Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1874
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: 73753
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:6059 original size:13 final size:13
Alignment explanation
Indices: 6041--6066 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6031 CAACTTTATG
6041 TGTATCGATACAT
1 TGTATCGATACAT
6054 TGTATCGATACAT
1 TGTATCGATACAT
6067 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8615 original size:33 final size:33
Alignment explanation
Indices: 8577--8642 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
8567 AAATTCCCAG
* *
8577 ATGTATTGATACAAAGATTAATGTATAGATACA
1 ATGTATCGATACAAAGAGTAATGTATAGATACA
** *
8610 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATAGATACA
8643 TTTCCTTGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATAGATACA
Found at i:8701 original size:19 final size:20
Alignment explanation
Indices: 8674--8726 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
8664 AGCGATACAT
*
8674 TGTAACGATACAATACT-TA
1 TGTATCGATACAATACTATA
* * *
8693 TGTATCGATATATTTACTATT
1 TGTATCGATACA-ATACTATA
8714 TGTATCGATACAA
1 TGTATCGATACAA
8727 ATTGTTGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 10 0.38
20 4 0.15
21 12 0.46
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTATA
Found at i:9612 original size:49 final size:49
Alignment explanation
Indices: 9489--9936 Score: 330
Period size: 49 Copynumber: 9.2 Consensus size: 49
9479 TAGACTTGAA
* ** * * *
9489 GAAGAATGCTAATGTGCTGAGACAAGGCCACCAACATTGGGCTTAGAA-AT
1 GAAG-ATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTA-AAGAT
* * * *
9539 GTTAAAGATGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTAAAAAT
1 G---AAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAT
* * *
9591 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAC
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAT
* * * *
9640 GTAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAT
** * *
9683 ----ATGCCAATGTGCTGATTCAAGGCCAATGATATTGGTCTTAAAGAC
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAT
* * *
9728 GAAG-TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAT
* * * *
9776 GACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGAT
1 G---AAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAT
* * * * * * * * *
9828 GAAGGTGCCAATGTGCTAATTTAAGGCCAACAACATTTGACTTAAAGGT
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAT
* * * *
9877 GACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--AGAA
1 G---AAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAT
9927 GAAGATGCCA
1 GAAGATGCCA
9937 CCAACTTATG
Statistics
Matches: 319, Mismatches: 58, Indels: 45
0.76 0.14 0.11
Matches are distributed among these distances:
39 31 0.10
40 1 0.00
47 8 0.03
48 40 0.13
49 117 0.37
50 4 0.01
51 5 0.02
52 110 0.34
53 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
GAAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGAT
Found at i:9804 original size:52 final size:52
Alignment explanation
Indices: 9684--9928 Score: 288
Period size: 52 Copynumber: 4.8 Consensus size: 52
9674 ATTGGGCTTA
** * *
9684 TGCCAATGTGCTGATTCAAGGCCAATGATATTGGTCTT-AA-A-GACGAA-G
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGG
* *
9732 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGG
* *
9784 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATG---AAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGG
* * * * * * *
9833 TGCCAATGTGCTAATTTAAGGCCAACAACATTTGACTTAAAGGTGACAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGG
*
9885 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
9929 AGATGCCACC
Statistics
Matches: 163, Mismatches: 26, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
48 33 0.20
49 43 0.26
50 1 0.01
51 5 0.03
52 78 0.48
53 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGG
Found at i:9883 original size:101 final size:100
Alignment explanation
Indices: 9684--9928 Score: 355
Period size: 101 Copynumber: 2.4 Consensus size: 100
9674 ATTGGGCTTA
* ** * * *
9684 TGCCAATGTGCTGATTCAAGGCCAATGATATTGGTCTTAAAGACGAAGTGCTAATGTGCTGATTC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACGAAGTGCCAATGTGCTAATTC
* *
9749 AAGGCCAGCGACATTGGACTTAAAGATGACAAAGG
66 AAGGCCAACAACATTGGACTTAAAGATGACAAAGG
* *
9784 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGCTAATT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACGAA-GTGCCAATGTGCTAATT
* * *
9849 TAAGGCCAACAACATTTGACTTAAAGGTGACAAAGG
65 CAAGGCCAACAACATTGGACTTAAAGATGACAAAGG
9885 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
9929 AGATGCCACC
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
100 41 0.32
101 84 0.65
102 4 0.03
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (100 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGACGAAGTGCCAATGTGCTAATTC
AAGGCCAACAACATTGGACTTAAAGATGACAAAGG
Found at i:10068 original size:29 final size:29
Alignment explanation
Indices: 9945--10271 Score: 297
Period size: 29 Copynumber: 11.5 Consensus size: 29
9935 CACCAACTTA
* ** *
9945 TGTGGGCTTTTGAAAGGGTTG-CACCAAAT
1 TGTGGGCTTTTGAAAAGG-TGCCACTGACT
*
9974 TGTGTGCTTTTG--AAGGTTGCCACT-ACCT
1 TGTGGGCTTTTGAAAAGG-TGCCACTGA-CT
*
10002 TGTGGGC-TTTG--AAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAAGG-TGCCACTGACT
* *
10029 TGTGGAC-TTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTTGAAAAGGTGCCACTGACT
10057 TGTGGGCTTTTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGG-TGCCACTGACT
10085 TGTGGGC-TTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTGCCACTGACT
*
10113 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTGCCACTGACT
* * *
10142 TGTGTGC-TTTGACAAGGGTGCCACTAACT
1 TGTGGGCTTTTGA-AAAGGTGCCACTGACT
** * *
10171 TGTGGGC-TTTGAAGGGGGTGCCACCGATT
1 TGTGGGCTTTTGAA-AAGGTGCCACTGACT
* *
10200 TATGGGCTTCTG--AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGG-TGCCACTGACT
*
10228 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTGCCACTGACT
*
10257 TGTGGGCTTTGGAAA
1 TGTGGGCTTTTGAAA
10272 GTGAGGAAAG
Statistics
Matches: 254, Mismatches: 28, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
27 45 0.18
28 88 0.35
29 115 0.45
30 6 0.02
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAAGGTGCCACTGACT
Found at i:10182 original size:57 final size:57
Alignment explanation
Indices: 9945--10272 Score: 337
Period size: 57 Copynumber: 5.8 Consensus size: 57
9935 CACCAACTTA
* ** * * * *
9945 TGTGGGCTTTTGAAAGGGTTG-CACCAAATTGTGTGCTTTTG-AAGGTTGCCACTACCT
1 TGTGGGCTTTTGAAA-GGATGCCACTGACTTGTGGGC-TTTGAAAGGGTGCCACTAACT
* * * *
10002 TGTGGGC-TTTG-AAGGTTGCCACTAACTTGTGGACTTTGAAAAGGTGCCACTAACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
10057 TGTGGGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* *
10113 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGTGCTTTGACAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGA-AAGGGTGCCACTAACT
* * * * * * *
10171 TGTGGGC-TTTGAAGGGGGTGCCACCGATTTATGGGCTTCTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAA-AGGATGCCACTGACTTGTGGGCTT-TGAAAGGGTGCCACTAACT
*
10228 TGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAG
1 TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTT-GAAAG
10273 TGAGGAAAGT
Statistics
Matches: 231, Mismatches: 30, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
54 9 0.04
55 33 0.14
56 62 0.27
57 78 0.34
58 47 0.20
59 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (57 bp):
TGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
Found at i:10231 original size:115 final size:111
Alignment explanation
Indices: 9945--10272 Score: 380
Period size: 115 Copynumber: 2.9 Consensus size: 111
9935 CACCAACTTA
* * * *
9945 TGTGGGCTTTTGAAAGGGTTG-CACCAAATTGTGTGCTTTTGAAGGTTGCCACT-ACCTTGTGGG
1 TGTGGGCTTTTG-AAGGG-TGCCACCGACTTATGGGC-TTTGAAGGTTGCCACTGA-CTTGTGGG
* * *
10008 C-TTTG-AAGGTTGCCACTAACTTGTGGACTTTGAAAAGGTGCCACTAACT
62 CTTTTGAAAAGATGCCACTGACTTGTGG-CTTTGAAAAGGTGCCACTAACT
* * *
10057 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCT
1 TGTGGGCTTTTGAAGGGTGCCACCGACTTATGGGCTTTG--AAGGTTGCCACTGACTTGTGGGCT
*
10121 TTTGAAAAGATGCCACTGACTTGTGTGCTTTGACAAGGGTGCCACTAACT
64 TTTGAAAAGATGCCACTGACTTGTG-GCTTTGA-AAAGGTGCCACTAACT
*
10171 TGTGGGC-TTTGAAGGGGGTGCCACCGATTTATGGGCTTCTGAAGGTTGCCACTGACTTGTGGGC
1 TGTGGGCTTTTGAA--GGGTGCCACCGACTTATGGGCTT-TGAAGGTTGCCACTGACTTGTGGGC
*
10235 TTTTGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAG
63 TTTTGAAAAGATGCCACTGACTTGT-GGCTTTGAAAAG
10273 TGAGGAAAGT
Statistics
Matches: 188, Mismatches: 15, Indels: 24
0.83 0.07 0.11
Matches are distributed among these distances:
110 6 0.03
111 31 0.16
112 21 0.11
113 29 0.15
114 30 0.16
115 68 0.36
116 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (111 bp):
TGTGGGCTTTTGAAGGGTGCCACCGACTTATGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTT
TGAAAAGATGCCACTGACTTGTGGCTTTGAAAAGGTGCCACTAACT
Found at i:11821 original size:51 final size:51
Alignment explanation
Indices: 11751--12027 Score: 247
Period size: 51 Copynumber: 5.3 Consensus size: 51
11741 TGAAAATAAT
*
11751 GGGGTT-AGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGA-AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* * *
11802 GGGGTTGAAGTATCTCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCT
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* *** * *** * * ***
11853 GGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAT-AA--C
1 GGGGTTGAAGTATCCC--CGATTGTGA--GAAAT-CAATAT--TTTA-GAAATAAAGCC
* *
11909 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
*
11960 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* *
12011 AGGGTTGGAGTATCCCC
1 GGGGTTGAAGTATCCCC
12028 AAAATAACGG
Statistics
Matches: 176, Mismatches: 38, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
48 5 0.03
49 2 0.01
51 127 0.72
52 3 0.02
53 5 0.03
54 5 0.03
55 2 0.01
56 20 0.11
58 2 0.01
59 5 0.03
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.27
Consensus pattern (51 bp):
GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:11928 original size:28 final size:27
Alignment explanation
Indices: 11853--11928 Score: 118
Period size: 28 Copynumber: 2.7 Consensus size: 27
11843 AAATAAAGCT
11853 GGGGTTGGAGTATCCCTTCGA-AAATAAC
1 GGGGTTGGAGTATCCC--CGATAAATAAC
11881 GGGGTTGGAGTATCCCCGATGAAATAAC
1 GGGGTTGGAGTATCCCCGAT-AAATAAC
11909 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
11929 TGTGAGAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
26 3 0.07
28 43 0.93
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATAAATAAC
Found at i:12016 original size:158 final size:155
Alignment explanation
Indices: 11722--12093 Score: 611
Period size: 158 Copynumber: 2.4 Consensus size: 155
11712 AAAATAAAAT
* * *
11722 CGGGATTGGAGTATCCCCG-TGAAAATAATGGGGTTAGAGTATCCCCGATTGTGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCGATG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
*
11786 TTTTAGAAATAAGGCCGGGGTTGAAGTATCTCCGATTGTGAGAAATCAATATTTTGGAAATAAAG
65 TTTTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAG
**
11851 CTGGGGTTGGAGTATCCCTTCGAAAATAA
130 CCAGGGTTGGAGTATCCC--C-AAAATAA
11880 CGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
11945 TTTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGC
66 TTTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGC
12010 CAGGGTTGGAGTATCCCCAAAATAA
131 CAGGGTTGGAGTATCCCCAAAATAA
**
12035 CGGGGTTGGAGTATCCCCGATGAAATAATCGAAGTTGGAGTATCCCCGATTGTAGAGAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA-CGGGGTTGGAGTATCCCCGATTGT-GAGAA
12094 TTGGTGTTTT
Statistics
Matches: 203, Mismatches: 8, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
155 35 0.17
156 23 0.11
157 5 0.02
158 138 0.68
159 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (155 bp):
CGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
TTTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGC
CAGGGTTGGAGTATCCCCAAAATAA
Found at i:12042 original size:25 final size:28
Alignment explanation
Indices: 12012--12083 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
12002 AATAAAGCCA
12012 GGGTTGGAGTATCCCC-A-AAATAA-CG
1 GGGTTGGAGTATCCCCGAGAAATAATCG
12037 GGGTTGGAGTATCCCCGATGAAATAATCG
1 GGGTTGGAGTATCCCCGA-GAAATAATCG
**
12066 AAGTTGGAGTATCCCCGA
1 GGGTTGGAGTATCCCCGA
12084 TTGTAGAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 16 0.39
26 1 0.02
28 6 0.15
29 18 0.44
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.22
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGAGAAATAATCG
Found at i:12109 original size:105 final size:106
Alignment explanation
Indices: 11963--12163 Score: 244
Period size: 105 Copynumber: 1.9 Consensus size: 106
11953 TAAGGCCGGG
* *
11963 GTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCAGGGTTGGAGTATCCCC
1 GTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
*
12028 -AAAATAACGGGGTTGGAGTATCCCCGATGAAATAATCGAA
66 TAAAATAACGGGATTGGAGTATCCCCGATGAAATAATCGAA
* *** * ***
12068 GTTGGAGTATCCCCGATTGT-AGAGAATTGGTGTTTTAGAAATAAAATTGGGGTTGGAGTATCCC
1 GTTGAAGTATCCCCGATTGTGAGA-AATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCC
* *
12132 CTTGGAAATAACGGGATTGGAGTATTCCCGAT
65 C-T-AAAATAACGGGATTGGAGTATCCCCGAT
12164 TATGAAAAAT
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
104 3 0.04
105 51 0.65
108 25 0.32
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (106 bp):
GTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAACCAGGGTTGGAGTATCCCC
TAAAATAACGGGATTGGAGTATCCCCGATGAAATAATCGAA
Found at i:12181 original size:79 final size:78
Alignment explanation
Indices: 12035--12445 Score: 413
Period size: 79 Copynumber: 5.2 Consensus size: 78
12025 CCCAAAATAA
* * * * *
12035 CGGGGTTGGAGTATCCCCGAT-GAAATAATCGAAGTTGGAGTATCCCCGATTGT-AGAGAATTGG
1 CGGGGTTGGAGTATCCCC-TTGGAAATAA-CG-GGTTGGAGTATCCCCGATTATGA-AAAATTGA
*
12098 TGTTTTAGAAATAAAAT
62 TGTTTTAGAAATAAAAC
* *
12115 TGGGGTTGGAGTATCCCCTTGGAAATAACGGGATTGGAGTATTCCCGATTATGAAAAATTGATGT
1 CGGGGTTGGAGTATCCCCTTGGAAATAACGGG-TTGGAGTATCCCCGATTATGAAAAATTGATGT
12180 TTTAGAAATAAAAC
65 TTTAGAAATAAAAC
* * * * * **
12194 TGTGGTTGGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATTAACAT
1 CGGGGTTGGAGTATCCCCTTGGAAATAAC-GGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
* *
12259 TTTGGAAATAAAGC
65 TTTAGAAATAAAAC
* *
12273 CGGGGTTGGAGTAT-CCCTTCGGAAATAACAGGGCTAGAGTATCCCCG---ATGAAAAATTGATG
1 CGGGGTTGGAGTATCCCCTT-GGAAATAAC-GGGTTGGAGTATCCCCGATTATGAAAAATTGATG
*
12334 TTTTAGAAATATAAC
64 TTTTAGAAATAAAAC
* * * * * * *
12349 CAGGGTTGGAGTGTCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTGTG-AAAAGTCAGTG
1 CGGGGTTGGAGTATCCCCTTGGAAATAAC-GGGTTGGAGTATCCCCGATTATGAAAAATTGA-TG
* *
12413 TTTTGGAAATAAAAT
64 TTTTAGAAATAAAAC
*
12428 CGGAGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
12446 GATTATGGAA
Statistics
Matches: 276, Mismatches: 45, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
76 57 0.21
77 4 0.01
78 12 0.04
79 175 0.63
80 28 0.10
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTTGGAAATAACGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
TTAGAAATAAAAC
Found at i:12394 original size:155 final size:155
Alignment explanation
Indices: 12100--12444 Score: 410
Period size: 155 Copynumber: 2.2 Consensus size: 155
12090 AGAATTGGTG
* ** * * *
12100 TTTTAGAAATAAAATTGGGGTTGGAGTATCCCCTTGGAAATAACGGGATTGGAGTATTCCCGATT
1 TTTTGGAAATAAAACCGGGGTTGGAGTAT-CCCTTGGAAATAACGGGACTAGAGTATCCCCG--T
* *
12165 ATGAAAAATTGATGTTTTAGAAATAAAACTGTGGTTGGAGTATCCCCTTGAAAATAACAGGGTTG
63 ATGAAAAATTGATGTTTTAGAAATAAAACAGTGGTTGGAGTATCCCCTCGAAAATAACAGGGTTG
* *
12230 GAGTATCCCCGATTATGAGAAA-TTAACA
128 GAGTATCCCCAATTATGA-AAAGTCAACA
*
12258 TTTTGGAAATAAAGCCGGGGTTGGAGTATCCCTTCGGAAATAACAGGG-CTAGAGTATCCCCG-A
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCCTT-GGAAATAAC-GGGACTAGAGTATCCCCGTA
* * * *
12321 TGAAAAATTGATGTTTTAGAAATATAACCAG-GGTTGGAGTGTCCCCTCGGAAATAACGGGGTTG
64 TGAAAAATTGATGTTTTAGAAATA-AAACAGTGGTTGGAGTATCCCCTCGAAAATAACAGGGTTG
* ***
12385 GAGTATCCCCAATTGTGAAAAGTCAGTG
128 GAGTATCCCCAATTATGAAAAGTCAACA
* *
12413 TTTTGGAAATAAAATCGGAGTTGGAGTATCCC
1 TTTTGGAAATAAAACCGGGGTTGGAGTATCCC
12445 CGATTATGGA
Statistics
Matches: 161, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
154 3 0.02
155 101 0.63
156 4 0.02
157 5 0.03
158 45 0.28
159 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (155 bp):
TTTTGGAAATAAAACCGGGGTTGGAGTATCCCTTGGAAATAACGGGACTAGAGTATCCCCGTATG
AAAAATTGATGTTTTAGAAATAAAACAGTGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAG
TATCCCCAATTATGAAAAGTCAACA
Found at i:12509 original size:51 final size:51
Alignment explanation
Indices: 12381--12560 Score: 202
Period size: 51 Copynumber: 3.5 Consensus size: 51
12371 AAATAACGGG
* * * *
12381 GTTGGAGTATCCCCAATTGTGAAAAGTCAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
* * *
12432 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
* * * * * *
12483 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTCTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
* *
12533 GATTAGAGTATCCCCGA-GATGAAAAATC
1 G-TTGGAGTATCCCCGATTATGAAAAATC
12561 TAGAAATTTA
Statistics
Matches: 109, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
50 9 0.08
51 100 0.92
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATCGGTGTTTTGGAAATAAAATCGGA
Found at i:13140 original size:19 final size:19
Alignment explanation
Indices: 13079--13140 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
13069 AATCGATACA
13079 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ACTGT
* *
13098 ATGTATCGATACAGTTACTGT
1 TTGTATCGATACA--AACTGT
*
13119 TTGTATCGATACAAATTGT
1 TTGTATCGATACAAACTGT
13138 TTG
1 TTG
13141 AAATTTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 19 0.54
20 3 0.09
21 13 0.37
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (19 bp):
TTGTATCGATACAAACTGT
Found at i:14439 original size:13 final size:13
Alignment explanation
Indices: 14417--14462 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
14407 ATCCGGACCC
14417 TTTTTGTTGTTGTT
1 TTTTTGTTGTT-TT
14431 TTTTT-TTG-TTT
1 TTTTTGTTGTTTT
14442 TTTTTGTTTGTTTT
1 TTTTTG-TTGTTTT
14456 TTTTTGT
1 TTTTTGT
14463 CTCTCTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 7 0.24
12 1 0.03
13 7 0.24
14 14 0.48
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TTTTTGTTGTTTT
Found at i:14452 original size:23 final size:22
Alignment explanation
Indices: 14417--14462 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
14407 ATCCGGACCC
14417 TTTTTGTTGTTGTTTTTTTTTG
1 TTTTTGTTGTTGTTTTTTTTTG
*
14439 TTTTTTTTGTTTGTTTTTTTTTG
1 TTTTTGTTG-TTGTTTTTTTTTG
14462 T
1 T
14463 CTCTCTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (22 bp):
TTTTTGTTGTTGTTTTTTTTTG
Found at i:14862 original size:13 final size:13
Alignment explanation
Indices: 14840--14896 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
14830 CATAAAGTGT
*
14840 TGTATTGATACAA
1 TGTATCGATACAA
14853 TGTATCGATACATAA
1 TGTATCGATAC--AA
14868 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
14885 TGTATCGATACA
1 TGTATCGATACA
14897 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:14875 original size:32 final size:32
Alignment explanation
Indices: 14820--14917 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
14810 TTCAACGATT
*
14820 TGTATCGATACATAAAGTGTTGTATTGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
14853 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
14885 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
14917 T
1 T
14918 TTAAGCTACT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 50 0.79
33 13 0.21
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:14877 original size:19 final size:18
Alignment explanation
Indices: 14818--14915 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
14808 ATTTCAACGA
14818 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
*
14837 TGTTGTATTGATAC--AA-
1 T-TTGTATCGATACATAAG
14853 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
14869 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
14885 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
14901 TTTTGTATCGATACA
1 -TTTGTATCGATACA
14916 ATTTAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 24 0.38
20 11 0.17
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:14976 original size:13 final size:13
Alignment explanation
Indices: 14958--14982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14948 ATTACTCAAA
14958 TGTATCGATACAT
1 TGTATCGATACAT
14971 TGTATCGATACA
1 TGTATCGATACA
14983 CTGATCTTTG
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):
TGTATCGATACAT
Found at i:15034 original size:52 final size:50
Alignment explanation
Indices: 14971--15115 Score: 200
Period size: 52 Copynumber: 2.8 Consensus size: 50
14961 ATCGATACAT
*
14971 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* * *
15023 TGTATCGATACATTATAAAATGTATCGATACATGCAGGTAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
15075 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAA
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAA
15116 CTTTTCATAT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:32046 original size:20 final size:19
Alignment explanation
Indices: 32021--32088 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 19
32011 ATTTGTGTGC
32021 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTG-ATA
32041 ATGTATCGATAC------A
1 ATGTATCGATACATTGATA
32054 ATGTATCGATACATTGAGTA
1 ATGTATCGATACATTGA-TA
*
32074 ATTTATCGATACATT
1 ATGTATCGATACATT
32089 TCCTTGGTAG
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 13 0.32
20 27 0.68
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGTATCGATACATTGATA
Found at i:32058 original size:13 final size:13
Alignment explanation
Indices: 32040--32066 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
32030 TACATTGAAT
32040 AATGTATCGATAC
1 AATGTATCGATAC
32053 AATGTATCGATAC
1 AATGTATCGATAC
32066 A
1 A
32067 TTGAGTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:32058 original size:33 final size:33
Alignment explanation
Indices: 32021--32086 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
32011 ATTTGTGTGC
32021 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACATTGAATAATGTATCGATACA
* *
32054 ATGTATCGATACATTGAGTAATTTATCGATACA
1 ATGTATCGATACATTGAATAATGTATCGATACA
32087 TTTCCTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (33 bp):
ATGTATCGATACATTGAATAATGTATCGATACA
Found at i:37732 original size:13 final size:13
Alignment explanation
Indices: 37714--37738 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37704 ATTACTCAAA
37714 TGTATCGATACAT
1 TGTATCGATACAT
37727 TGTATCGATACA
1 TGTATCGATACA
37739 CTGATCTTTG
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):
TGTATCGATACAT
Found at i:39009 original size:49 final size:49
Alignment explanation
Indices: 38850--40178 Score: 1821
Period size: 49 Copynumber: 27.7 Consensus size: 49
38840 AAAAGGATGT
*
38850 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
38902 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
**
38945 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
38994 CAATATGCTGATTCAAGGCCAACGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
39037 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
39086 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
39129 CAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
39178 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
39227 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
39276 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
39325 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
39374 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
39423 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
39472 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
39521 TAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
39570 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
39613 TAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * **
39662 CAATGTGCTGAGTCAAGGCCAGCTACATTGGGCTTAAAGAAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
39711 CAATATGCTAATTCAAGGCCAACTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
39763 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
** *
39806 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
39855 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
39904 CAATGTGCTGAGTCAAGGCCAACTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
39953 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
40002 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
40051 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
40094 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
40143 CAATGTGCTGAGTCAAGGCCAGCTACATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
40179 GAAGGGTTGC
Statistics
Matches: 1151, Mismatches: 87, Indels: 81
0.87 0.07 0.06
Matches are distributed among these distances:
43 230 0.20
45 4 0.00
47 6 0.01
48 2 0.00
49 839 0.73
52 70 0.06
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:40254 original size:27 final size:27
Alignment explanation
Indices: 40220--40426 Score: 153
Period size: 27 Copynumber: 7.1 Consensus size: 27
40210 GAAGGAGAAA
40220 GGTGCCACGGAGTTGTGGGCTTAAAAG
1 GGTGCCACGGAGTTGTGGGCTTAAAAG
*
40247 GGTGCCACGGAGTTGTGGACTTAAAGATG
1 GGTGCCACGGAGTTGTGGGCTTAAA-A-G
*
40276 AAAAAAAGTGCCACGGAGTTGTGGGCTTAAAAG
1 ------GGTGCCACGGAGTTGTGGGCTTAAAAG
* * ** * * *
40309 GGTGCCACAGAGTTACTTAAAGATGAAAAA
1 GGTGCCACGGAGTT--GT-GGGCTTAAAAG
* *
40339 AGTGCCACGGAGGTGTGGGCTTAAAAG
1 GGTGCCACGGAGTTGTGGGCTTAAAAG
40366 GGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 GGTGCCACGGAGTTGTGGGC-TT-AAAAG
* *
40395 AAGGTGCCACGGAGTCGTGGACTTTAAAAG
1 --GGTGCCACGGAGTTGTGGGC-TTAAAAG
40425 GG
1 GG
40427 AAAAAGAGTG
Statistics
Matches: 141, Mismatches: 24, Indels: 29
0.73 0.12 0.15
Matches are distributed among these distances:
27 60 0.43
28 6 0.04
29 7 0.05
30 22 0.16
31 21 0.15
33 1 0.01
34 1 0.01
35 23 0.16
ACGTcount: A:0.29, C:0.14, G:0.36, T:0.21
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGGCTTAAAAG
Found at i:40365 original size:57 final size:59
Alignment explanation
Indices: 40221--40380 Score: 261
Period size: 57 Copynumber: 2.7 Consensus size: 59
40211 AAGGAGAAAG
40221 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAA
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAG-T-T-GACTTAAAGATGAAAAAAA
*
40283 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACAGAGTT-ACTTAAAGATG-AAAAAA
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGACTTAAAGATGAAAAAAA
*
40340 GTGCCACGGAGGTGTGGGCTTAAAAGGGTGCCACGGAGTTG
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTG
40381 TGGGCTTTGA
Statistics
Matches: 94, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
57 44 0.47
58 11 0.12
60 1 0.01
61 1 0.01
62 37 0.39
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.21
Consensus pattern (59 bp):
GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGACTTAAAGATGAAAAAAA
Found at i:40461 original size:37 final size:36
Alignment explanation
Indices: 40361--40631 Score: 311
Period size: 37 Copynumber: 7.9 Consensus size: 36
40351 GTGTGGGCTT
*
40361 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAA-G-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
* *
40395 --AAG-GTGCCACGGAGTCGTGGACTTT-AAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-GGA
40428 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-GGA
*
40465 AAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAG-
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
* *
40499 AAAA-AGTGCCACGGAGTGGTAGGCTTTGAAAAGGGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-GGA
*
40535 AAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAAGA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
40570 AAAAG-GTGCCACGGAGTTGTGGGCTTTG--AA-GA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
* * * *
40602 AAAGGA-TGCCACTGAGTCGTGGACTTTGAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
40632 GAAAAGGATG
Statistics
Matches: 207, Mismatches: 15, Indels: 30
0.82 0.06 0.12
Matches are distributed among these distances:
30 4 0.02
31 20 0.10
32 29 0.14
33 23 0.11
34 30 0.14
35 12 0.06
36 32 0.15
37 57 0.28
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (36 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
Found at i:40528 original size:70 final size:70
Alignment explanation
Indices: 40367--40599 Score: 343
Period size: 70 Copynumber: 3.4 Consensus size: 70
40357 GCTTAAAAGG
* * *
40367 GTGCCACGGAGTTGTGGGCTTTGAAAA--G---AAG-GTGCCACGGAGTCGTGGACTTTAAAAGG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-A
40426 GAAAAAGA
65 G-AAAA-A
40434 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
40499 AAAAA
66 AAAAA
* *
40504 GTGCCACGGAGTGGTAGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
40569 AAAAA
66 AAAAA
40574 GGTGCCACGGAGTTGTGGGCTTTGAA
1 -GTGCCACGGAGTTGTGGGCTTTGAA
40600 GAAAAGGATG
Statistics
Matches: 152, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
67 27 0.18
69 1 0.01
70 69 0.45
71 27 0.18
72 4 0.03
73 24 0.16
ACGTcount: A:0.32, C:0.12, G:0.36, T:0.20
Consensus pattern (70 bp):
GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
AAAAA
Found at i:40586 original size:104 final size:103
Alignment explanation
Indices: 40361--40669 Score: 373
Period size: 104 Copynumber: 3.0 Consensus size: 103
40351 GTGTGGGCTT
* * *
40361 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAGTGCCACGGAGTCGTGGACTTTAAAAGG
*
40426 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
66 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAG
*
40464 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGCCACGGAGTGGTAGG-CTTTGA
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG--AAAGTGCCACGGAGTCGT-GGACTTT-A
40528 AAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AG
61 AAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAG
* * * *
40569 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAA-AAGGATGCCACTGAGTCGTGGACTTT-GAA
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAGAAAG-TGCCACGGAGTCGTGGACTTTAAAA
* * * * *
40632 --GAAAAGGA-TGCCACTGAGTCGTGGACTTTGAGAAGAG
64 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAG
40669 A
1 A
40670 TTGCCACTGA
Statistics
Matches: 181, Mismatches: 15, Indels: 23
0.83 0.07 0.11
Matches are distributed among these distances:
98 18 0.10
99 10 0.06
100 3 0.02
101 2 0.01
102 5 0.03
103 21 0.12
104 49 0.27
105 11 0.06
106 24 0.13
107 38 0.21
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.20
Consensus pattern (103 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAGTGCCACGGAGTCGTGGACTTTAAAAGG
GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAG
Found at i:40612 original size:32 final size:32
Alignment explanation
Indices: 40361--40693 Score: 246
Period size: 32 Copynumber: 9.9 Consensus size: 32
40351 GTGTGGGCTT
*
40361 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAA-
1 AAAAGGATGCCACGGAGTTGTGGGCTTTGAAG
* * *
40392 AAGAAGG-TGCCACGGAGTCGTGGACTTTAAAAGGG
1 AA-AAGGATGCCACGGAGTTGTGGGCTTT-GAA--G
*
40427 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAGGA-TGCCACGGAGTTGTGGGCTTTG--AA--G
* *
40464 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAGGA-TGCCACGGAGTTGTGGGCTTT--GAAG
* * *
40499 AAAAAG-TGCCACGGAGTGGTAGGCTTTGAAAAGGG
1 AAAAGGATGCCACGGAGTTGTGGGCTTTG--AA--G
* *
40534 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAGGA-TGCCACGGAGTTGTGGGCTTT--GAAG
40569 AAAAAGG-TGCCACGGAGTTGTGGGCTTTGAAG
1 -AAAAGGATGCCACGGAGTTGTGGGCTTTGAAG
* * *
40601 AAAAGGATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGGATGCCACGGAGTTGTGGGCTTTGAAG
* * *
40633 AAAAGGATGCCACTGAGTCGTGGACTTTG-AG
1 AAAAGGATGCCACGGAGTTGTGGGCTTTGAAG
* * *
40664 AAGA-GATTGCCACTGAGTCGTGGGCTTTGA
1 AAAAGGA-TGCCACGGAGTTGTGGGCTTTGA
40694 GAAGAGATTT
Statistics
Matches: 258, Mismatches: 21, Indels: 45
0.80 0.06 0.14
Matches are distributed among these distances:
30 2 0.01
31 53 0.21
32 60 0.23
33 21 0.08
34 24 0.09
35 17 0.07
36 24 0.09
37 57 0.22
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (32 bp):
AAAAGGATGCCACGGAGTTGTGGGCTTTGAAG
Found at i:40683 original size:63 final size:63
Alignment explanation
Indices: 40361--40693 Score: 199
Period size: 70 Copynumber: 5.0 Consensus size: 63
40351 GTGTGGGCTT
* * * *
40361 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAA-AAGAAGG-TGCCACGGAGTCGTGGACTTTAAAA
1 AAAA-GGTGCCACGGAGTCGTGGACTTTGAAGAA-AAGGATGCCACTGAGTCGTGGACTTT-GAA
40424 GGG
63 --G
* * * * * *
40427 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 -AAAAG-GTGCCACGGAGTCGTGGACTTTG--AA--GAAAAGGA-TGCCACTGAGTCGTGGACTT
*
40492 TAAAAAG
59 T--GAAG
* * * * * *
40499 AAAAAGTGCCACGGAGTGGTAGG-CTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGTGCCACGGAGTCGT-GGACTTTG--AA--GAAAAGGA-TGCCACTGAGTCGTGGACTTT
*
40563 AAAAAG
60 --GAAG
* *
40569 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAG
1 -AAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAG
* * *
40633 AAAAGGATGCCACTGAGTCGTGGACTTTG-AGAAGA-GATTGCCACTGAGTCGTGGGCTTTGA
1 AAAAGG-TGCCACGGAGTCGTGGACTTTGAAGAAAAGGA-TGCCACTGAGTCGTGGACTTTGA
40694 GAAGAGATTT
Statistics
Matches: 235, Mismatches: 17, Indels: 32
0.83 0.06 0.11
Matches are distributed among these distances:
62 2 0.01
63 33 0.14
64 22 0.09
66 19 0.08
67 34 0.14
69 4 0.02
70 63 0.27
71 32 0.14
72 3 0.01
73 19 0.08
74 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (63 bp):
AAAAGGTGCCACGGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:42632 original size:13 final size:13
Alignment explanation
Indices: 42614--42648 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
42604 TATTCTTTGT
42614 ATCGATACATTAA
1 ATCGATACATTAA
**
42627 ATCGATACATTGT
1 ATCGATACATTAA
42640 ATCGATACA
1 ATCGATACA
42649 AGGGTTACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (13 bp):
ATCGATACATTAA
Found at i:42761 original size:20 final size:19
Alignment explanation
Indices: 42733--42784 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
42723 CCTAACATCC
*
42733 TTTCATCAAAATTTATTAAT
1 TTTCTTCAAAATTTATT-AT
*
42753 TTTCTTC-AAATTTCTTAT
1 TTTCTTCAAAATTTATTAT
42771 TTTCACTTCAAAAT
1 TTT--CTTCAAAAT
42785 ACTTCATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.19
19 8 0.30
20 10 0.37
21 4 0.15
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTCTTCAAAATTTATTAT
Found at i:42793 original size:21 final size:20
Alignment explanation
Indices: 42756--42794 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42746 TATTAATTTT
* *
42756 CTTCAAATTTCTTATTTTCA
1 CTTCAAAATACTTATTTTCA
42776 CTTCAAAATACTTCATTTT
1 CTTCAAAATACTT-ATTTT
42795 TCATCAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (20 bp):
CTTCAAAATACTTATTTTCA
Found at i:44521 original size:19 final size:21
Alignment explanation
Indices: 44482--44525 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
44472 TTTTTAACCG
*
44482 TTTATCAAGGGGGAGAAATTT
1 TTTATCAAGAGGGAGAAATTT
44503 TTTATCAA-AGGGA-AAATTT
1 TTTATCAAGAGGGAGAAATTT
44522 TTTA
1 TTTA
44526 ACGAGAGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
20 4 0.18
21 8 0.36
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (21 bp):
TTTATCAAGAGGGAGAAATTT
Found at i:45119 original size:13 final size:13
Alignment explanation
Indices: 45101--45125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45091 CATTATGCTT
45101 TGTATCGATACAG
1 TGTATCGATACAG
45114 TGTATCGATACA
1 TGTATCGATACA
45126 TGTTCATTGT
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:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:45123 original size:33 final size:32
Alignment explanation
Indices: 45081--45144 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
45071 CACACCCAGA
*
45081 TGTATCGATACAT-TATGCTTTGTATCGATACAG
1 TGTATCGATACATGT-T-CATTGTATCGATACAG
45114 TGTATCGATACATGTTCATTGTATCGATACA
1 TGTATCGATACATGTTCATTGTATCGATACA
45145 TGAAACTAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAG
Found at i:45210 original size:13 final size:13
Alignment explanation
Indices: 45192--45243 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
45182 GATACATGGC
45192 ACATTGTATCGAT
1 ACATTGTATCGAT
45205 ACATTGTATCGAT
1 ACATTGTATCGAT
45218 ACA-TG-AT-G--
1 ACATTGTATCGAT
45226 A-ATTGTATCGAT
1 ACATTGTATCGAT
45238 ACATTG
1 ACATTG
45244 CTTCAAACGG
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:45217 original size:33 final size:32
Alignment explanation
Indices: 45175--45243 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 32
45165 CTACCACTAT
45175 TTGTATCGATACATG-GCACATTGTATCGATACA
1 TTGTATCGATACATGAG-A-ATTGTATCGATACA
45208 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGA-GAATTGTATCGATACA
45241 TTG
1 TTG
45244 CTTCAAACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 32 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACATGAGAATTGTATCGATACA
Found at i:48434 original size:41 final size:40
Alignment explanation
Indices: 48389--48468 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
48379 AAAATCATAA
48389 AATTTAATAAAAAAATT-AAAATACCAATCTTAAAATTTTAC
1 AATTTAATAAAAAAATTAAAAATA--AATCTTAAAATTTTAC
* ** *
48430 AATTTCATAATTAAATTAAAAATAAATCTTAAATTTTTA
1 AATTTAATAAAAAAATTAAAAATAAATCTTAAAATTTTA
48469 TAAATCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 14 0.41
41 14 0.41
42 6 0.18
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (40 bp):
AATTTAATAAAAAAATTAAAAATAAATCTTAAAATTTTAC
Found at i:48468 original size:40 final size:38
Alignment explanation
Indices: 48401--48495 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 38
48391 TTTAATAAAA
*
48401 AAATT-AAAATACCAATCTTAAAATTTTACAATTTCATAATT
1 AAATTAAAAATA--AATCTTAAAATTTTACAA-ATCA-AATT
* *
48442 AAATTAAAAATAAATCTTAAATTTTTATAAATCAAATT
1 AAATTAAAAATAAATCTTAAAATTTTACAAATCAAATT
48480 AAATTACATAAATAAA
1 AAATTA-A-AAATAAA
48496 AATTTAAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 10 0.21
39 4 0.08
40 23 0.48
41 5 0.10
42 6 0.12
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (38 bp):
AAATTAAAAATAAATCTTAAAATTTTACAAATCAAATT
Found at i:49630 original size:14 final size:14
Alignment explanation
Indices: 49611--49665 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
49601 GTATTCATAA
49611 AAAAAATTTATTTT
1 AAAAAATTTATTTT
*
49625 AAAAAATATT-TTAT
1 AAAAAAT-TTATTTT
49639 AAAAAATTTA-TTT
1 AAAAAATTTATTTT
**
49652 ATGAAATTTATTTT
1 AAAAAATTTATTTT
49666 TTTAATATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 12 0.35
14 20 0.59
15 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
AAAAAATTTATTTT
Found at i:50719 original size:22 final size:22
Alignment explanation
Indices: 50670--50724 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
50660 AAATAAATTT
* *
50670 TATTTTTATATTAATATTTATA
1 TATTTTTATATTAATATGTAAA
50692 TATTTTTATAATTAA-ATGTAAA
1 TATTTTTAT-ATTAATATGTAAA
*
50714 T-TTTTTTTATT
1 TATTTTTATATT
50725 GTTAAATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 3 0.10
21 6 0.21
22 15 0.52
23 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTTTTATATTAATATGTAAA
Found at i:58459 original size:13 final size:13
Alignment explanation
Indices: 58441--58466 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58431 AATTTTTTTG
58441 TGTATCGATACAT
1 TGTATCGATACAT
58454 TGTATCGATACAT
1 TGTATCGATACAT
58467 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:59183 original size:17 final size:17
Alignment explanation
Indices: 59157--59195 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
59147 CCTTTTCAAA
*
59157 TTGAAGCATGATAACAT
1 TTGAACCATGATAACAT
* *
59174 TTGAACCATGTTCACAT
1 TTGAACCATGATAACAT
59191 TTGAA
1 TTGAA
59196 TAGCAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (17 bp):
TTGAACCATGATAACAT
Found at i:66746 original size:20 final size:20
Alignment explanation
Indices: 66721--66771 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
66711 GACAAAATAT
* *
66721 ATCGATACATTGAAGAATGC
1 ATCGATACATCGAAAAATGC
*
66741 ATCGATACATCGAAAAATGT
1 ATCGATACATCGAAAAATGC
66761 ATCGATACATC
1 ATCGATACATC
66772 TGGGTACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (20 bp):
ATCGATACATCGAAAAATGC
Done.