGATAACTGACGGCCTAACTTGCG
1 AATAATTCACCTATTTTACATAACTGACAGCCTAACATGCG
54474061 AATAATTCACCTATTTT
1 AATAATTCACCTATTTT
54474078 GAGTGTTAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 19 0.37
41 32 0.63
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (41 bp):
AATAATTCACCTATTTTACATAACTGACAGCCTAACATGCG
Found at i:54479108 original size:43 final size:41
Alignment explanation
Indices: 54479061--54479146 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 41
54479051 CTAGGGTAAA
* *
54479061 TTCAACAACCCATGTTTATCTTCTCCTTTTTTTAAATTCTTTT
1 TTCAACAACCCAAGATTATCTTCTCCTTTTTTT-AATT-TTTT
*
54479104 TTCAACAACCCAAGATTATCTTCTTCTTTTTTTAATTTTTT
1 TTCAACAACCCAAGATTATCTTCTCCTTTTTTTAATTTTTT
54479145 TT
1 TT
54479147 GGAATAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 6 0.15
42 4 0.10
43 30 0.75
ACGTcount: A:0.22, C:0.21, G:0.02, T:0.55
Consensus pattern (41 bp):
TTCAACAACCCAAGATTATCTTCTCCTTTTTTTAATTTTTT
Found at i:54484514 original size:18 final size:18
Alignment explanation
Indices: 54484484--54484538 Score: 78
Period size: 18 Copynumber: 3.1 Consensus size: 18
54484474 TTTTGGTTAC
*
54484484 TTAT-TTTTGGGTTTTAA
1 TTATATTTTAGGTTTTAA
54484501 TTATATTTTAGGTTTTAA
1 TTATATTTTAGGTTTTAA
54484519 TTATATTTTA-GTTTCTAA
1 TTATATTTTAGGTTT-TAA
54484537 TT
1 TT
54484539 TGAACATCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
17 8 0.23
18 27 0.77
ACGTcount: A:0.24, C:0.02, G:0.11, T:0.64
Consensus pattern (18 bp):
TTATATTTTAGGTTTTAA
Found at i:54498306 original size:30 final size:30
Alignment explanation
Indices: 54498270--54498330 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
54498260 CATTTAATAC
*
54498270 AAACTTTTGCAAAATTACATTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
*
54498300 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
54498330 A
1 A
54498331 GGCTCGGGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:54506480 original size:26 final size:26
Alignment explanation
Indices: 54506444--54506496 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
54506434 GTTGTTCGTA
54506444 AAGAAAAAAGATGGTTCGATAAGGTT
1 AAGAAAAAAGATGGTTCGATAAGGTT
54506470 AAGAAAAAAGATGGTTCGATAAGGTT
1 AAGAAAAAAGATGGTTCGATAAGGTT
54506496 A
1 A
54506497 TGTATCGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.26, T:0.23
Consensus pattern (26 bp):
AAGAAAAAAGATGGTTCGATAAGGTT
Found at i:54513316 original size:65 final size:65
Alignment explanation
Indices: 54513202--54513351 Score: 165
Period size: 65 Copynumber: 2.3 Consensus size: 65
54513192 GCCATATCAA
* * * * * * *
54513202 GACACTCACAAAGTGCTTCTTTTGTGTCTACAACATATGCAAGATCACAATCTATCATAAAACAG
1 GACACTCACAAAGAGCTGCGTTTGTGTCCACAACATATGCAAGACCACAACCGATCATAAAACAG
* * * * *
54513267 GACACTCACAAAGAGCTGCGTTTGTGTCCGCAATATATGTAGGACCACAACCGATCATATAACAG
1 GACACTCACAAAGAGCTGCGTTTGTGTCCACAACATATGCAAGACCACAACCGATCATAAAACAG
** *
54513332 GACGTTCACAAAGAGTTGCG
1 GACACTCACAAAGAGCTGCG
54513352 GTAGTCTACA
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
65 70 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (65 bp):
GACACTCACAAAGAGCTGCGTTTGTGTCCACAACATATGCAAGACCACAACCGATCATAAAACAG
Found at i:54516010 original size:25 final size:26
Alignment explanation
Indices: 54515982--54516041 Score: 77
Period size: 29 Copynumber: 2.2 Consensus size: 26
54515972 GTAAAATTTT
54515982 CTATAC-AAATCCTTCGGTACACAGA
1 CTATACTAAATCCTTCGGTACACAGA
*
54516007 CTATACCTCTGAATCCTTCGGTACACAGA
1 CTATA---CTAAATCCTTCGGTACACAGA
54516036 CTATAC
1 CTATAC
54516042 CTCTGAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 5 0.17
26 1 0.03
28 1 0.03
29 23 0.77
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.27
Consensus pattern (26 bp):
CTATACTAAATCCTTCGGTACACAGA
Found at i:54516022 original size:29 final size:29
Alignment explanation
Indices: 54515989--54516049 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
54515979 TTTCTATACA
54515989 AATCCTTCGGTACACAGACTATACCTCTG
1 AATCCTTCGGTACACAGACTATACCTCTG
54516018 AATCCTTCGGTACACAGACTATACCTCTG
1 AATCCTTCGGTACACAGACTATACCTCTG
54516047 AAT
1 AAT
54516050 AACAGACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
AATCCTTCGGTACACAGACTATACCTCTG
Found at i:54518856 original size:13 final size:13
Alignment explanation
Indices: 54518838--54518862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54518828 TAATGGTATA
54518838 TTGAATCCATGAT
1 TTGAATCCATGAT
54518851 TTGAATCCATGA
1 TTGAATCCATGA
54518863 AAATTTAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:54520830 original size:47 final size:47
Alignment explanation
Indices: 54520776--54521272 Score: 841
Period size: 47 Copynumber: 10.6 Consensus size: 47
54520766 TATTTGAATA
54520776 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
54520823 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54520870 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54520917 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGACG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54520964 AATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTGACG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54521011 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGACG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
54521058 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54521105 AATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
54521152 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
54521199 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54521246 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
54521273 TCCCGAAGGG
Statistics
Matches: 433, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 433 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:54527602 original size:22 final size:22
Alignment explanation
Indices: 54527577--54527619 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
54527567 GGCTATGCGA
54527577 TCTGAGCTCATGAGTTATGTGG
1 TCTGAGCTCATGAGTTATGTGG
54527599 TCTGAGCTCATGAGTTATGTG
1 TCTGAGCTCATGAGTTATGTG
54527620 ACACATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.30, T:0.37
Consensus pattern (22 bp):
TCTGAGCTCATGAGTTATGTGG
Found at i:54529058 original size:37 final size:37
Alignment explanation
Indices: 54529008--54529086 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
54528998 TTATTACGAA
* *
54529008 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
54529045 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
54529082 GTCTT
1 GTCTT
54529087 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:54529283 original size:47 final size:47
Alignment explanation
Indices: 54529205--54529523 Score: 449
Period size: 47 Copynumber: 6.6 Consensus size: 47
54529195 CCCTTCGGGA
* * * * * *
54529205 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54529252 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54529299 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54529346 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54529397 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54529444 CTTATCACATATATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
54529497 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
54529524 TATTCAAATA
Statistics
Matches: 246, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
47 149 0.61
49 6 0.02
51 52 0.21
53 39 0.16
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54529402 original size:98 final size:98
Alignment explanation
Indices: 54529205--54529523 Score: 502
Period size: 98 Copynumber: 3.3 Consensus size: 98
54529195 CCCTTCGGGA
* * * * * * * *
54529205 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC----ATATAT
1 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
54529266 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
54529299 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
54529364 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
54529397 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
54529462 ACACACTTTCACATTCATCACATCGGCCATTAGGC
66 --ACACTTTCACATTCATCACATCGGCCATTAGGC
*
54529497 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTCTCACATT
54529524 TATTCAAATA
Statistics
Matches: 208, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 46 0.22
98 103 0.50
100 59 0.28
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (98 bp):
CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54529509 original size:145 final size:140
Alignment explanation
Indices: 54529205--54529523 Score: 422
Period size: 145 Copynumber: 2.2 Consensus size: 140
54529195 CCCTTCGGGA
* * * * * *
54529205 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACA-ATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
54529270 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
65 TCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATC
54529335 GGCCATTAGGC
130 GGCCATTAGGC
* *
54529346 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC----A-ATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATAT
* *
54529411 ACACTCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATATACACACTTTCACAT
61 ACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATAT--ACACTCTCACAT
54529476 TCATCACATCGGCCATTAGGC
120 TCATCACATCGGCCATTAGGC
54529497 CTTATCACATATATACACTTTCACATT
1 CTTATCACA-ATATACACTTTCACATT
54529524 TATTCAAATA
Statistics
Matches: 157, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
141 8 0.05
145 84 0.54
147 19 0.12
149 6 0.04
151 40 0.25
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (140 bp):
CTTATCACAATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTATCACATATATACACT
CTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTCTCACATTCATCACATCG
GCCATTAGGC
Found at i:54535466 original size:46 final size:46
Alignment explanation
Indices: 54535325--54535540 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 46
54535315 GTAAGGTGCT
* * * * * *
54535325 GATGCCATGTCCCAGACATGGTCTTACATTGACTATCACCTCGTAGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCATAGCC
* * *
54535373 GATGCATGTCCCAAACATGTCTTACACTGGCT-TACGTCTCGA-GGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTC-ATAGCC
54535419 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCA-ATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCATA-GCC
* * * ** * *
54535465 GATCTCATGT-CCAGGACATGGTCTTGCACTGGCTCTCATATTGTGGTC
1 GAT-GCATGTCCCA-GACAT-GTCTTACACTGGCTCTCATCTCATAGCC
*
54535513 GATGCATGTCCTAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
54535541 AGCCAACAAT
Statistics
Matches: 138, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.01
46 72 0.52
47 34 0.25
48 30 0.22
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCATAGCC
Found at i:54540123 original size:23 final size:22
Alignment explanation
Indices: 54540084--54540131 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
54540074 TACTCTACAA
54540084 AAATATATAAAGAATTTATTCTC
1 AAATATATAAAGAATTT-TTCTC
* *
54540107 AAATAT-TAAATATATTTTTTTC
1 AAATATATAAAGA-ATTTTTCTC
54540129 AAA
1 AAA
54540132 ATAATAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATATATAAAGAATTTTTCTC
Found at i:54542031 original size:16 final size:16
Alignment explanation
Indices: 54542010--54542043 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
54542000 TAATTAATAC
54542010 GTGATGAATGACTTAA
1 GTGATGAATGACTTAA
*
54542026 GTGATGAATGGCTTAA
1 GTGATGAATGACTTAA
54542042 GT
1 GT
54542044 AATAATTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (16 bp):
GTGATGAATGACTTAA
Found at i:54543148 original size:36 final size:37
Alignment explanation
Indices: 54543094--54543211 Score: 145
Period size: 36 Copynumber: 3.3 Consensus size: 37
54543084 CTCTCTGTTT
* *
54543094 TGGTGTGTTTCGGTTGGATTAGCTCTTTA-GAGCCA-C
1 TGGTGTGTTTCAGATGGATTAGCTCTTTATGAG-CATC
*
54543130 TGGTGTGTTTCAGATGGATTAGCTC-TTATGAGCATT
1 TGGTGTGTTTCAGATGGATTAGCTCTTTATGAGCATC
* *
54543166 TGGTGTGTTTCAGACGGACTAGCT-TTTATGAGCATC
1 TGGTGTGTTTCAGATGGATTAGCTCTTTATGAGCATC
*
54543202 TAGTGTGTTT
1 TGGTGTGTTT
54543212 TGGTGGGATT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
35 5 0.07
36 67 0.93
ACGTcount: A:0.17, C:0.14, G:0.29, T:0.41
Consensus pattern (37 bp):
TGGTGTGTTTCAGATGGATTAGCTCTTTATGAGCATC
Found at i:54543891 original size:101 final size:101
Alignment explanation
Indices: 54543716--54543917 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
54543706 TTGTGTGAAA
54543716 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
1 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
54543781 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
66 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
54543817 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
1 ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
54543882 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
66 AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
54543918 CTATAGAACT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.33
Consensus pattern (101 bp):
ATTTCGTAAAGAATTTTTATCGATTACATGTTTAATTTGATAAAGGACCAAATTGCACAAAGTGC
AAAAGTTGAGTTCTAATAGCTAAAGGGATTAGATAG
Found at i:54544860 original size:19 final size:17
Alignment explanation
Indices: 54544833--54544879 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
54544823 AAAAAGCTCG
*
54544833 ATAAGTGATAATGCCTAAA
1 ATAAATGATAATG-C-AAA
*
54544852 ATAAATGATAATGCACA
1 ATAAATGATAATGCAAA
54544869 ATAAATGATAA
1 ATAAATGATAA
54544880 ATGTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 13 0.50
18 1 0.04
19 12 0.46
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.26
Consensus pattern (17 bp):
ATAAATGATAATGCAAA
Found at i:54555233 original size:14 final size:14
Alignment explanation
Indices: 54555214--54555245 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
54555204 TCTGTATGTA
*
54555214 TGTGGGTGTGTGTG
1 TGTGGGTGTGTATG
54555228 TGTGGGTGTGTATG
1 TGTGGGTGTGTATG
54555242 TGTG
1 TGTG
54555246 TATGTGTGTT
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:0.03, C:0.00, G:0.53, T:0.44
Consensus pattern (14 bp):
TGTGGGTGTGTATG
Found at i:54559683 original size:36 final size:36
Alignment explanation
Indices: 54559636--54559708 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
54559626 TCAAGAGAAA
54559636 GAACAGATGATGTACCATAACAAATAATATTCCAAT
1 GAACAGATGATGTACCATAACAAATAATATTCCAAT
54559672 GAACAGATGATGTACCATAACAAATAATATTCCAAT
1 GAACAGATGATGTACCATAACAAATAATATTCCAAT
54559708 G
1 G
54559709 GCATAGGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (36 bp):
GAACAGATGATGTACCATAACAAATAATATTCCAAT
Found at i:54560232 original size:15 final size:15
Alignment explanation
Indices: 54560212--54560240 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54560202 TTCTTTCATT
54560212 TCTGGTCAATAAACC
1 TCTGGTCAATAAACC
54560227 TCTGGTCAATAAAC
1 TCTGGTCAATAAAC
54560241 TGCGATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (15 bp):
TCTGGTCAATAAACC
Found at i:54562686 original size:42 final size:42
Alignment explanation
Indices: 54562647--54562762 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 42
54562637 TCACATATTG
* *
54562647 TGCCAATAGCCCAGCTATGGTCTTACACGATGTCTCATATCAA
1 TGCC-ATAGCCCAGATATGGTCTTACACGAAGTCTCATATCAA
* * *
54562690 TGCCATATCCCAGATATGGTCTTATACGAAGTCTCATTTTCAA
1 TGCCATAGCCCAGATATGGTCTTACACGAAGTCTCA-TATCAA
* * **
54562733 AGCCAT-GTCCAAGACGTGGTCTTACACGAA
1 TGCCATAG-CCCAGATATGGTCTTACACGAA
54562763 ATCCCATGCT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
TGCCATAGCCCAGATATGGTCTTACACGAAGTCTCATATCAA
Found at i:54562754 original size:43 final size:42
Alignment explanation
Indices: 54562663--54562762 Score: 119
Period size: 43 Copynumber: 2.4 Consensus size: 42
54562653 TAGCCCAGCT
* * * *
54562663 ATGGTCTTACACGATGTCTCATATCAATGCCATATCCCAGAT
1 ATGGTCTTACACGAAGTCTCATATCAAAGCCATATCCAAGAC
* * *
54562705 ATGGTCTTATACGAAGTCTCATTTTCAAAGCCATGTCCAAGAC
1 ATGGTCTTACACGAAGTCTCA-TATCAAAGCCATATCCAAGAC
*
54562748 GTGGTCTTACACGAA
1 ATGGTCTTACACGAA
54562763 ATCCCATGCT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 19 0.40
43 29 0.60
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACACGAAGTCTCATATCAAAGCCATATCCAAGAC
Found at i:54566653 original size:29 final size:29
Alignment explanation
Indices: 54566552--54566642 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
54566542 TACCTGTGTC
* * * * *
54566552 TGGCCCACTAAGCCC-AATCATATTCATG
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
54566580 TGGCCCATTAGGCCCAAATCA-ACTGTATA
1 TGGCCCATTAGGCCCAAATCACA-TTTATA
54566609 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
54566638 TGGCC
1 TGGCC
54566643 TGTTGGGCCC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 14 0.26
29 39 0.72
30 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:54566890 original size:8 final size:8
Alignment explanation
Indices: 54566877--54566927 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
54566867 GTAGCCAAAC
54566877 TTTCGGCT
1 TTTCGGCT
54566885 TTTCGG-T
1 TTTCGGCT
*
54566892 ATTTTGGCT
1 -TTTCGGCT
* *
54566901 TTTTGGCA
1 TTTCGGCT
*
54566909 TTTCGGCA
1 TTTCGGCT
54566917 TTTCGGCT
1 TTTCGGCT
54566925 TTT
1 TTT
54566928 GCCAATTCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
7 1 0.03
8 35 0.95
9 1 0.03
ACGTcount: A:0.06, C:0.18, G:0.24, T:0.53
Consensus pattern (8 bp):
TTTCGGCT
Found at i:54566902 original size:16 final size:16
Alignment explanation
Indices: 54566877--54566923 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
54566867 GTAGCCAAAC
*
54566877 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCGGCA
* *
54566893 TTTTGGCTTTTTGGCA
1 TTTCGGCTTTTCGGCA
*
54566909 TTTCGGCATTTCGGC
1 TTTCGGCTTTTCGGC
54566924 TTTTGCCAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.06, C:0.19, G:0.26, T:0.49
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:54587707 original size:20 final size:20
Alignment explanation
Indices: 54587682--54587725 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
54587672 TATTTCTTTA
*
54587682 AAAAGACCCCATATATACTC
1 AAAAGACACCATATATACTC
54587702 AAAAGACACCATATATACTC
1 AAAAGACACCATATATACTC
54587722 AAAA
1 AAAA
54587726 CAATACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.52, C:0.25, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAAGACACCATATATACTC
Found at i:54591272 original size:17 final size:18
Alignment explanation
Indices: 54591240--54591273 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54591230 TATTCCTCAT
*
54591240 TTTAATTTCTGCAATTTA
1 TTTAATTTCAGCAATTTA
54591258 TTTAATTT-AGCAATTT
1 TTTAATTTCAGCAATTT
54591274 CAAGTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCAGCAATTTA
Found at i:54594708 original size:21 final size:19
Alignment explanation
Indices: 54594683--54594721 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
54594673 GCTCTTTTTC
54594683 AAGAAGAGAAATTGACAAGGG
1 AAGAAG-GAAATTGA-AAGGG
*
54594704 AAGAAGGGAATTGAAAGG
1 AAGAAGGAAATTGAAAGG
54594722 CAACTAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.51, C:0.03, G:0.36, T:0.10
Consensus pattern (19 bp):
AAGAAGGAAATTGAAAGGG
Found at i:54596785 original size:30 final size:30
Alignment explanation
Indices: 54596750--54596810 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
54596740 TTTTCCCAAC
*
54596750 TTTTTATTTTTGATTCAAACCGATCCCTGT
1 TTTTTATTTTTGATTCAAACCGACCCCTGT
54596780 TTTTTATTTTTGATTCAAACCGACCCCTGT
1 TTTTTATTTTTGATTCAAACCGACCCCTGT
54596810 T
1 T
54596811 CATTCCTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.49
Consensus pattern (30 bp):
TTTTTATTTTTGATTCAAACCGACCCCTGT
Found at i:54598421 original size:45 final size:44
Alignment explanation
Indices: 54598359--54598456 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 44
54598349 CACTAGGAAC
54598359 TATGTGAC-CTGAACTCATTAAGTTATGGTCTGAGTTCAAGATA
1 TATGTGACACTGAACTCATTAAGTTATGGTCTGAGTTCAAGATA
* * * *
54598402 TATGTGACATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATG
1 TATGTGACA-CTGAACTCATTAAGTTATGGTCTGAGTTCAAGATA
54598447 TATGTGACAC
1 TATGTGACAC
54598457 ATGTTTTGGC
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
43 8 0.16
44 1 0.02
45 40 0.82
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (44 bp):
TATGTGACACTGAACTCATTAAGTTATGGTCTGAGTTCAAGATA
Found at i:54624542 original size:18 final size:18
Alignment explanation
Indices: 54624508--54624541 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
54624498 TAAAAACTAA
54624508 ATAAAAATAATAAAAAAT
1 ATAAAAATAATAAAAAAT
54624526 ATAAAAAT-ATAAAAAA
1 ATAAAAATAATAAAAAA
54624542 AATAGAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
ATAAAAATAATAAAAAAT
Found at i:54624689 original size:21 final size:21
Alignment explanation
Indices: 54624665--54624704 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
54624655 TTGAAATTAT
54624665 ATAAAACGATATA-AATAAATA
1 ATAAAACGA-ATACAATAAATA
*
54624686 ATAAAATGAATACAATAAA
1 ATAAAACGAATACAATAAA
54624705 ATAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
ATAAAACGAATACAATAAATA
Found at i:54641764 original size:20 final size:20
Alignment explanation
Indices: 54641739--54641782 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
54641729 TTTGGTATTG
54641739 TTTTGAGTATATATAGTGTC
1 TTTTGAGTATATATAGTGTC
*
54641759 TTTTGAGTATATATGGTGTC
1 TTTTGAGTATATATAGTGTC
54641779 TTTT
1 TTTT
54641783 TAAAGAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTTGAGTATATATAGTGTC
Found at i:54647639 original size:23 final size:23
Alignment explanation
Indices: 54647592--54647640 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
54647582 TTTTGAGTCG
* *
54647592 TTCAAGTTATTTTTTATGCTCAT
1 TTCAAGTTATTTTTTATGATAAT
* *
54647615 TTCAAGTTATTTTTTTTTATAAT
1 TTCAAGTTATTTTTTATGATAAT
54647638 TTC
1 TTC
54647641 GGGTTCAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.10, G:0.06, T:0.61
Consensus pattern (23 bp):
TTCAAGTTATTTTTTATGATAAT
Found at i:54652169 original size:22 final size:21
Alignment explanation
Indices: 54652124--54652187 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
54652114 TATTTACCTA
*
54652124 TTATTATTT-TTTAAATTCA-T
1 TTATTATTTATTTATA-TCATT
54652144 TTA-T-TTTATTGTAT-TCATT
1 TTATTATTTATT-TATATCATT
*
54652163 TTATTATTTATTTATATCGTT
1 TTATTATTTATTTATATCATT
54652184 TTAT
1 TTAT
54652188 ATAATTTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
18 6 0.17
19 7 0.19
20 9 0.25
21 14 0.39
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.67
Consensus pattern (21 bp):
TTATTATTTATTTATATCATT
Found at i:54652330 original size:18 final size:18
Alignment explanation
Indices: 54652310--54652343 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
54652300 TAGGTTCTAT
54652310 TTTTTTA-TATTTTTATA
1 TTTTTTATTATTTTTATA
54652327 TTTTTTATTATTTTTAT
1 TTTTTTATTATTTTTAT
54652344 TTAGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTATTATTTTTATA
Found at i:54665316 original size:53 final size:53
Alignment explanation
Indices: 54665244--54665349 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 53
54665234 TGCTCCGTAG
* *
54665244 ATATCAGTCTGATCCTTCACATGTGATTAGATCATCTAAGATTGATATTAAGC
1 ATATCAGTCTGATCCTTCACATGTGATTAGATCATCTAAGATCGAGATTAAGC
* * *
54665297 ATATCGGTTTGATTCTTCACATGTGATTAGATCATCTAAGATCGAGATTAAGC
1 ATATCAGTCTGATCCTTCACATGTGATTAGATCATCTAAGATCGAGATTAAGC
54665350 CCAATATGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (53 bp):
ATATCAGTCTGATCCTTCACATGTGATTAGATCATCTAAGATCGAGATTAAGC
Found at i:54669558 original size:44 final size:44
Alignment explanation
Indices: 54669491--54670040 Score: 324
Period size: 44 Copynumber: 12.0 Consensus size: 44
54669481 CCTGGCGAAT
*
54669491 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
* * * *
54669535 CTTATCTCCCTGAAGTTGTAGTGGAGTAG-GTAGAAGCTAGC-AAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AAGCTA-CAAAC
* *
54669579 CTTATTTCCCT-AAGGTTGCAGTGGAACAGATTAAAGCTATCAAAGTACAAAC
1 CTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTAAAG----C----TACAAAC
* * * * * *
54669631 CTTATCTCCCTAAAGTTGCAGTGGAGTAAATCGAAGATAGGCTACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT--TA-A-A-GCTACAAAC
** * *
54669680 CTTATCTCCCTGAAGTTGCAGTGGATAAAATTAAAGCTACTAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAC-AAAC
* *
54669725 C-TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCGACAAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA-C
* * * * *
54669769 C-TATAC-CTCTGAAGTTGTAGTAGGTCAGATTAAATCTACCATAACTACAAAC
1 CTTAT-CTCCCTGAAGTTGCAGT-GG--AG--CAGAT-TA--A-AGCTACAAAC
* * * * * * *
54669821 CTTATCTCCTTGAAGTTGC-GATAGGAGCAGGTTGAAGTTATAGAT
1 CTTATCTCCCTGAAGTTGCAG-T-GGAGCAGATTAAAGCTACAAAC
* * * * *
54669866 CTTATCTCCCTGAAGTTGCAATGGAGTAGATCAAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAAC
* * * * *
54669911 CTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAACTATAAATC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA-C
* * * * **
54669956 C-TATTTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
*
54669999 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGACAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
54670041 GTTGCAAATC
Statistics
Matches: 383, Mismatches: 85, Indels: 76
0.70 0.16 0.14
Matches are distributed among these distances:
43 7 0.02
44 196 0.51
45 68 0.18
46 2 0.01
47 3 0.01
48 2 0.01
49 37 0.10
50 2 0.01
51 3 0.01
52 33 0.09
53 26 0.07
54 1 0.00
55 1 0.00
56 1 0.00
57 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAC
Found at i:54669715 original size:101 final size:96
Alignment explanation
Indices: 54669529--54669718 Score: 240
Period size: 101 Copynumber: 1.9 Consensus size: 96
54669519 GATTAAAGCC
* * * * * *
54669529 ACAAACCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTAGAAGCTAGCAATCTTATTTCCCTAAGG
1 ACAAACCTTATCTCCCTAAAGTTGCAGTGGAGTACGAAGAAGCTACCAATCTTATCTCCCTAAGG
*
54669594 TTGCAGTGGAACAGATTAAAGCTATCAAAGT
66 TTGCAGTGGAACAAATTAAAGCTATCAAAGT
54669625 ACAAACCTTATCTCCCTAAAGTTGCAGTGGAGTAAATCGAAGATAGGCTACCAATCTTATCTCCC
1 ACAAACCTTATCTCCCTAAAGTTGCAGTGGAGT--A-CGAAGA-A-GCTACCAATCTTATCTCCC
54669690 TGAA-GTTGCAGTGGATA-AAATTAAAGCTA
61 T-AAGGTTGCAGTGGA-ACAAATTAAAGCTA
54669719 CTAATCCTAT
Statistics
Matches: 80, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
96 31 0.39
98 1 0.01
99 4 0.05
100 1 0.01
101 40 0.50
102 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (96 bp):
ACAAACCTTATCTCCCTAAAGTTGCAGTGGAGTACGAAGAAGCTACCAATCTTATCTCCCTAAGG
TTGCAGTGGAACAAATTAAAGCTATCAAAGT
Found at i:54670064 original size:51 final size:51
Alignment explanation
Indices: 54669988--54670084 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
54669978 GAGCAGATTG
* *
54669988 AAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGAC
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGAC
* * *
54670039 AAGTTGCAAATCTTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAA
1 AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAA
54670085 ACGATAAATC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (51 bp):
AAGTTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGAC
Found at i:54670092 original size:139 final size:134
Alignment explanation
Indices: 54669827--54670094 Score: 362
Period size: 133 Copynumber: 2.0 Consensus size: 134
54669817 AAACCTTATC
* *
54669827 TCCTTGAAGTTGCGATAGGAGCAGGTTGAAGTTATAGATCTTATCTCCCTGAAGTTGCAATGGAG
1 TCCTTGAAGTTGCGATAGGAGCAGATTGAAGTTAAAGATCTTATCTCCCTGAAGTTGCAATGGAG
* * *
54669892 TAGATCAAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAACTATAAATCC
66 CAGATCAAAGATAGCAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACGATAAATCC
54669957 TATT
131 TATT
*
54669961 TCCTTGAAGTTGC-AGT-GGAGCAGATTGAAGTTACAAG-TCTTATCTCCCTGAAGTTGCAGTGG
1 TCCTTGAAGTTGCGA-TAGGAGCAGATTGAAGTTA-AAGATCTTATCTCCCTGAAGTTGCAATGG
* * *
54670023 AGCAGATTAAAGCGACAAGTTGCAAATCTTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAACG
64 AGCAGATCAAA--G---A-TAGCAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACG
54670088 ATAAATC
123 ATAAATC
54670095 TTATACCTTT
Statistics
Matches: 117, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
133 50 0.43
134 16 0.14
135 1 0.01
138 1 0.01
139 49 0.42
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (134 bp):
TCCTTGAAGTTGCGATAGGAGCAGATTGAAGTTAAAGATCTTATCTCCCTGAAGTTGCAATGGAG
CAGATCAAAGATAGCAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACGATAAATCC
TATT
Found at i:54670107 original size:139 final size:134
Alignment explanation
Indices: 54669828--54670110 Score: 358
Period size: 139 Copynumber: 2.1 Consensus size: 134
54669818 AACCTTATCT
* * *
54669828 CCTTGAAGTTGCGATAGGAGCAGGTTGAAGTTATAGATCTTATCTCCCTGAAGTTGCAATGGAGT
1 CCTTGAAGTTGCGATAGGAGCAGATTGAAGTTAAAGATCTTATCTCCCTGAAGTTGCAATGGAGC
* *
54669893 AGATCAAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTAAAACTATAAATCCT
66 AGATCAAAGATAGCAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACGATAAATCCT
*
54669958 ATTT
131 ATTA
*
54669962 CCTTGAAGTTGC-AGT-GGAGCAGATTGAAGTTACAAG-TCTTATCTCCCTGAAGTTGCAGTGGA
1 CCTTGAAGTTGCGA-TAGGAGCAGATTGAAGTTA-AAGATCTTATCTCCCTGAAGTTGCAATGGA
* * *
54670024 GCAGATTAAAGCGACAAGTTGCAAATCTTATCTCCCTGAAGTTGTAGTAGAGCGGATTAAAACGA
64 GCAGATCAAA--G---A-TAGCAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACGA
*
54670089 TAAATCTTA-TA
123 TAAATCCTATTA
54670100 CCTTTGAAGTT
1 CC-TTGAAGTT
54670111 ACAAGTAGGT
Statistics
Matches: 129, Mismatches: 11, Indels: 13
0.84 0.07 0.08
Matches are distributed among these distances:
133 50 0.39
134 15 0.12
135 1 0.01
138 4 0.03
139 59 0.46
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (134 bp):
CCTTGAAGTTGCGATAGGAGCAGATTGAAGTTAAAGATCTTATCTCCCTGAAGTTGCAATGGAGC
AGATCAAAGATAGCAAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACGATAAATCCT
ATTA
Found at i:54672078 original size:17 final size:16
Alignment explanation
Indices: 54672052--54672083 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
54672042 GTCTTATTGT
54672052 TTTTTATATTTTTATA
1 TTTTTATATTTTTATA
54672068 TTTTTATTATTTTTAT
1 TTTTTA-TATTTTTAT
54672084 TTAGTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTATATTTTTATA
Found at i:54672084 original size:9 final size:8
Alignment explanation
Indices: 54672052--54672083 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
54672042 GTCTTATTGT
54672052 TTTTTATA
1 TTTTTATA
54672060 TTTTTATA
1 TTTTTATA
54672068 TTTTTATTA
1 TTTTTA-TA
54672077 TTTTTAT
1 TTTTTAT
54672084 TTAGTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTATA
Found at i:54676032 original size:40 final size:40
Alignment explanation
Indices: 54675980--54676251 Score: 454
Period size: 40 Copynumber: 6.8 Consensus size: 40
54675970 ATAACCACAA
* * * *
54675980 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
54676020 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
54676060 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
54676100 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATA--TCAACTC
54676142 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
54676182 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
54676222 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
54676252 GTATTCAAAT
Statistics
Matches: 219, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
40 179 0.82
42 40 0.18
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:54676171 original size:122 final size:122
Alignment explanation
Indices: 54675980--54676259 Score: 467
Period size: 122 Copynumber: 2.3 Consensus size: 122
54675970 ATAACCACAA
* * * *
54675980 GCACAATTGCCTTCGGGTCTTAACCCGGGTATA-G-CAACTCGCACGAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
* *
54676043 CCCGGATATATCAACTTGCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
54676100 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
*
54676165 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
66 CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
54676222 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAT-TCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAA
54676260 ATGCTCATGC
Statistics
Matches: 150, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
120 30 0.20
121 5 0.03
122 115 0.77
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (122 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATGTCAACTCGCACAAATGCCTTCGGGTCTTAG
CCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:54679984 original size:3 final size:3
Alignment explanation
Indices: 54679976--54680001 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
54679966 ATCACATGTT
54679976 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
54680002 TGGATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:54680121 original size:73 final size:73
Alignment explanation
Indices: 54680002--54680260 Score: 509
Period size: 73 Copynumber: 3.5 Consensus size: 73
54679992 TATTATTATT
*
54680002 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
54680067 ATTTTAAG
66 ATTTTAAG
54680075 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
54680140 ATTTTAAG
66 ATTTTAAG
54680148 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
54680213 ATTTTAAG
66 ATTTTAAG
54680221 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
54680261 GTCAAGTTGT
Statistics
Matches: 185, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 185 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:54684485 original size:3 final size:3
Alignment explanation
Indices: 54684477--54684508 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
54684467 ATCACATGTT
54684477 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
54684509 TGGATGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:54684628 original size:73 final size:73
Alignment explanation
Indices: 54684509--54684767 Score: 509
Period size: 73 Copynumber: 3.5 Consensus size: 73
54684499 TATTATTATT
*
54684509 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
54684574 ATTTTAAG
66 ATTTTAAG
54684582 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
54684647 ATTTTAAG
66 ATTTTAAG
54684655 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
54684720 ATTTTAAG
66 ATTTTAAG
54684728 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
54684768 GTCAAGTTGT
Statistics
Matches: 185, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 185 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:54687487 original size:29 final size:29
Alignment explanation
Indices: 54687400--54687516 Score: 112
Period size: 29 Copynumber: 4.1 Consensus size: 29
54687390 ACCCCTACAT
* *
54687400 ACATGCATATGGCCCA-CTTGGCCC-AATC
1 ACATTCATATGGCCCATC-AGGCCCAAATC
* * * * *
54687428 TCATTTATATGGCCCATCAGGTCGAATTC
1 ACATTCATATGGCCCATCAGGCCCAAATC
54687457 ACATTCATATGGCCCATCAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
* * * *
54687486 ACCTTTATATGGCCCGTTAGGCCCAAATC
1 ACATTCATATGGCCCATCAGGCCCAAATC
54687515 AC
1 AC
54687517 CTTATATTCA
Statistics
Matches: 71, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
28 16 0.23
29 55 0.77
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATCAGGCCCAAATC
Found at i:54689758 original size:37 final size:37
Alignment explanation
Indices: 54689712--54689786 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
54689702 CAATAATAAA
*
54689712 AAAGAAAACTTAAATAAATGAAATAAATAAGACGTTG
1 AAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
54689749 AAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
1 AAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
54689786 A
1 A
54689787 CATGATGATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.61, C:0.05, G:0.12, T:0.21
Consensus pattern (37 bp):
AAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
Found at i:54689796 original size:3 final size:3
Alignment explanation
Indices: 54689788--54689824 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
54689778 AGACATTGAC
54689788 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
54689825 CAATAATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:54690543 original size:21 final size:20
Alignment explanation
Indices: 54690494--54690554 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
54690484 GCCAAATTTT
*
54690494 TTTTTTTTACAAAATCAAAA
1 TTTTTTTTAAAAAATCAAAA
* *
54690514 TTTTCTTTTAAAAAATCACTAC
1 TTTT-TTTTAAAAAATCA-AAA
*
54690536 TTTTTTTT-ATAAATCAAAA
1 TTTTTTTTAAAAAATCAAAA
54690555 CTTTATATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.03
20 11 0.33
21 16 0.48
22 5 0.15
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTTTTTTAAAAAATCAAAA
Found at i:54690557 original size:20 final size:20
Alignment explanation
Indices: 54690494--54690558 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
54690484 GCCAAATTTT
54690494 TTTTTTTTACAAAATCAAAA-
1 TTTTTTTTA-AAAATCAAAAC
**
54690514 TTTTCTTTTAAAAAATCACTAC
1 TTTT-TTTT-AAAAATCAAAAC
*
54690536 TTTTTTTTATAAATCAAAAC
1 TTTTTTTTAAAAATCAAAAC
54690556 TTT
1 TTT
54690559 ATATCAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
20 16 0.43
21 16 0.43
22 5 0.14
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTTTTTAAAAATCAAAAC
Found at i:54690820 original size:146 final size:145
Alignment explanation
Indices: 54690492--54690834 Score: 376
Period size: 146 Copynumber: 2.4 Consensus size: 145
54690482 TGGCCAAATT
* * * * *
54690492 TTTTTTTTTTACAAAATCAAAA-TTT-TC---TTTTAAAAAATCACTACTTTTTTTTATAAATCA
1 TTTTTATTTTA-AAAATCAAAACTTTCTCTTTTTTTAAAAAATCAATACTTTTTCTGAAAAATCA
* * *
54690552 AAACTTTATATCAAAATAGTTGAAAAAGATCTAAACTTTATTTTAAAAAATTTGAACTTTTCCTT
65 AAACTTTATATCAAAATAGTTGAAAAAGATCAAAACTTTATTTTAAAAAATTTAAACATTTCCTT
*
54690617 TAGACCAAATAACATA
130 TAGACCAAAAAACATA
*
54690633 TTTTTATTTTAATAATCAAAACTTTCTCTTTTTTTAAAAAAAATCAATA-TTTTTCTGAAAAATC
1 TTTTTATTTTAAAAATCAAAACTTTCTCTTTTTTT--AAAAAATCAATACTTTTTCTGAAAAATC
* * * * *
54690697 AAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAATTTTGTTTT-AAGAATTTAAACATTTCCT
64 AAAACTTTATATCAAAATAGTTGAAAAAGATCAAAACTTTATTTTAAAAAATTTAAACATTTCC-
** *
54690761 TTAATATGATTAAAAAATATA
128 TT--TA-GACCAAAAAACATA
* * *
54690782 TTTTTATTTTAAAAATCTAAACTTTCTCTTTTTTAAAAAAAATCAAAACTTTT
1 TTTTTATTTTAAAAATCAAAACTTTCTCTTTTTT-TAAAAAATCAATACTTTT
54690835 CCCAAGATCA
Statistics
Matches: 167, Mismatches: 22, Indels: 18
0.81 0.11 0.09
Matches are distributed among these distances:
140 9 0.05
141 13 0.08
142 2 0.01
145 19 0.11
146 54 0.32
147 11 0.07
148 13 0.08
149 46 0.28
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (145 bp):
TTTTTATTTTAAAAATCAAAACTTTCTCTTTTTTTAAAAAATCAATACTTTTTCTGAAAAATCAA
AACTTTATATCAAAATAGTTGAAAAAGATCAAAACTTTATTTTAAAAAATTTAAACATTTCCTTT
AGACCAAAAAACATA
Found at i:54691161 original size:22 final size:22
Alignment explanation
Indices: 54691128--54691175 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
54691118 TAATCTTATT
*
54691128 TATTTATAAAAAAGATAATAATAA
1 TATTTA-AAAATA-ATAATAATAA
54691152 TATTTAAAAATAATAATAATAA
1 TATTTAAAAATAATAATAATAA
54691174 TA
1 TA
54691176 AAATAATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.52
23 5 0.22
24 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TATTTAAAAATAATAATAATAA
Done.