Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 37 of 38
Found at i:5652292 original size:13 final size:13
Alignment explanation
Indices: 5652274--5652298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5652264 ATTACTCAAA
5652274 TGTATCGATACAT
1 TGTATCGATACAT
5652287 TGTATCGATACA
1 TGTATCGATACA
5652299 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:5652351 original size:52 final size:52
Alignment explanation
Indices: 5652307--5652435 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
5652297 CACTGATCTT
5652307 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
5652359 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
5652411 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
5652436 TCATATTTCG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:5655798 original size:52 final size:51
Alignment explanation
Indices: 5655741--5656120 Score: 425
Period size: 51 Copynumber: 7.5 Consensus size: 51
5655731 AACGGGGTTA
* * *
5655741 GAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGAAGTTG
1 GAGTATCCCCGATTATGAAAAATTGGTG-TTTTGAAAATAAAATCGGAGTTG
* * *
5655793 GAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAA-CCGAGGTTG
1 GAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGAAAATAAAATCGGA-GTTG
* **
5655845 GAGTATCCCCGATTGTGAAAAATTGGTGTTTCAAAAATAAAATCGGA----
1 GAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTG
* *
5655892 GAGTATCCCCGATTATGGAAAATTAGTGTTTT-AGAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAAAATTGGTGTTTTGA-AAATAAAATCGGAGTTG
* * *
5655943 GAGTATCCCCGATTAAAGAAAAATTTGTGTTTTGAAAATAAAA-CTGGGGTTG
1 GAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGAAAATAAAATC-GGAGTTG
* * * *
5655995 GAGTATCCCCGATTGTGGAAAATTGGTGTGTCGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTG
* * * * * *
5656046 AAGTATCCCCGATTGTGAAAAATTAGTGTTTAG-AAATAAAACCGGGGTTG
1 GAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTG
*
5656096 GAGTATCCCCGCTTATGAAAAATTG
1 GAGTATCCCCGATTATGAAAAATTG
5656121 AGAAACTTAA
Statistics
Matches: 278, Mismatches: 38, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
46 1 0.00
47 41 0.15
50 36 0.13
51 96 0.35
52 92 0.33
53 12 0.04
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTG
Found at i:5655948 original size:150 final size:150
Alignment explanation
Indices: 5655740--5656120 Score: 559
Period size: 150 Copynumber: 2.5 Consensus size: 150
5655730 TAACGGGGTT
* * *
5655740 AGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGA
1 AGAGTATCCCCGATTGTGAAAAATTAGTG-TTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGA
*
5655805 TTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCCGATTGTGAAAAATTG
65 TTAAAGAAAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCCGATTGTGAAAAATTG
*
5655870 GTGTTTCAAAAATAAAATCGG
130 GTGTGTCAAAAATAAAATCGG
* *
5655891 AGAGTATCCCCGATTATGGAAAATTAGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGAT
1 AGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGAT
* * * *
5655956 TAAAGAAAAATTTGTGTTTTGAAAATAAAACTGGGGTTGGAGTATCCCCGATTGTGGAAAATTGG
66 TAAAGAAAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCCGATTGTGAAAAATTGG
*
5656021 TGTGTCGAAAATAAAATCGG
131 TGTGTCAAAAATAAAATCGG
* *
5656041 AGTTGAAGTATCCCCGATTGTGAAAAATTAGTG-TTTAGAAATAAAACCGGGGTTGGAGTATCCC
1 A---G-AGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCC
* *
5656105 CGCTT-ATGAAAAATTG
62 CGATTAAAGAAAAATTG
5656121 AGAAACTTAA
Statistics
Matches: 207, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
150 113 0.55
151 26 0.13
152 9 0.04
153 34 0.16
154 25 0.12
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (150 bp):
AGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGAT
TAAAGAAAAATTGGTGTTTTGAAAATAAAACCGAGGTTGGAGTATCCCCGATTGTGAAAAATTGG
TGTGTCAAAAATAAAATCGG
Found at i:5658496 original size:13 final size:13
Alignment explanation
Indices: 5658478--5658503 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5658468 ATAAAGATCG
5658478 ATGTATCGATACA
1 ATGTATCGATACA
5658491 ATGTATCGATACA
1 ATGTATCGATACA
5658504 TTCTACAAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:5658580 original size:19 final size:21
Alignment explanation
Indices: 5658556--5658607 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
5658546 AGCGATACAC
*
5658556 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
5658575 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
5658596 TGTATCGATACA
1 TGTATCGATACA
5658608 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:5663096 original size:20 final size:19
Alignment explanation
Indices: 5663071--5663144 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 19
5663061 TTTACCCAGA
5663071 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
* *
5663091 TGTATCGATACATTGCTCCT
1 TGTATCGATACATT-TTCAT
5663111 TGTATCGATACATTTT-AT
1 TGTATCGATACATTTTCAT
5663129 AATGTATCGATACATT
1 --TGTATCGATACATT
5663145 CAAGCATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 44 0.94
21 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:5665627 original size:28 final size:28
Alignment explanation
Indices: 5665591--5665646 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
5665581 ATTTTTCACA
*
5665591 ATTGAGGATATTCCAACC-CTGTTATTTC
1 ATTGAGGATACTCCAACCTC-GTTATTTC
*
5665619 ATTGGGGATACTCCAACCTCGTTATTTC
1 ATTGAGGATACTCCAACCTCGTTATTTC
5665647 CGAGGAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (28 bp):
ATTGAGGATACTCCAACCTCGTTATTTC
Found at i:5665715 original size:79 final size:79
Alignment explanation
Indices: 5665622--5666026 Score: 499
Period size: 79 Copynumber: 5.1 Consensus size: 79
5665612 TTATTTCATT
* * * *
5665622 GGGGATACTCCAACCTCGTTATTTCCGAGGAGATACTCCAACCCCGGCTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATC
*
5665687 AATTTCTCACAATC
66 AATTTCTCATAATC
* * * * * *
5665701 GGGGATACTCCAACCCCGTTATTTTCGTGGGGATACTCCAACCTCGACCTTATTTCTAAAGCATC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATC
5665766 AATTTCTCATAATC
66 AATTTCTCATAATC
* * * *
5665780 GGGGATACTCCAACCCCGTTATTTGCGAGGGGATACTCCAACCTCGGCTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATC
*
5665845 AATTTATCATAATC
66 AATTTCTCATAATC
* ** * *
5665859 GGGGATACTCTAACCCCGTTATTTTTGAGAGGATACTCCAACCCCGG-TTCTATTTGTAAAACAT
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTT-TATTTCTAAAACAT
*
5665923 CAATTTTTCATAATC
65 CAATTTCTCATAATC
* * ** ** *
5665938 GGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCGATTTTTATTTCTGGAACAC
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG-GCTTTATTTCTAAAACAT
*
5666003 CGATTT-TCCATAATC
65 CAATTTCT-CATAATC
5666018 GGGGATACT
1 GGGGATACT
5666027 TTAGCCCCGT
Statistics
Matches: 282, Mismatches: 40, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
78 2 0.01
79 247 0.88
80 31 0.11
81 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATC
AATTTCTCATAATC
Found at i:5665981 original size:158 final size:158
Alignment explanation
Indices: 5665622--5665983 Score: 555
Period size: 158 Copynumber: 2.3 Consensus size: 158
5665612 TTATTTCATT
* * *
5665622 GGGGATACTCCAACCTCGTTATTTCCGAGGAGATACTCCAACCCCGGCTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGCTTTATTTCTAAAATATT
* * * *
5665687 AATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGTGGGGATACTCCAACCTCGACCTT
66 AATTTATCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGACCTT
*
5665752 ATTTCTAAAGCATCAATTTCTCATAATC
131 ATTTCTAAAACATCAATTTCTCATAATC
*
5665780 GGGGATACTCCAACCCCGTTATTTGCGAGGGGATACTCCAACCTCGGCTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGCTTTATTTCTAAAATATT
* * * **
5665845 AATTTATCATAATCGGGGATACTCTAACCCCGTTATTTTTGAGAGGATACTCCAACCCCG-GTTC
66 AATTTATCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGACCT-
* *
5665909 TATTTGTAAAACATCAATTTTTCATAATC
130 TATTTCTAAAACATCAATTTCTCATAATC
*
5665938 GGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCG
1 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCG
5665984 ATTTTTATTT
Statistics
Matches: 185, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
157 1 0.01
158 184 0.99
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGCTTTATTTCTAAAATATT
AATTTATCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCCGACCTT
ATTTCTAAAACATCAATTTCTCATAATC
Found at i:5672300 original size:60 final size:60
Alignment explanation
Indices: 5672190--5672625 Score: 532
Period size: 55 Copynumber: 7.4 Consensus size: 60
5672180 CTCTTTTAGC
*
5672190 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGACGCC--TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* *
5672253 CCTTTAGTCCTCAAAGAGTAAGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* *
5672313 CCTTTTAGTCCTCAAAGAGCAGGATGCC-TTTC-----AAAGCCCACACAAGTTGGTAGCA
1 CC-TTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
*
5672368 CCTTTCAGTCATCAAAGAGCAGGACGCC-TTTC-----AAAGCCCACACAAGTTGGTGGCA
1 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* *
5672423 CCTTTCAGTCCTTAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTT-AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* *
5672484 CTTTTAGTCCTCGAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
** *
5672544 TTTTTTAGTCCTCAAAGAGCAGGA---C---TCTTTTTAAAGGCCACACAAGTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
*
5672599 -CTTCCTAGTCCTCAAAGAACAGGACGC
1 CCTT--TAGTCCTCAAAGAGCAGGACGC
5672626 TCTCACATTT
Statistics
Matches: 338, Mismatches: 21, Indels: 33
0.86 0.05 0.08
Matches are distributed among these distances:
53 2 0.01
54 3 0.01
55 143 0.42
56 4 0.01
58 1 0.00
60 91 0.27
61 70 0.21
62 20 0.06
63 4 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (60 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:5672764 original size:60 final size:60
Alignment explanation
Indices: 5672664--5672836 Score: 220
Period size: 60 Copynumber: 2.9 Consensus size: 60
5672654 GAGCAGGATG
* * * * *
5672664 CCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAATCCTCAAAGAGCATGAAGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAGGAAGCCTTTT
* * * *
5672724 CTTTTTAAAGCCCACATAAGTTGGTGGCACTTTTAGTCCTCAAAGGGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAGGAAGCCTTTT
* * **
5672784 CCTTTCAAAGCCCACACAAGTTGGTGGTACCTCCTAGTCCTCAAAGAGCAGGA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAGTCCTCAAAGAGCAGGA
5672837 TGCACTTTAT
Statistics
Matches: 96, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 76 0.79
61 20 0.21
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (60 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTAGTCCTCAAAGAGCAGGAAGCCTTTT
Found at i:5672972 original size:109 final size:109
Alignment explanation
Indices: 5672779--5673060 Score: 487
Period size: 109 Copynumber: 2.6 Consensus size: 109
5672769 GGCAGGATGC
* * *
5672779 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGTACCTCCTAGTCCTCAAAGAGCAGGATGCACTT
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGCACTT
*
5672844 TATTCCCTTTTGTCCTCAAAGAGTAGGACGCACTTCATTTCTTT
66 TATTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCTTT
*
5672888 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAAAGCAGGACGCACTT
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGCACTT
*
5672953 TATTCCCTTTTGTCTTCAAAGAGCAGGACGCACTTCATTTCTTT
66 TATTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCTTT
*
5672997 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-TTAGTCCTCAAAGAGCAGGACGC-CTT
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGCACTT
5673060 T
66 T
5673061 TCCTTTCAAA
Statistics
Matches: 165, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
107 4 0.02
108 21 0.13
109 140 0.85
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (109 bp):
CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGCACTT
TATTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCTTT
Found at i:5673061 original size:278 final size:279
Alignment explanation
Indices: 5672719--5673225 Score: 856
Period size: 278 Copynumber: 1.8 Consensus size: 279
5672709 AGCATGAAGC
* * * * *
5672719 CTTTTCTTTTTAAAGCCCACATAAGTTGGTGGCACTTTTAGTCCTCAAAGGGCAGGATGCCTTTT
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
* * **
5672784 CCTTTCAAAGCCCACACAAGTTGGTGGTACCTCCTAGTCCTCAAAGAGCAGGATGCACTTTATTC
66 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAAGACACACTTTATTC
* *
5672849 CCTTTTGTCCTCAAAGAGTAGGACGCACTTCA-TTTCTTTCTTTTCCTTTTAAAGCCCACACAAG
131 CCCTCTGTCCTCAAAGAGTAGGACGCACTTCATTTTCTTT-TTTTCCTTTTAAAGCCCACACAAG
5672913 TTGGTGGCAC-CTCCTAGTCCTCAAAAAGCAGGACGCACTTTATTCCCTTTTGTCTTCAAAGAGC
195 TTGGTGGCACTCTCCTAGTCCTCAAAAAGCAGGACGCACTTTATTCCCTTTTGTCTTCAAAGAGC
5672977 AGGACGCACTTCATTTCTTT
260 AGGACGCACTTCATTTCTTT
5672997 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
5673062 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAAGACACACTTTATTC
66 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAAGACACACTTTATTC
*
5673127 CCCTCTGTCCTCAAAGAGTAGGACGCACTTCATTTTCTTTTTTTTCTTTTAAAGCCCACACAAGT
131 CCCTCTGTCCTCAAAGAGTAGGACGCACTTCATTTTCTTTTTTTCCTTTTAAAGCCCACACAAGT
* * *
5673192 TGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGAC
196 TGGTGGCACTCTCCTAGTCCTCAAAAAGCAGGAC
5673226 ACCTTTTCCT
Statistics
Matches: 212, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
278 184 0.87
279 28 0.13
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (279 bp):
CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTT
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAAGACACACTTTATTC
CCCTCTGTCCTCAAAGAGTAGGACGCACTTCATTTTCTTTTTTTCCTTTTAAAGCCCACACAAGT
TGGTGGCACTCTCCTAGTCCTCAAAAAGCAGGACGCACTTTATTCCCTTTTGTCTTCAAAGAGCA
GGACGCACTTCATTTCTTT
Found at i:5673064 original size:169 final size:171
Alignment explanation
Indices: 5672888--5673261 Score: 601
Period size: 169 Copynumber: 2.2 Consensus size: 171
5672878 TCATTTCTTT
* *
5672888 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAAAGCAGGACGCACTT
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAAAGCAAGACACACTT
* * *
5672953 TATTCCCTTTTGTCTTCAAAGAGCAGGACGCACTTCA-TTTCTTTCTTTTCCTTTTAAAGCCCAC
66 TATTCCCCTCTGTCCTCAAAGAGCAGGACGCACTTCATTTTCTTT-TTTTCCTTTTAAAGCCCAC
*
5673017 ACAAGTTGGTGGCAC-CTT-TAGTCCTCAAAGAGCAGGACGC
130 ACAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACAC
* *
5673057 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAAGACACACTT
1 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAAAGCAAGACACACTT
* *
5673122 TATTCCCCTCTGTCCTCAAAGAGTAGGACGCACTTCATTTTCTTTTTTTTCTTTTAAAGCCCACA
66 TATTCCCCTCTGTCCTCAAAGAGCAGGACGCACTTCATTTTCTTTTTTTCCTTTTAAAGCCCACA
*
5673187 CAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACAC
131 CAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACAC
*
5673228 CTTTTCCTTTTTAAAGCCCACATAAGTTGGTGGC
1 CTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGC
5673262 CCCTTTCAGC
Statistics
Matches: 188, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
169 127 0.68
170 9 0.05
171 28 0.15
172 24 0.13
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (171 bp):
CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAAAGCAAGACACACTT
TATTCCCCTCTGTCCTCAAAGAGCAGGACGCACTTCATTTTCTTTTTTTCCTTTTAAAGCCCACA
CAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACAC
Found at i:5673090 original size:60 final size:61
Alignment explanation
Indices: 5672997--5673111 Score: 205
Period size: 60 Copynumber: 1.9 Consensus size: 61
5672987 TCATTTCTTT
* *
5672997 CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-TTAGTCCTCAAAGAGCAGGACGC
1 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGC
5673057 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCA
1 CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCA
5673112 AGACACACTT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
60 36 0.69
61 16 0.31
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (61 bp):
CTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTCCTAGTCCTCAAAGAGCAGGACGC
Found at i:5673364 original size:56 final size:55
Alignment explanation
Indices: 5673238--5673514 Score: 317
Period size: 55 Copynumber: 4.9 Consensus size: 55
5673228 CTTTTCCTTT
* ** * **
5673238 TTAAAGCCCACATAAGTTGGTGGCCCCTTT-CAG-CCTTCAAAGAGTAGGATGCCTC
1 TTAAAGCCCACACAAGTTGGTGG-CATTTTCCAGTCC-TCAAAGAGCAGGACACCTC
*
5673293 TTAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAAGAGCAGGACACCTC
1 TTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC-AAAGAGCAGGACACCTC
*
5673349 TTAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCT-
1 TTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * *
5673403 TTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCTTT
1 TT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C--AC-C-TC
* * *
5673465 TTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCCAAGAGCAGGAC
1 TTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC
5673515 GCTCTCTCCT
Statistics
Matches: 195, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
54 6 0.03
55 87 0.45
56 52 0.27
57 1 0.01
59 2 0.01
60 1 0.01
61 44 0.23
62 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (55 bp):
TTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
Found at i:5673419 original size:111 final size:110
Alignment explanation
Indices: 5673174--5673514 Score: 391
Period size: 111 Copynumber: 3.0 Consensus size: 110
5673164 TTTTTTTTCT
5673174 TTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT
1 TTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACACC--TT-C---T
* * * **
5673239 TAAAGCCCACATAAGTTGGTGGCCCCTTT-CAG-CCTTCAAAGAGTAGGATGCC
59 TAAAGCCCACACAAGTTGGTGG-CACTTTCCAGTCC-TCAAAGAGCAGGACACC
* *
5673291 TCTTAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAAGAGCAGGACACC-TCTTAAAG
1 T-TTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTC-AAAGAGCAGGACACCTTCTTAAAG
* *
5673355 CCTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC
64 CCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACACC
* *
5673402 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTCTCTTTTT
1 TTT-AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGA--C--AC-CTTCTT
* *
5673467 AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCCAAGAGCAGGAC
60 AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGAC
5673515 GCTCTCTCCT
Statistics
Matches: 196, Mismatches: 17, Indels: 23
0.83 0.07 0.10
Matches are distributed among these distances:
110 17 0.09
111 73 0.37
112 3 0.02
114 2 0.01
115 2 0.01
116 47 0.24
117 13 0.07
118 39 0.20
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (110 bp):
TTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTCTTAAAGCC
CACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:5673662 original size:154 final size:155
Alignment explanation
Indices: 5673380--5673667 Score: 463
Period size: 154 Copynumber: 1.9 Consensus size: 155
5673370 GGCATTTTCC
* *
5673380 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
** *
5673445 GAGCAGGATGCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCCAAGAGC
66 GAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGC
5673510 AGGACGCTCTCTCCTTTCGCCCTTT
131 AGGACGCTCTCTCCTTTCGCCCTTT
** *
5673535 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT-GTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
*
5673599 GAGCATGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAG
66 GAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAG
*
5673663 TAGGA
130 CAGGA
5673668 TGCCTTTTCT
Statistics
Matches: 122, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
154 69 0.57
155 53 0.43
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (155 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAA
GAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGC
AGGACGCTCTCTCCTTTCGCCCTTT
Found at i:5673679 original size:61 final size:60
Alignment explanation
Indices: 5673535--5673737 Score: 267
Period size: 61 Copynumber: 3.5 Consensus size: 60
5673525 TTCGCCCTTT
5673535 AGTCCTCAAAGAGCAGGATGCC---T-TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
* *
5673589 TGTCCTCAAAGAGCATGATG-CTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGATGCCTTT-TCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCC
* * * **
5673650 AGTCCTCAAAGAGTAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGATGCCTTTTC-TTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
5673711 AGTCCTCAAAGAGCAGGATGCCTTTTC
1 AGTCCTCAAAGAGCAGGATGCCTTTTC
5673738 CTTTTCTCCT
Statistics
Matches: 129, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
53 1 0.01
54 18 0.14
57 1 0.01
58 3 0.02
60 23 0.18
61 76 0.59
62 7 0.05
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGATGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCC
Found at i:5673700 original size:215 final size:210
Alignment explanation
Indices: 5673324--5673769 Score: 578
Period size: 215 Copynumber: 2.1 Consensus size: 210
5673314 GGCATTTTCC
* *
5673324 AGTCCTCAAAAGAGCAGGACACCTCTTAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCAA
1 AGTCCTC-AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAA
** *
5673389 AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGAT
65 AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAT
* *
5673454 GCTTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCCAAGAGCAGGACG-CT
130 GCTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCT
5673518 CTCTCC-TTTCGCCCTTT
195 -TCTCCTTTTC-CCCTTT
** * *
5673535 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAA
* * *
5673599 GAGCATGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGT
66 GAGCAGGA--C--AC-CTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGC
* ***
5673664 AGGATGCCTTT-TCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGG
125 AGGATG-CTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGG
* * *
5673728 ATGCCTTTTCCTTTTCTCCTTT
189 ACGCCTTCTCCTTTTCCCCTTT
5673750 -GTCCTCAAAGAGCAGGACAC
1 AGTCCTCAAAGAGCAGGACAC
5673770 ACTTCATTCC
Statistics
Matches: 203, Mismatches: 23, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
209 20 0.10
210 38 0.19
211 8 0.04
213 1 0.00
214 22 0.11
215 104 0.51
216 10 0.05
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (210 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAA
GAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATG
CTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTT
CTCCTTTTCCCCTTT
Found at i:5673850 original size:42 final size:42
Alignment explanation
Indices: 5673733--5674004 Score: 212
Period size: 42 Copynumber: 6.6 Consensus size: 42
5673723 GCAGGATGCC
* *
5673733 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTCA
1 TTTTCCTTTT-TCCTTTGTCCTCAAAGAGCAGGACGCACTTCG
* *
5673776 TTCCTTTCTTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTTG
1 TT--TTCCTTTTT-CC-TTTGTCCTCAAAGAGCAGGACGCACTTCG
*
5673822 TTTTCCTTTTTCTTTTGTCCTCAAAGAGCAGGACGCA-TTCG
1 TTTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTCG
*
5673863 TTTTCCTTTTTTCCTTTGTCCTCGAAA-AGCAGGACGTAC-TC-
1 TTTTCC-TTTTTCCTTTGTCCTC-AAAGAGCAGGACGCACTTCG
* * * * *
5673904 ---T--TTTTTACTTTGTCGTCAAGGAGCAAGA--CACTTTCC
1 TTTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGCAC-TTCG
* * * * *
5673940 TTTTCTTTTTTCCTTTGTCCTCAAGGAGCAAGAC-CTATTTCA
1 TTTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGC-ACTTCG
*
5673982 TTAT-C-TTTTCCTTTGTCCTCAAA
1 TTTTCCTTTTTCCTTTGTCCTCAAA
5674005 AAGTGGGGCA
Statistics
Matches: 190, Mismatches: 21, Indels: 39
0.76 0.08 0.16
Matches are distributed among these distances:
33 2 0.01
34 2 0.01
35 22 0.12
38 1 0.01
39 1 0.01
40 17 0.09
41 34 0.18
42 58 0.31
43 7 0.04
44 9 0.05
45 9 0.05
46 28 0.15
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.42
Consensus pattern (42 bp):
TTTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTCG
Found at i:5674000 original size:40 final size:40
Alignment explanation
Indices: 5673905--5674003 Score: 121
Period size: 41 Copynumber: 2.5 Consensus size: 40
5673895 GACGTACTCT
* * * *
5673905 TTTTTACTTTGTCGTCAAGGAGCAAGACACTTTCCTTTTC
1 TTTTTCCTTTGTCCTCAAGGAGCAAGACACTTTCATTATC
5673945 TTTTTTCCTTTGTCCTCAAGGAGCAAGAC-CTATTTCATTATC
1 -TTTTTCCTTTGTCCTCAAGGAGCAAGACAC--TTTCATTATC
5673987 -TTTTCCTTTGTCCTCAA
1 TTTTTCCTTTGTCCTCAA
5674004 AAAGTGGGGC
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
40 18 0.35
41 26 0.50
42 8 0.15
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.44
Consensus pattern (40 bp):
TTTTTCCTTTGTCCTCAAGGAGCAAGACACTTTCATTATC
Found at i:5674674 original size:20 final size:19
Alignment explanation
Indices: 5674649--5674753 Score: 78
Period size: 20 Copynumber: 5.6 Consensus size: 19
5674639 TACCCAGATA
5674649 TATCGATACATTTTGCATTG
1 TATCGATACATTTT-CATTG
* *
5674669 TATCGATACATTGCTCCTTG
1 TATCGATACATT-TTCATTG
*
5674689 TATCGAT--A---T-ATTC
1 TATCGATACATTTTCATTG
**
5674702 TATCGATACATTGCACATTG
1 TATCGATACATT-TTCATTG
*
5674722 TATCGATACATTTTACAATG
1 TATCGATACATTTT-CATTG
5674742 TATCGATACATT
1 TATCGATACATT
5674754 CAAACATTTT
Statistics
Matches: 67, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
13 9 0.13
14 1 0.01
15 1 0.01
18 1 0.01
20 54 0.81
21 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (19 bp):
TATCGATACATTTTCATTG
Found at i:5674744 original size:53 final size:53
Alignment explanation
Indices: 5674649--5674754 Score: 133
Period size: 53 Copynumber: 2.0 Consensus size: 53
5674639 TACCCAGATA
*** ** *
5674649 TATCGATACATTTTGCATTGTATCGATACATTGCTCCTTGTATCGATATATTC
1 TATCGATACATTGCACATTGTATCGATACATTGCTCAATGTATCGATACATTC
*
5674702 TATCGATACATTGCACATTGTATCGATACATT-TTACAATGTATCGATACATTC
1 TATCGATACATTGCACATTGTATCGATACATTGCT-CAATGTATCGATACATTC
5674755 AAACATTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.02
53 44 0.98
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (53 bp):
TATCGATACATTGCACATTGTATCGATACATTGCTCAATGTATCGATACATTC
Found at i:5677138 original size:51 final size:52
Alignment explanation
Indices: 5677063--5677204 Score: 123
Period size: 52 Copynumber: 2.8 Consensus size: 52
5677053 TAGTTTCATG
* * *
5677063 TCCAAAACATCAAATTTT-CTTAATCAGG-GATACTCCAAC-CACGGTTTTA-TT
1 TCCAAAACA-CCAATTTTCCATAATC-GGAGATACTCCAACTC-CGATTTTATTT
* * * *
5677114 TCTAAAACACCCATTTTCCATAATCGGAGATATTTCAACTCCGATTTTATTT
1 TCCAAAACACCAATTTTCCATAATCGGAGATACTCCAACTCCGATTTTATTT
* * *
5677166 TCCAAAACACCAATTTTTCACAATC-GATGATATTCCAAC
1 TCCAAAACACCAATTTTCCATAATCGGA-GATACTCCAAC
5677205 CCTATTATTT
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
50 8 0.11
51 32 0.43
52 34 0.46
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.34
Consensus pattern (52 bp):
TCCAAAACACCAATTTTCCATAATCGGAGATACTCCAACTCCGATTTTATTT
Found at i:5677182 original size:52 final size:51
Alignment explanation
Indices: 5677107--5677204 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 51
5677097 CCAACCACGG
* * * *
5677107 TTTTATTTCTAAAACACCCATTTTCCATAATCGGA-GATATTTCAACTCCGA
1 TTTTATTTCCAAAACACCAATTTTCCACAATC-GATGATATTCCAACTCCGA
*
5677158 TTTTATTTTCCAAAACACCAATTTTTCACAATCGATGATATTCCAAC
1 TTTTA-TTTCCAAAACACCAATTTTCCACAATCGATGATATTCCAAC
5677205 CCTATTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
51 7 0.17
52 33 0.82
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (51 bp):
TTTTATTTCCAAAACACCAATTTTCCACAATCGATGATATTCCAACTCCGA
Found at i:5677302 original size:79 final size:78
Alignment explanation
Indices: 5677149--5677596 Score: 432
Period size: 79 Copynumber: 5.7 Consensus size: 78
5677139 GGAGATATTT
* * * * * * * * *
5677149 CAACTCCGATTTTATTTTCCAAAACACCAATTTTTCACAATCGATGATATTCCAACCCTATTA-T
1 CAACCCCGACTTTA-TTTCTAAAACATCAATTTCTCATAATCGAGGATACTCCAACCCCATTATT
5677213 TTCATTAGGGATACTC
65 TTCA--AGGGATACTC
* * * * *
5677229 CAACCCCGACTTTATTTCTAAAATATTAATTTCTCACAATCGAGGATACTCTAACCCCGTTATTT
1 CAACCCCGACTTTATTTCTAAAACATCAATTTCTCATAATCGAGGATACTCCAACCCCATTATTT
5677294 TCACAGGGATACTC
66 TCA-AGGGATACTC
* * *
5677308 CAACCCCGGCCTTATTTCTAAAGCATCAATTTCTCATAATC-AGGGATACTCCAACCCCATTATT
1 CAACCCCGACTTTATTTCTAAAACATCAATTTCTCATAATCGA-GGATACTCCAACCCCATTA-T
*
5677372 TTTGAAGGGATACTC
64 TTTCAAGGGATACTC
** * * *
5677387 CAACCCCGACTTTATTTCTAAAATTTTAATTTCTCATAATCGGGGATACTCCAACCCCTTTATTT
1 CAACCCCGACTTTATTTCTAAAACATCAATTTCTCATAATCGAGGATACTCCAACCCCATTATTT
*
5677452 TCGAGGGGATACTC
66 TC-AAGGGATACTC
* ** * * * * *
5677466 TAACCCCGGTTTTATTTGTAAAACATCAATTTTTCATAGTCGGGGATACTCCAACCCCGTTATTT
1 CAACCCCGACTTTATTTCTAAAACATCAATTTCTCATAATCGAGGATACTCCAACCCCATTATTT
* *
5677531 CTGAGGGGATACTC
66 -TCAAGGGATACTC
* ** * * * *
5677545 CAACCCCGATTTTTATTTCTGGAACACCGATTTTTCATAATCGGGGATACTC
1 CAACCCCGA-CTTTATTTCTAAAACATCAATTTCTCATAATCGAGGATACTC
5677597 TAGCCCCGTT
Statistics
Matches: 310, Mismatches: 51, Indels: 14
0.83 0.14 0.04
Matches are distributed among these distances:
78 5 0.02
79 246 0.79
80 59 0.19
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (78 bp):
CAACCCCGACTTTATTTCTAAAACATCAATTTCTCATAATCGAGGATACTCCAACCCCATTATTT
TCAAGGGATACTC
Found at i:5677464 original size:158 final size:158
Alignment explanation
Indices: 5677194--5677564 Score: 505
Period size: 158 Copynumber: 2.3 Consensus size: 158
5677184 CACAATCGAT
* *
5677194 GATATTCCAACCCTATTATTTCATT--AGGGATACTCCAACCCCGACTTTATTTCTAAAATATTA
1 GATACTCCAACCCCATTATTT--TTGAAGGGATACTCCAACCCCGACTTTATTTCTAAAATATTA
*
5677257 ATTTCTCACAATCGAGGATACTCTAACCCCGTTATTTTCACAGGGATACTCCAACCCCGGCCTTA
64 ATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTTCACAGGGATACTCCAACCCCGGCCTTA
*
5677322 TTTCTAAAGCATCAATTTCTCATAATCAGG
129 TTTCTAAAACATCAATTTCTCATAATCAGG
*
5677352 GATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACCCCGACTTTATTTCTAAAATTTTAAT
1 GATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACCCCGACTTTATTTCTAAAATATTAAT
* * * * * **
5677417 TTCTCATAATCGGGGATACTCCAACCCCTTTATTTTCGA-GGGGATACTCTAACCCCGGTTTTAT
66 TTCTCACAATCGAGGATACTCCAACCCCGTTATTTTC-ACAGGGATACTCCAACCCCGGCCTTAT
* * * *
5677481 TTGTAAAACATCAATTTTTCATAGTCGGG
130 TTCTAAAACATCAATTTCTCATAATCAGG
* * * *
5677510 GATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTTATTTCT
1 GATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACCCCGA-CTTTATTTCT
5677565 GGAACACCGA
Statistics
Matches: 189, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
156 2 0.01
158 177 0.94
159 10 0.05
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (158 bp):
GATACTCCAACCCCATTATTTTTGAAGGGATACTCCAACCCCGACTTTATTTCTAAAATATTAAT
TTCTCACAATCGAGGATACTCCAACCCCGTTATTTTCACAGGGATACTCCAACCCCGGCCTTATT
TCTAAAACATCAATTTCTCATAATCAGG
Found at i:5681565 original size:19 final size:19
Alignment explanation
Indices: 5681537--5681599 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
5681527 AAACAGTAAA
5681537 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
5681556 TGTATTGATAC--AA----
1 TGTATCGATACATAAGTGT
5681569 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
5681588 TGTATCGATACA
1 TGTATCGATACA
5681600 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:5681576 original size:32 final size:32
Alignment explanation
Indices: 5681535--5681612 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
5681525 ACAAACAGTA
*
5681535 AATGTATCGATACATAAGTGTTGTATTGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
5681567 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
5681599 AATGTATCGCTACA
1 AATGTATCGATACA
5681613 AAGCTACTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:5681671 original size:13 final size:13
Alignment explanation
Indices: 5681653--5681678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5681643 TTATTCAATA
5681653 TATCGATACATTG
1 TATCGATACATTG
5681666 TATCGATACATTG
1 TATCGATACATTG
5681679 ATCTTTGTAT
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):
TATCGATACATTG
Found at i:5683912 original size:27 final size:27
Alignment explanation
Indices: 5683882--5683948 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
5683872 TTCACCGGGG
5683882 ACACTCCAACCCCATTCCTCCGAGGGA
1 ACACTCCAACCCCATTCCTCCGAGGGA
*
5683909 ACACTCCAACCCCATTCCTCCGAGGGG
1 ACACTCCAACCCCATTCCTCCGAGGGA
5683936 ACACTCCAACCCC
1 ACACTCCAACCCC
5683949 GTTTTCAACC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.25, C:0.48, G:0.13, T:0.13
Consensus pattern (27 bp):
ACACTCCAACCCCATTCCTCCGAGGGA
Found at i:5690069 original size:31 final size:30
Alignment explanation
Indices: 5690027--5690685 Score: 403
Period size: 31 Copynumber: 20.9 Consensus size: 30
5690017 TCTTCAAATA
* *
5690027 TCTTCTTAAAGTCCACGACTTAGTGGCAATT
1 TCTTCTCAAAGTCCACGACTCAGTGGC-ATT
* *
5690058 TCTTCTCAAAGTCCACAACTCAGTGGCATC
1 TCTTCTCAAAGTCCACGACTCAGTGGCATT
* * * *
5690088 TCTTCCCAAAGTTCACAACTCAATGGCATCT
1 TCTTCTCAAAGTCCACGACTCAGTGGCAT-T
* *
5690119 CTTTTCTCAAAGTCCACAACTCAGTGGCATCT
1 -TCTTCTCAAAGTCCACGACTCAGTGGCAT-T
* * *
5690151 CTTTTCTCAAAGTCCACAACTCAATGGCATCTT
1 -TCTTCTCAAAGTCCACGACTCAGTGGCA--TT
* * * *
5690184 TTTTCTTCAAAGTCCACAACTCAATGGCAATC
1 TCTTC-TCAAAGTCCACGACTCAGTGGC-ATT
*
5690216 TCTTCTCAAAGCCCACGACTCAGTGGCATCT
1 TCTTCTCAAAGTCCACGACTCAGTGGCAT-T
* * *
5690247 TGTCCT-AAAGTCCACGACTCATTGGCATT
1 TCTTCTCAAAGTCCACGACTCAGTGGCATT
* * *
5690276 TTTTCTCCGAAGTCCACGACTCAGTGGCAATC
1 TCTTCT-CAAAGTCCACGACTCAGTGGC-ATT
* * * *
5690308 TCTTTTCTAAGTTCACGACTTAGTGGCATCCT
1 TCTTCTCAAAGTCCACGACTCAGTGGCAT--T
*
5690340 T-TTCTTCCAAGTCCACGACTCAGTGGCATCTTT
1 TCTTC-TCAAAGTCCACGACTCAGTGGCA---TT
* * ** *
5690373 TTTTCTTCAAAGTACATAATTCAGTGGCATCTT
1 TCTTC-TCAAAGTCCACGACTCAGTGGCA--TT
* *
5690406 TTTTCTTCAAAGTCCACGACTCAGTGGCAATC
1 TCTTC-TCAAAGTCCACGACTCAGTGGC-ATT
*
5690438 TCTTCTCAAAGCCCACGACTCAGTGGCATCT
1 TCTTCTCAAAGTCCACGACTCAGTGGCAT-T
* * * * *
5690469 T-GTCCCAAAGTCCACGACTTAGTAGCAATC
1 TCTTCTCAAAGTCCACGACTCAGTGGC-ATT
* *
5690499 TCTTTTCAAAGTCCACAACTCAGTGGCATCT
1 TCTTCTCAAAGTCCACGACTCAGTGGCAT-T
* * *
5690530 CTCTT-TCTAAGTTCACGACTTAGTGGCATT
1 -TCTTCTCAAAGTCCACGACTCAGTGGCATT
* * *
5690560 TTTTCTTTC-AAGTCCACAACTCAATGGCATCTT
1 TCTTC--TCAAAGTCCACGACTCAGTGGCA--TT
* * * *
5690593 TTTTCTTCAAAATCCATGACTCAATGGCATCT
1 TCTTC-TCAAAGTCCACGACTCAGTGGCAT-T
* * *
5690625 TTTGTCTTCAAAGTTCACGACTCAATGGCATCT
1 TCT-TC-TCAAAGTCCACGACTCAGTGGCAT-T
* * *
5690658 T-TTCTTCAAAGCCCACAACTCTGTGGCA
1 TCTTC-TCAAAGTCCACGACTCAGTGGCA
5690686 CTCTTTTTCC
Statistics
Matches: 511, Mismatches: 86, Indels: 62
0.78 0.13 0.09
Matches are distributed among these distances:
29 8 0.02
30 78 0.15
31 186 0.36
32 111 0.22
33 102 0.20
34 25 0.05
35 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.33
Consensus pattern (30 bp):
TCTTCTCAAAGTCCACGACTCAGTGGCATT
Found at i:5690136 original size:62 final size:62
Alignment explanation
Indices: 5690034--5690719 Score: 488
Period size: 64 Copynumber: 10.9 Consensus size: 62
5690024 ATATCTTCTT
* *
5690034 AAAGTCCACGACTTAGTGGCAAT-T-TCTTCTCAAAGTCCACAACTCAGTGGCATCTCTTCCC
1 AAAGTCCACGACTCAGTGGC-ATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTCTTCCC
* * * *
5690095 AAAGTTCACAACTCAATGGCATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTC--TTCCC
* * * * *
5690159 AAAGTCCACAACTCAATGGCATCTTTTTTCTTCAAAGTCCACAACTCAATGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTC-TCAAAGTCCACAACTCAGTGGC-ATCTCTTCCC
* * * * * * *
5690223 AAAGCCCACGACTCAGTGGCATCT-TGTCCT-AAAGTCCACGACTCATTGGCATTTTTTCTCC
1 AAAGTCCACGACTCAGTGGCATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTCTTC-CC
* * * * *
5690284 GAAGTCCACGACTCAGTGGCAATCTCTTTTCT--AAGTTCACGACTTAGTGGCATCCTTTTCTTC
1 AAAGTCCACGACTCAGTGGC-ATCTCTTTTCTCAAAGTCCACAACTCAGTGGCAT-CTCTTC--C
5690347 C
62 C
* * * * *
5690348 -AAGTCCACGACTCAGTGGCATCTTTTTTTCTTCAAAGTACATAATTCAGTGGCATCTTTTTTCT
1 AAAGTCCACGACTCAGTGGCATC-TCTTTTC-TCAAAGTCCACAACTCAGTGGCATC--TCTTC-
*
5690412 TC
61 CC
* *
5690414 AAAGTCCACGACTCAGTGGCAATCTC--TTCTCAAAGCCCACGACTCAGTGGCATCT-TGTCCC
1 AAAGTCCACGACTCAGTGGC-ATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTCT-TCCC
* * **
5690475 AAAGTCCACGACTTAGTAGCAATCTC-TTT-TCAAAGTCCACAACTCAGTGGCATCTCTCTTTC
1 AAAGTCCACGACTCAGTGGC-ATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTCT-TCCC
* * * * *
5690537 TAAGTTCACGACTTAGTGGCAT-T-TTTTCTTTC-AAGTCCACAACTCAATGGCATCTTTTTTCT
1 AAAGTCCACGACTCAGTGGCATCTCTTTTC--TCAAAGTCCACAACTCAGTGGCATC--TCTTC-
*
5690599 TC
61 CC
* * * * * * * *
5690601 AAAATCCATGACTCAATGGCATCT-TTTGTCTTCAAAGTTCACGACTCAATGGCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTCTTT-TC-TCAAAGTCCACAACTCAGTGGCATCTCTTC-CC
* * * ** *
5690665 AAAGCCCACAACTCTGTGGCA-CTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCATCTC-TTTT-C-TCAAAGTCCACAACTCAGTGGCA
5690720 CCCTTTTAAG
Statistics
Matches: 516, Mismatches: 74, Indels: 66
0.79 0.11 0.10
Matches are distributed among these distances:
60 12 0.02
61 106 0.21
62 103 0.20
63 42 0.08
64 126 0.24
65 54 0.10
66 45 0.09
67 25 0.05
68 3 0.01
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.33
Consensus pattern (62 bp):
AAAGTCCACGACTCAGTGGCATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTCTTCCC
Found at i:5690440 original size:222 final size:220
Alignment explanation
Indices: 5690033--5690690 Score: 905
Period size: 222 Copynumber: 3.0 Consensus size: 220
5690023 AATATCTTCT
* ** *
5690033 TAAAGTCCACGACTTAGTGGCAATTTCTTCTCAAAGTCCACAACTCAGTGGCATCTCTTCCCAAA
1 TAAAGTCCACGACTTAGTGGCAATTTTTTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAA
* * * * *
5690098 GTTCACAACTCAATGGCATCTCTTTTC-TCAAAGTCCACAACTCAGTGGCATCTCTTTTC-TCAA
66 GTTCACGACTTAGTGGCATC-CTTTTCTTCCAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAA
* *
5690161 AGTCCACAACTCAATGGCATCTTTTTTCTTCAAAGTCCACAACTCAATGGCAATCTCTTCTCAAA
130 AGTCCATAACTCAATGGCATCTTTTTTCTTCAAAGTCCACGACTCAATGGCAATCTCTTCTCAAA
5690226 GCCCACGACTCAGTGGCATCTTGTCC
195 GCCCACGACTCAGTGGCATCTTGTCC
* * * *
5690252 TAAAGTCCACGACTCATTGGC-ATTTTTTCTCCGAAGTCCACGACTCAGTGGCAATCTCTTTTCT
1 TAAAGTCCACGACTTAGTGGCAATTTTTTCT-CAAAGTCCACAACTCAGTGGC-ATCTCTTTTCT
*
5690316 AAGTTCACGACTTAGTGGCATCCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTTTTCTTC
64 AAGTTCACGACTTAGTGGCATCCTTTTCTTCCAAGTCCACAACTCAGTGGCATC-TTTTTTCTTC
* * * *
5690381 AAAGTACATAATTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCA
128 AAAGTCCATAACTCAATGGCATCTTTTTTCTTCAAAGTCCACGACTCAATGGCAATCTCTTCTCA
5690446 AAGCCCACGACTCAGTGGCATCTTGTCC
193 AAGCCCACGACTCAGTGGCATCTTGTCC
* * *
5690474 CAAAGTCCACGACTTAGTAGCAATCTCTTT-TCAAAGTCCACAACTCAGTGGCATCTCTCTTTCT
1 TAAAGTCCACGACTTAGTGGCAAT-TTTTTCTCAAAGTCCACAACTCAGTGGCATCTCT-TTTCT
* * *
5690538 AAGTTCACGACTTAGTGGCAT-TTTTTCTTTCAAGTCCACAACTCAATGGCATCTTTTTTCTTCA
64 AAGTTCACGACTTAGTGGCATCCTTTTCTTCCAAGTCCACAACTCAGTGGCATCTTTTTTCTTCA
* * * * *
5690602 AAATCCATGACTCAATGGCATCTTTTGTCTTCAAAGTTCACGACTCAATGGC-ATCTTTTCTTCA
129 AAGTCCATAACTCAATGGCATCTTTTTTCTTCAAAGTCCACGACTCAATGGCAATCTCTTC-TCA
* *
5690666 AAGCCCACAACTCTGTGGCACTCTT
193 AAGCCCACGACTCAGTGGCA-TCTT
5690691 TTTCCTTTTA
Statistics
Matches: 387, Mismatches: 42, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
218 8 0.02
219 51 0.13
220 126 0.33
221 44 0.11
222 151 0.39
223 3 0.01
224 4 0.01
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.33
Consensus pattern (220 bp):
TAAAGTCCACGACTTAGTGGCAATTTTTTCTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAA
GTTCACGACTTAGTGGCATCCTTTTCTTCCAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAA
GTCCATAACTCAATGGCATCTTTTTTCTTCAAAGTCCACGACTCAATGGCAATCTCTTCTCAAAG
CCCACGACTCAGTGGCATCTTGTCC
Found at i:5690737 original size:61 final size:61
Alignment explanation
Indices: 5690666--5690909 Score: 355
Period size: 61 Copynumber: 4.0 Consensus size: 61
5690656 CTTTTCTTCA
*
5690666 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* **
5690727 AAGCCCACAACTCCGTGGCACTCTTTTTTCTTTTAAGTCCACAACTCTATGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
5690788 AAGCCCACAACTCCGTGACACTTTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * * * * * *
5690849 AAGTCCACAACTCTGTGGTAC-CTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTT
5690910 TCCTTTTAAG
Statistics
Matches: 164, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
60 10 0.06
61 154 0.94
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.34
Consensus pattern (61 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:5690780 original size:95 final size:87
Alignment explanation
Indices: 5690670--5691003 Score: 295
Period size: 95 Copynumber: 3.6 Consensus size: 87
5690660 TCTTCAAAGC
* *
5690670 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-CCTTTTAAGCCCA
1 CCACAACTCTGTGGCA--CTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCCTTTTAAGTCCA
5690734 CAACTCCGTGGCACTCTTTTTTCTTTTAAGT
64 CAACTCCGTGGCAC-C------CTTTTAAGT
* *
5690765 CCACAACTCTATGGCAC-----CCTTTTAAGCCCACAACTCCGTGACACTTTTTTTCCTTTTAAG
1 CCACAACTCTGTGGCACTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC------TCCTTTTAAG
5690825 TCCACAACTCCGTGGCACCCTTTTAAGT
60 TCCACAACTCCGTGGCACCCTTTTAAGT
* * *
5690853 CCACAACTCTGTGGTACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTA
1 CCACAACTCTGTGGCA-CTTTTTCCTTTT-AAGCCCACAACTCCGTGGCA--C----TCCTTTTA
*
5690918 AGTCCATAACTCCGTGGCACCCTTTTAAGT
58 AGTCCACAACTCCGTGGCACCCTTTTAAGT
* * * *
5690948 CCACAACTCCGTGGCATCTTTCTCCTTTTAAGCCCACAAGTCAGTGGCAC-CCTTTT
1 CCACAACTCTGTGGCA-CTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCCTTTT
5691004 CAAAAGCCCA
Statistics
Matches: 206, Mismatches: 17, Indels: 40
0.78 0.06 0.15
Matches are distributed among these distances:
87 6 0.03
88 48 0.23
89 1 0.00
92 1 0.00
93 1 0.00
94 24 0.12
95 124 0.60
97 1 0.00
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (87 bp):
CCACAACTCTGTGGCACTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCCTTTTAAGTCCACA
ACTCCGTGGCACCCTTTTAAGT
Found at i:5691013 original size:30 final size:30
Alignment explanation
Indices: 5690977--5691101 Score: 143
Period size: 29 Copynumber: 4.3 Consensus size: 30
5690967 TTCTCCTTTT
5690977 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
* *
5691007 AAGCCCACAAATCAGTGGTACCCTTTTC-A
1 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
* *
5691036 AAGCCCACAAGTCAGTGGCA--ATCTTCAA
1 AAGCCCACAAGTCAGTGGCACCCTTTTCAA
* **
5691064 AAGCACACAAGTTGGT-GCAACCCTTTT-AA
1 AAGCCCACAAGTCAGTGGC-ACCCTTTTCAA
5691093 AAGCCCACA
1 AAGCCCACA
5691102 CAAGTTGGTG
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
27 6 0.08
28 15 0.19
29 29 0.37
30 29 0.37
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (30 bp):
AAGCCCACAAGTCAGTGGCACCCTTTTCAA
Found at i:5691073 original size:57 final size:58
Alignment explanation
Indices: 5690977--5691101 Score: 153
Period size: 57 Copynumber: 2.2 Consensus size: 58
5690967 TTCTCCTTTT
* * * ** *
5690977 AAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAATCAGTGGTACCCTTTTCA
1 AAGCCCACAAGTCAGTGGCA-CATCTTCAAAAGCACACAAATCAGTGCAACCCTTTTAA
* **
5691036 AAGCCCACAAGTCAGTGGCA-ATCTTCAAAAGCACACAAGTTGGTGCAACCCTTTTAA
1 AAGCCCACAAGTCAGTGGCACATCTTCAAAAGCACACAAATCAGTGCAACCCTTTTAA
5691093 AAGCCCACA
1 AAGCCCACA
5691102 CAAGTTGGTG
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 37 0.65
59 20 0.35
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (58 bp):
AAGCCCACAAGTCAGTGGCACATCTTCAAAAGCACACAAATCAGTGCAACCCTTTTAA
Found at i:5691207 original size:48 final size:48
Alignment explanation
Indices: 5691110--5691667 Score: 323
Period size: 48 Copynumber: 12.0 Consensus size: 48
5691100 CACAAGTTGG
* * * * ** *
5691110 TGGCATCTTCT-TCTAAGTCCAATATCACTGGCCTTGAATTATTATAT
1 TGGCATCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
* * *
5691157 TGGCATCTTGTCTCTAAGACCAATGTTGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
* *
5691205 TGG---C--A----TAAGCCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
* * *
5691244 CGGCACCTTATCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
* * * * *
5691292 TGG---C--A----TAAGCCCAATATCGTTGGCCCTAAATCAGCATAT
1 TGGCATCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
* * *
5691331 TGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCATCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
* * * * *
5691379 TGG---C--A---C-AAGCCCCATACCGCTGGCCTTGAATCAACATAT
1 TGGCATCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
5691418 TGGCACCTTCATCTTTAAGACC-ATGTCGTTGGCCTTGAATCAGCACAT
1 TGGCATCTT-ATCTCTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
5691466 TGGCACCTTAACCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACAT
1 TGGCATCTT----ATCTCTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
* * * * * *
5691518 TGGCATCTTCATCTTTAAGTCCAATATCGTTGGCATTGAATCAGTATAT
1 TGGCATCTT-ATCTCTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
* * * * * **
5691567 TGGCATTTTTAACATTCCTAAGCCCAATGTCGTTGGCCTTGTCTCAGCACAT
1 TGGCA-TCTTATC--T-CTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
5691619 TGGCATTCTTCT-TC-AAGTCTAATGTCGCTGGCCTTGAATCAGCACAT
1 TGGCA-TCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
5691666 TG
1 TG
5691668 TCATTCTTCT
Statistics
Matches: 402, Mismatches: 72, Indels: 74
0.73 0.13 0.14
Matches are distributed among these distances:
39 94 0.23
40 1 0.00
42 3 0.01
43 1 0.00
44 1 0.00
45 4 0.01
47 40 0.10
48 127 0.32
49 46 0.11
50 3 0.01
51 14 0.03
52 68 0.17
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (48 bp):
TGGCATCTTATCTCTAAGACCAATATCGCTGGCCTTGAATCAGCACAT
Found at i:5691230 original size:39 final size:39
Alignment explanation
Indices: 5691184--5691422 Score: 190
Period size: 39 Copynumber: 5.7 Consensus size: 39
5691174 GACCAATGTT
5691184 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATC
* * *
5691223 GCTGGCCTTGAATCAGCATATCGGCACCTTATCTTTAAGACCAATATC
1 GCTGGCCTTGAATCAGCACATTGG---C--A----TAAGCCCAATATC
5691271 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATC
1 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATC
* * * * * *
5691310 GTTGGCCCTAAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTC
1 GCTGGCCTTGAATCAGCACATTGGCA---------TAAGCCCAATATC
* * *
5691358 GCTGGCCTTGAATCAGCACATTGGCACAAGCCCCATACC
1 GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATC
* *
5691397 GCTGGCCTTGAATCAACATATTGGCA
1 GCTGGCCTTGAATCAGCACATTGGCA
5691423 CCTTCATCTT
Statistics
Matches: 159, Mismatches: 23, Indels: 36
0.73 0.11 0.17
Matches are distributed among these distances:
39 88 0.55
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
48 67 0.42
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
GCTGGCCTTGAATCAGCACATTGGCATAAGCCCAATATC
Found at i:5691275 original size:87 final size:87
Alignment explanation
Indices: 5691123--5691470 Score: 491
Period size: 87 Copynumber: 4.0 Consensus size: 87
5691113 CATCTTCTTC
* * * ** * * *
5691123 TAAGTCCAATATCACTGGCCTTGAATTATTATATTGGCATCTTGTCTCTAAGACCAATGTTGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTCTAAGACCAATGTCGCTG
5691188 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * *
5691210 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATCGGCACCTTATCTTTAAGACCAATATCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTCTAAGACCAATGTCGCTG
5691275 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * * *
5691297 TAAGCCCAATATCGTTGGCCCTAAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTCTAAGACCAATGTCGCTG
5691362 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * * * * *
5691384 CAAGCCCCATACCGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGACC-ATGTCGTT
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTCTAAGACCAATGTCGCT
5691448 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
5691471 CCTTAACCAT
Statistics
Matches: 232, Mismatches: 28, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
87 222 0.96
88 10 0.04
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTATCTCTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:5691507 original size:52 final size:49
Alignment explanation
Indices: 5691396--5691667 Score: 262
Period size: 52 Copynumber: 5.5 Consensus size: 49
5691386 AGCCCCATAC
* *
5691396 CGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGACC-ATGT
1 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGT
*
5691444 CGTTGGCCTTGAATCAGCACATTGGCACCTTAACCATCTTTAAGACCAATGT
1 CGCTGGCCTTGAATCAGCACATTGGCACCTT---CATCTTTAAGACCAATGT
* * * *
5691496 CACTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATAT
1 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGT
* * * * ** * * *
5691545 CGTTGGCATTGAATCAGTATATTGGCATTTTTAACATTCCTAAGCCCAATGT
1 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-TT--TAAGACCAATGT
* ** * * * *
5691597 CGTTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAATGT
1 CGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGT
5691644 CGCTGGCCTTGAATCAGCACATTG
1 CGCTGGCCTTGAATCAGCACATTG
5691668 TCATTCTTCT
Statistics
Matches: 185, Mismatches: 32, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
47 30 0.16
48 28 0.15
49 45 0.24
50 5 0.03
51 13 0.07
52 64 0.35
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
CGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGT
Found at i:5691604 original size:101 final size:100
Alignment explanation
Indices: 5691398--5691667 Score: 305
Period size: 101 Copynumber: 2.7 Consensus size: 100
5691388 CCCCATACCG
* * *
5691398 CTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGACC-ATGTCGTTGGCCTTGAATCAGC
1 CTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGC
*
5691462 ACATTGGCACCTTAACCATCTTTAAGACCAATGTCA
65 ACATTGGCACCTTAACCATCTCTAAGACCAATGTCA
* * *
5691498 CTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGTTGGCATTGAATCAGT
1 CTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGC
* ** * *
5691563 ATATTGGCATTTTTAA-CAT-TCCTAAGCCCAATGTCG
65 ACATTGGCA-CCTTAACCATCT-CTAAGACCAATGTCA
* ** * * * *
5691599 TTGGCCTTGTCTCAGCACATTGGCA-TTCTTCTTCAAGTCTAATGTCGCTGGCCTTGAATCAGCA
1 CTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCA
5691663 CATTG
66 CATTG
5691668 TCATTCTTCT
Statistics
Matches: 143, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
99 36 0.25
100 39 0.27
101 64 0.45
102 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (100 bp):
CTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCA
CATTGGCACCTTAACCATCTCTAAGACCAATGTCA
Found at i:5691699 original size:99 final size:100
Alignment explanation
Indices: 5691399--5691713 Score: 304
Period size: 101 Copynumber: 3.1 Consensus size: 100
5691389 CCCATACCGC
* * * *
5691399 TGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGACC-ATGTCGTTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCA-CTTCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCA
* * * **
5691463 CATTGGCA-CCTTAAC-CATCTTTAAGACCAATGTCAC
65 CATTGGCATTCTT--CTAATCTTTAAGCCCAATGTCGT
* * * *
5691499 TGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGTTGGCATTGAATCAGTA
1 TGGCCTTGAATCAGCACATTGGCA-CTTCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCA
*
5691564 TATTGGCATT-TT-TAA-CATTCCTAAGCCCAATGTCGT
65 CATTGGCATTCTTCTAATC-TT--TAAGCCCAATGTCGT
** * * *
5691600 TGGCCTTGTCTCAGCACATTGGCA-TTCTTCTTCAAGTCTAATGTCGCTGGCCTTGAATCAGCAC
1 TGGCCTTGAATCAGCACATTGGCACTTCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCAC
* *
5691664 ATTGTCATTCTTCTAATCTTTAAGCCCAATATCGT
66 ATTGGCATTCTTCTAATCTTTAAGCCCAATGTCGT
*
5691699 T-GACTGTGAATCAGC
1 TGGCCT-TGAATCAGC
5691714 GTATTGGTCC
Statistics
Matches: 177, Mismatches: 28, Indels: 21
0.78 0.12 0.09
Matches are distributed among these distances:
98 4 0.02
99 65 0.37
100 39 0.22
101 68 0.38
102 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (100 bp):
TGGCCTTGAATCAGCACATTGGCACTTCATCTTCAAGTCCAATGTCGTTGGCCTTGAATCAGCAC
ATTGGCATTCTTCTAATCTTTAAGCCCAATGTCGT
Found at i:5693772 original size:3 final size:3
Alignment explanation
Indices: 5693764--5693794 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
5693754 ATTTATTTAT
5693764 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5693795 AGGAGTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5699015 original size:14 final size:14
Alignment explanation
Indices: 5698996--5699031 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5698986 TTGATAATAA
5698996 TTTATTATT-TTTAT
1 TTTATT-TTATTTAT
5699010 TTTATTTTATTTAT
1 TTTATTTTATTTAT
5699024 TTTATTTT
1 TTTATTTT
5699032 TAAAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 2 0.10
14 19 0.90
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:5699502 original size:30 final size:28
Alignment explanation
Indices: 5699468--5699526 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 28
5699458 AATTTTTAAT
5699468 AATTTAATATTTTTTTAATATTTTAAAATA
1 AATTTAATATTTTTTT-AT-TTTTAAAATA
*
5699498 AATTTAATATTTTTTTATTTTTACAATA
1 AATTTAATATTTTTTTATTTTTAAAATA
5699526 A
1 A
5699527 TAATATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 10 0.36
29 2 0.07
30 16 0.57
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (28 bp):
AATTTAATATTTTTTTATTTTTAAAATA
Found at i:5699583 original size:8 final size:8
Alignment explanation
Indices: 5699572--5699601 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
5699562 TATAATATAT
5699572 AAATAAAA
1 AAATAAAA
*
5699580 AAATAACA
1 AAATAAAA
5699588 AAATAAAA
1 AAATAAAA
5699596 AAATAA
1 AAATAA
5699602 CATTTCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (8 bp):
AAATAAAA
Found at i:5699584 original size:16 final size:16
Alignment explanation
Indices: 5699572--5699603 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
5699562 TATAATATAT
5699572 AAATAAAAAAATAACA
1 AAATAAAAAAATAACA
5699588 AAATAAAAAAATAACA
1 AAATAAAAAAATAACA
5699604 TTTCATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.12
Consensus pattern (16 bp):
AAATAAAAAAATAACA
Found at i:5700235 original size:2 final size:2
Alignment explanation
Indices: 5700228--5700260 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
5700218 TGATTTCATC
5700228 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
5700261 GTGATTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:5700856 original size:14 final size:15
Alignment explanation
Indices: 5700829--5700928 Score: 61
Period size: 15 Copynumber: 6.9 Consensus size: 15
5700819 GTCATTTTTT
5700829 TTAATTTATATTATA
1 TTAATTTATATTATA
5700844 TTAATTT-TA-T-TA
1 TTAATTTATATTATA
* * *
5700856 TGAATTTAAAATATTA
1 TTAATTTATATTA-TA
*
5700872 TAAATTTATA-TA-A
1 TTAATTTATATTATA
* *
5700885 TTTATATATATATATA
1 TTAATTTATAT-TATA
*
5700901 TTAA-TTATTATTATT
1 TTAATTTA-TATTATA
5700916 TTAATTTAT-TTAT
1 TTAATTTATATTAT
5700929 CATGTAAATT
Statistics
Matches: 66, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
12 8 0.12
13 10 0.15
14 7 0.11
15 21 0.32
16 20 0.30
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (15 bp):
TTAATTTATATTATA
Found at i:5701108 original size:26 final size:26
Alignment explanation
Indices: 5701079--5701130 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
5701069 TAAATATAAC
5701079 TTTTATTAATTATTAATAATTTATTT
1 TTTTATTAATTATTAATAATTTATTT
* * **
5701105 TTTTATTGATTTTTAATTTTTTATTT
1 TTTTATTAATTATTAATAATTTATTT
5701131 AAGGACTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTATTAATTATTAATAATTTATTT
Found at i:5701201 original size:21 final size:22
Alignment explanation
Indices: 5701162--5701207 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
5701152 GTAATGTTAA
*
5701162 TTTAATTAACTTTAGAATTATC
1 TTTAATTAACTTTAAAATTATC
5701184 TTTAATTAA-TTTAAAATTATC
1 TTTAATTAACTTTAAAATTATC
5701205 TTT
1 TTT
5701208 CTAATTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTAATTAACTTTAAAATTATC
Found at i:5705243 original size:56 final size:56
Alignment explanation
Indices: 5705157--5705269 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
5705147 CTATACTAAA
* *
5705157 TTTAAACTGCTTATATCCATGCACTAGAATTAAATATTTGGTTGAATTTGGCAGTT
1 TTTAAACTGCTAATATCCATGCACTAGAATTAAATATTTGCTTGAATTTGGCAGTT
5705213 TTTAAACTGCTAATATCCATGCACTAGAATTAAATATTTGCTTGAATTTGGCAGTT
1 TTTAAACTGCTAATATCCATGCACTAGAATTAAATATTTGCTTGAATTTGGCAGTT
5705269 T
1 T
5705270 GCTGATGCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (56 bp):
TTTAAACTGCTAATATCCATGCACTAGAATTAAATATTTGCTTGAATTTGGCAGTT
Found at i:5709023 original size:20 final size:20
Alignment explanation
Indices: 5708998--5709048 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
5708988 GTTACAAGCA
*
5708998 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
5709018 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
5709038 ATGTATCGATA
1 ATGTATCGATA
5709049 TAAACAGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:5709124 original size:19 final size:18
Alignment explanation
Indices: 5709079--5709136 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 18
5709069 ACTACCAGTT
5709079 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
5709098 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
5709117 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
5709136 T
1 T
5709137 ATCGATACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.54
20 16 0.43
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:5709138 original size:13 final size:13
Alignment explanation
Indices: 5709120--5709146 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5709110 TACAATGATC
5709120 ATGTATCGATACA
1 ATGTATCGATACA
5709133 ATGTATCGATACA
1 ATGTATCGATACA
5709146 A
1 A
5709147 AGCATAATGT
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):
ATGTATCGATACA
Found at i:5709162 original size:33 final size:32
Alignment explanation
Indices: 5709101--5709164 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
5709091 ACAATTGTCC
* *
5709101 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
5709133 ATGTATCGATACAAAGCATAATGTATCGATAC
1 ATGTATCGATACAAAG-ATAATGTATCGATAC
5709165 TTTTGGGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:5714747 original size:13 final size:13
Alignment explanation
Indices: 5714729--5714754 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5714719 CAATTTTTTG
5714729 TGTATCGATACAT
1 TGTATCGATACAT
5714742 TGTATCGATACAT
1 TGTATCGATACAT
5714755 ACTTGCTGTA
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:5719033 original size:20 final size:20
Alignment explanation
Indices: 5719008--5719062 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
5718998 CATTACAACA
5719008 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
5719028 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
5719048 ATGTATCGATACAAT
1 ATGTATCGATACAAT
5719063 GTATCGATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:5719065 original size:33 final size:33
Alignment explanation
Indices: 5719028--5719094 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
5719018 ACAATTCATC
*
5719028 ATGTATCGATACAAT-TCATCATGTATCGATACA
1 ATGTATCGATACAATGT-ACCATGTATCGATACA
*
5719061 ATGTATCGATATAATGTACCATGTATCGATACA
1 ATGTATCGATACAATGTACCATGTATCGATACA
5719094 A
1 A
5719095 ACAATGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAATGTACCATGTATCGATACA
Found at i:5719066 original size:13 final size:13
Alignment explanation
Indices: 5719005--5719078 Score: 55
Period size: 13 Copynumber: 6.6 Consensus size: 13
5718995 AACCATTACA
5719005 ACAATGTATCGAT
1 ACAATGTATCGAT
5719018 ACAA--T-TC-AT
1 ACAATGTATCGAT
5719027 -C-ATGTATCGAT
1 ACAATGTATCGAT
5719038 ACAA--T-TC-AT
1 ACAATGTATCGAT
5719047 -C-ATGTATCGAT
1 ACAATGTATCGAT
5719058 ACAATGTATCGAT
1 ACAATGTATCGAT
*
5719071 ATAATGTA
1 ACAATGTA
5719079 CCATGTATCG
Statistics
Matches: 48, Mismatches: 1, Indels: 24
0.66 0.01 0.33
Matches are distributed among these distances:
7 2 0.04
8 2 0.04
9 6 0.12
10 8 0.17
11 6 0.12
12 2 0.04
13 22 0.46
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:5719167 original size:19 final size:19
Alignment explanation
Indices: 5719122--5719179 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
5719112 ACTACCAGTT
*
5719122 TCATGTATTGATACAATTG
1 TCATGTATCGATACAATTG
5719141 TCCATGTATCGATACAA-TG
1 T-CATGTATCGATACAATTG
5719160 ATCATGTATCGATAC-ATTG
1 -TCATGTATCGATACAATTG
5719179 T
1 T
5719180 ATCGATACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
18 2 0.06
19 18 0.51
20 15 0.43
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:5722548 original size:10 final size:10
Alignment explanation
Indices: 5722529--5722559 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
5722519 GTATCGATAC
*
5722529 ATGAACAGTG
1 ATGAATAGTG
5722539 ATGAATAGTG
1 ATGAATAGTG
5722549 ATGAATAGTG
1 ATGAATAGTG
5722559 A
1 A
5722560 AAATGAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.29, T:0.26
Consensus pattern (10 bp):
ATGAATAGTG
Found at i:5722665 original size:53 final size:53
Alignment explanation
Indices: 5722585--5722720 Score: 209
Period size: 53 Copynumber: 2.5 Consensus size: 53
5722575 AATACCAATG
* * *
5722585 TATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACCTA
1 TATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTACCAATGACCTA
* * *
5722638 TATCGATACATATTGTATGTATCGATACAAATTTGGCTACTACCAATGTCCTG
1 TATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTACCAATGACCTA
5722691 TATCGATACATATTTGTGTGTATCGATACA
1 TATCGATACATA-TTGTGTGTATCGATACA
5722721 TTTAAATGTG
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
53 59 0.79
54 16 0.21
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (53 bp):
TATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTACCAATGACCTA
Found at i:5722714 original size:20 final size:20
Alignment explanation
Indices: 5722689--5722739 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
5722679 ACCAATGTCC
**
5722689 TGTATCGATACATATT-TGTG
1 TGTATCGATACAT-TTAAATG
5722709 TGTATCGATACATTTAAATG
1 TGTATCGATACATTTAAATG
5722729 TGTATCGATAC
1 TGTATCGATAC
5722740 TTTTCAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTTAAATG
Found at i:5728852 original size:78 final size:79
Alignment explanation
Indices: 5728746--5728947 Score: 228
Period size: 78 Copynumber: 2.6 Consensus size: 79
5728736 TAATAACAGG
* * * * * * *
5728746 GTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGAGGA-TTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATC-AAGATTTA
* *
5728810 GAAAAAAAATCGGGA
65 GAAAAAAAAGCCGGA
* * *
5728825 -TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTG
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAGATTTAG
** *
5728889 GGAATAAAGCCGGA
66 AAAAAAAAGCCGGA
* *
5728903 GTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
5728948 GAAATAACGA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
77 2 0.02
78 60 0.58
79 41 0.40
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (79 bp):
GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAGATTTAG
AAAAAAAAGCCGGA
Found at i:5728943 original size:28 final size:28
Alignment explanation
Indices: 5728903--5728970 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
5728893 TAAAGCCGGA
** * *
5728903 GTTGGAGTATCCCCTCGGAAGTAACGGG
1 GTTGGAGTATCCCCGAGGAAATAACGAG
*
5728931 GTTGGAGTATCCCCGATGAAATAACGAG
1 GTTGGAGTATCCCCGAGGAAATAACGAG
5728959 GTTGGAGTATCC
1 GTTGGAGTATCC
5728971 TCGATTATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (28 bp):
GTTGGAGTATCCCCGAGGAAATAACGAG
Found at i:5729022 original size:52 final size:52
Alignment explanation
Indices: 5728959--5729292 Score: 188
Period size: 52 Copynumber: 6.3 Consensus size: 52
5728949 AAATAACGAG
*
5728959 GTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGA
* * ** * *
5729011 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * * *
5729064 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* **** * * *
5729115 GTTGGAGTATCCCC--TCA-GAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTATGAAA-AA-----TTGGTA-T-TTTTGGA-AATAAAATCGGA
* *
5729170 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGA
* * * *
5729224 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
* *
5729275 GTTGGAATATCCTCGATT
1 GTTGGAGTATCCCCGATT
5729293 GTGGAGAATT
Statistics
Matches: 213, Mismatches: 43, Indels: 53
0.69 0.14 0.17
Matches are distributed among these distances:
48 4 0.02
49 2 0.01
50 1 0.00
51 36 0.17
52 79 0.37
53 34 0.16
54 28 0.13
55 18 0.08
56 2 0.01
57 3 0.01
58 5 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:5729155 original size:28 final size:27
Alignment explanation
Indices: 5729115--5729183 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
5729105 TAAAACCGGA
5729115 GTTGGAGTATCCCCTCA-GAAATAACGGG
1 GTTGGAGTATCCCC-CATG-AATAACGGG
* *
5729143 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCCATGAATAACGGG
5729170 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
5729184 GATTGTGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (27 bp):
GTTGGAGTATCCCCCATGAATAACGGG
Found at i:5729198 original size:107 final size:105
Alignment explanation
Indices: 5728845--5729237 Score: 332
Period size: 107 Copynumber: 3.7 Consensus size: 105
5728835 CCCTCGAAAA
* * * * * *
5728845 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGAGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTTGGAATAAAACCGGAGTTGGAG
* *
5728910 TATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
66 TATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * * *
5728952 TAACGAGGTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTTGG-AATAAAACCGGAGTTGGA
* * ** * ** **
5729017 GTAT-CCC-CG-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
65 GTATCCCCTCGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * * * * *
5729054 AAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG-ATAAAACCGGAGTT
1 -TAA-CGGGGTTGGAGTATCCCCGATTAT-GAAAAATTAGTATTTTTG-GAATAAAACCGGAGTT
5729118 GGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAT
62 GGAGTATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATGAT
* * * * *
5729163 TAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 TAACGGGGTTGGAGTATCCCCGATTATGAA-AAATTAGT-ATTTTTGG-AATAAAACCGGAGTTG
5729228 GAGTATCCCC
63 GAGTATCCCC
5729238 GATTATAGAA
Statistics
Matches: 221, Mismatches: 47, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 45 0.20
105 20 0.09
106 18 0.08
107 73 0.33
108 33 0.15
109 27 0.12
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (105 bp):
TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTTGGAATAAAACCGGAGTTGGAG
TATCCCCTCGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:5729251 original size:212 final size:212
Alignment explanation
Indices: 5728892--5729297 Score: 629
Period size: 212 Copynumber: 1.9 Consensus size: 212
5728882 TATTTTGGGA
* * *
5728892 ATAAAGCCGGAGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
5728957 AGGTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 AGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
* *
5729022 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGA
131 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTGGA
5729086 AAAATTAGTGTTTTAGCG
195 AAAATTAGTGTTTTAGCG
*
5729104 ATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* * *
5729168 GGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTA
66 AGGTTGGAGTATCCCCGATTATGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTA
* * * *
5729233 TCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGG
129 TCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGG
5729297 A
194 A
5729298 GAATTGATAA
Statistics
Matches: 176, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 31 0.18
212 106 0.60
213 39 0.22
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
AGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAA
AAATTAGTGTTTTAGCG
Found at i:5729270 original size:51 final size:53
Alignment explanation
Indices: 5729174--5729292 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 53
5729164 AACGGGGTTG
* * *
5729174 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
5729228 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
* *
5729279 GAATATCCTCGATT
1 GAGTATCCCCGATT
5729293 GTGGAGAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 33 0.57
52 2 0.03
53 8 0.14
54 15 0.26
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:5731680 original size:13 final size:13
Alignment explanation
Indices: 5731662--5731687 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5731652 ACAAAGATCC
5731662 ATGTATCGATACA
1 ATGTATCGATACA
5731675 ATGTATCGATACA
1 ATGTATCGATACA
5731688 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:5731683 original size:33 final size:33
Alignment explanation
Indices: 5731641--5731707 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5731631 AAAATTTCCA
***
5731641 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
5731674 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
5731707 A
1 A
5731708 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:5731751 original size:19 final size:18
Alignment explanation
Indices: 5731727--5731794 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
5731717 CAGTAGCTAA
5731727 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
5731746 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
5731761 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
5731778 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
5731795 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:5731767 original size:13 final size:13
Alignment explanation
Indices: 5731749--5731773 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5731739 ACAATACTTA
5731749 TGTATCGATACAT
1 TGTATCGATACAT
5731762 TGTATCGATACA
1 TGTATCGATACA
5731774 AAACTTATGT
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:5731771 original size:32 final size:32
Alignment explanation
Indices: 5731730--5731792 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
5731720 TAGCTAATTA
*
5731730 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
5731762 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
5731793 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:5731874 original size:21 final size:21
Alignment explanation
Indices: 5731850--5731906 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
5731840 CATTTGTAGG
5731850 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
5731871 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
5731892 ATGTATCGATACATT
1 ATGTATCGATACATT
5731907 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:5731917 original size:1 final size:1
Alignment explanation
Indices: 5731911--5731956 Score: 65
Period size: 1 Copynumber: 46.0 Consensus size: 1
5731901 TACATTTAAA
***
5731911 TTTTTTTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5731957 CAAACACTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.04, C:0.02, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:5731944 original size:23 final size:23
Alignment explanation
Indices: 5731914--5731959 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
5731904 ATTTAAATTT
5731914 TTTTTTTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTTTTTTCAA
5731937 TTTTTTTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTTTTTTCAA
5731960 ACACTTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.04, G:0.00, T:0.87
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTTTTTTCAA
Found at i:5732636 original size:55 final size:55
Alignment explanation
Indices: 5732552--5733229 Score: 1025
Period size: 55 Copynumber: 12.3 Consensus size: 55
5732542 ATAAGTTGTA
* * ** * *
5732552 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
5732607 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
5732662 TCCTGCTCTTTGGGGAAT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
5732717 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
5732772 TCCTGTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
5732827 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
5732882 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
5732937 TCCTGCTCTTTGAGGACTGGACAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGA-AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
5732992 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
5733047 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
5733102 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
5733157 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAACGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
5733212 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
5733230 AAAAAGCGGA
Statistics
Matches: 586, Mismatches: 23, Indels: 28
0.92 0.04 0.04
Matches are distributed among these distances:
53 2 0.00
54 15 0.03
55 551 0.94
56 16 0.03
57 2 0.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:5732936 original size:29 final size:29
Alignment explanation
Indices: 5732848--5732936 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
5732838 GAGGACTGAA
5732848 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
** * *
5732877 AGGTGTCCTGC-TCTT-TG-GGGAC-TGAA-
1 AGGTG-CCACCAACTTGTGTGGG-CTTTAAG
5732903 AGGTGCCACCAACTTGTGTGGGCTTTAAG
1 AGGTGCCACCAACTTGTGTGGGCTTTAAG
5732932 AGGTG
1 AGGTG
5732937 TCCTGCTCTT
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 3 0.07
26 8 0.18
27 9 0.20
28 9 0.20
29 13 0.29
30 3 0.07
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (29 bp):
AGGTGCCACCAACTTGTGTGGGCTTTAAG
Found at i:5734214 original size:1 final size:1
Alignment explanation
Indices: 5734210--5734267 Score: 71
Period size: 1 Copynumber: 58.0 Consensus size: 1
5734200 CTTTTCTCTC
* * * * *
5734210 TTTTTCTTTGTTTTGTTTTTTTTGTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5734268 GAAGAGAAGG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:5734238 original size:25 final size:24
Alignment explanation
Indices: 5734210--5734268 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 24
5734200 CTTTTCTCTC
*
5734210 TTTTTCTTTGTTTTGTTTTTTTTGT
1 TTTTTTTTTGTTTTGTTTTTTTT-T
*
5734235 TTTTTTTTTTTTTTGTTTTTTTTT
1 TTTTTTTTTGTTTTGTTTTTTTTT
5734259 TTTTTTTTTG
1 TTTTTTTTTG
5734269 AAGAGAAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
24 10 0.32
25 21 0.68
ACGTcount: A:0.00, C:0.02, G:0.08, T:0.90
Consensus pattern (24 bp):
TTTTTTTTTGTTTTGTTTTTTTTT
Found at i:5746786 original size:78 final size:79
Alignment explanation
Indices: 5746680--5746881 Score: 228
Period size: 78 Copynumber: 2.6 Consensus size: 79
5746670 TAATAACAGG
* * * * * * *
5746680 GTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGAGGA-TTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATC-AAGATTTA
* *
5746744 GAAAAAAAATCGGGA
65 GAAAAAAAAGCCGGA
* * *
5746759 -TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTG
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAGATTTAG
** *
5746823 GGAATAAAGCCGGA
66 AAAAAAAAGCCGGA
* *
5746837 GTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
5746882 GAAATAACGA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
77 2 0.02
78 60 0.58
79 41 0.40
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (79 bp):
GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAGATTTAG
AAAAAAAAGCCGGA
Found at i:5746877 original size:28 final size:28
Alignment explanation
Indices: 5746837--5746904 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
5746827 TAAAGCCGGA
** * *
5746837 GTTGGAGTATCCCCTCGGAAGTAACGGG
1 GTTGGAGTATCCCCGAGGAAATAACGAG
*
5746865 GTTGGAGTATCCCCGATGAAATAACGAG
1 GTTGGAGTATCCCCGAGGAAATAACGAG
5746893 GTTGGAGTATCC
1 GTTGGAGTATCC
5746905 TCGATTATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (28 bp):
GTTGGAGTATCCCCGAGGAAATAACGAG
Found at i:5746956 original size:52 final size:52
Alignment explanation
Indices: 5746893--5747226 Score: 188
Period size: 52 Copynumber: 6.3 Consensus size: 52
5746883 AAATAACGAG
*
5746893 GTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGA
* * ** * *
5746945 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTTGGAAATAAAATC-GGA
* * * * *
5746998 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG--ATAAAACCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAAATTGGTATTTTTG-GAAATAAAATCGGA
* **** * * *
5747049 GTTGGAGTATCCCC--TCA-GAAATAACGGGGTTGG-AGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTATGAAA-AA-----TTGGTA-T-TTTTGGA-AATAAAATCGGA
* *
5747104 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGA
* * * *
5747158 GTTAGAGTATCCCCGATTAT-AGAAAATTAGT-GTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTGGTATTTTTGGAAATAAAATCGGA
* *
5747209 GTTGGAATATCCTCGATT
1 GTTGGAGTATCCCCGATT
5747227 GTGGAGAATT
Statistics
Matches: 213, Mismatches: 43, Indels: 53
0.69 0.14 0.17
Matches are distributed among these distances:
48 4 0.02
49 2 0.01
50 1 0.00
51 36 0.17
52 79 0.37
53 34 0.16
54 28 0.13
55 18 0.08
56 2 0.01
57 3 0.01
58 5 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGA
Found at i:5747089 original size:28 final size:27
Alignment explanation
Indices: 5747049--5747117 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
5747039 TAAAACCGGA
5747049 GTTGGAGTATCCCCTCA-GAAATAACGGG
1 GTTGGAGTATCCCC-CATG-AATAACGGG
* *
5747077 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCCATGAATAACGGG
5747104 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
5747118 GATTGTGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (27 bp):
GTTGGAGTATCCCCCATGAATAACGGG
Found at i:5747132 original size:107 final size:105
Alignment explanation
Indices: 5746779--5747171 Score: 332
Period size: 107 Copynumber: 3.7 Consensus size: 105
5746769 CCCTCGAAAA
* * * * * *
5746779 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGAGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTTGGAATAAAACCGGAGTTGGAG
* *
5746844 TATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
66 TATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * * *
5746886 TAACGAGGTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
1 TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTTGG-AATAAAACCGGAGTTGGA
* * ** * ** **
5746951 GTAT-CCC-CG-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
65 GTATCCCCTCGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * * * * *
5746988 AAAACCAGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCG-ATAAAACCGGAGTT
1 -TAA-CGGGGTTGGAGTATCCCCGATTAT-GAAAAATTAGTATTTTTG-GAATAAAACCGGAGTT
5747052 GGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAT
62 GGAGTATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATGAT
* * * * *
5747097 TAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 TAACGGGGTTGGAGTATCCCCGATTATGAA-AAATTAGT-ATTTTTGG-AATAAAACCGGAGTTG
5747162 GAGTATCCCC
63 GAGTATCCCC
5747172 GATTATAGAA
Statistics
Matches: 221, Mismatches: 47, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
102 1 0.00
103 4 0.02
104 45 0.20
105 20 0.09
106 18 0.08
107 73 0.33
108 33 0.15
109 27 0.12
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (105 bp):
TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTTGGAATAAAACCGGAGTTGGAG
TATCCCCTCGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:5747185 original size:212 final size:212
Alignment explanation
Indices: 5746826--5747231 Score: 629
Period size: 212 Copynumber: 1.9 Consensus size: 212
5746816 TATTTTGGGA
* * *
5746826 ATAAAGCCGGAGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* *
5746891 AGGTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATC
66 AGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
* *
5746956 CCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGA
131 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTGGA
5747020 AAAATTAGTGTTTTAGCG
195 AAAATTAGTGTTTTAGCG
*
5747038 ATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACG
1 ATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
* * *
5747102 GGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTA
66 AGGTTGGAGTATCCCCGATTATGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTAGAGTA
* * * *
5747167 TCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGG
129 TCCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGG
5747231 A
194 A
5747232 GAATTGATAA
Statistics
Matches: 176, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 31 0.18
212 106 0.60
213 39 0.22
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
ATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACG
AGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATC
CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAA
AAATTAGTGTTTTAGCG
Found at i:5747204 original size:51 final size:53
Alignment explanation
Indices: 5747108--5747226 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 53
5747098 AACGGGGTTG
* * *
5747108 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
5747162 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
* *
5747213 GAATATCCTCGATT
1 GAGTATCCCCGATT
5747227 GTGGAGAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 33 0.57
52 2 0.03
53 8 0.14
54 15 0.26
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:5749614 original size:13 final size:13
Alignment explanation
Indices: 5749596--5749621 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5749586 ACAAAGATCC
5749596 ATGTATCGATACA
1 ATGTATCGATACA
5749609 ATGTATCGATACA
1 ATGTATCGATACA
5749622 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:5749617 original size:33 final size:33
Alignment explanation
Indices: 5749575--5749641 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5749565 AAAATTTCCA
***
5749575 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
5749608 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
5749641 A
1 A
5749642 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:5749685 original size:19 final size:18
Alignment explanation
Indices: 5749661--5749728 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
5749651 CAGTAGCTAA
5749661 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
5749680 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
5749695 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
5749712 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
5749729 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:5749701 original size:13 final size:13
Alignment explanation
Indices: 5749683--5749707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5749673 ACAATACTTA
5749683 TGTATCGATACAT
1 TGTATCGATACAT
5749696 TGTATCGATACA
1 TGTATCGATACA
5749708 AAACTTATGT
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:5749705 original size:32 final size:32
Alignment explanation
Indices: 5749664--5749726 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
5749654 TAGCTAATTA
*
5749664 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
5749696 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
5749727 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:5749808 original size:21 final size:21
Alignment explanation
Indices: 5749784--5749840 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
5749774 CATTTGTAGG
5749784 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
5749805 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
5749826 ATGTATCGATACATT
1 ATGTATCGATACATT
5749841 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:5749851 original size:1 final size:1
Alignment explanation
Indices: 5749845--5749888 Score: 61
Period size: 1 Copynumber: 44.0 Consensus size: 1
5749835 TACATTTAAA
***
5749845 TTTTTTTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5749889 CAAACACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.05, C:0.02, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:5749876 original size:21 final size:21
Alignment explanation
Indices: 5749850--5749891 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
5749840 TTAAATTTTT
5749850 TTTTTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTTTTCAA
5749871 TTTTTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTTTTCAA
5749892 ACACTTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.86
Consensus pattern (21 bp):
TTTTTTTTTTTTTTTTTTCAA
Found at i:5751383 original size:8 final size:8
Alignment explanation
Indices: 5751370--5751395 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
5751360 TCAATTTATT
5751370 ATTAAATA
1 ATTAAATA
5751378 ATTAAATA
1 ATTAAATA
5751386 ATTAAATA
1 ATTAAATA
5751394 AT
1 AT
5751396 CATTATGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTAAATA
Found at i:5753674 original size:39 final size:39
Alignment explanation
Indices: 5753620--5753699 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
5753610 ACTTAAAAAA
*
5753620 GACTTTAAAAGATGTGCATTGACACAAAGGTTCTCACAT
1 GACTTTAAAAGATGTGCATTGACACAAAGGTTCCCACAT
* *
5753659 GACTTTAATAGATGTGTATTGACACAAAGGTTCCCACAT
1 GACTTTAAAAGATGTGCATTGACACAAAGGTTCCCACAT
5753698 GA
1 GA
5753700 TCCTAAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (39 bp):
GACTTTAAAAGATGTGCATTGACACAAAGGTTCCCACAT
Found at i:5756714 original size:21 final size:20
Alignment explanation
Indices: 5756688--5756744 Score: 96
Period size: 21 Copynumber: 2.8 Consensus size: 20
5756678 TACATGTTGC
5756688 AATGTATCGATACATGAAAAA
1 AATGTATCGATACAT-AAAAA
5756709 AATGTATCGATACATAAAAA
1 AATGTATCGATACATAAAAA
5756729 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
5756745 TTCTTGGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.17
21 29 0.83
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACATAAAAA
Found at i:5756801 original size:13 final size:13
Alignment explanation
Indices: 5756783--5756808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5756773 TACAGCAAGT
5756783 ATGTATCGATACA
1 ATGTATCGATACA
5756796 ATGTATCGATACA
1 ATGTATCGATACA
5756809 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:5760890 original size:15 final size:15
Alignment explanation
Indices: 5760870--5760900 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5760860 TAAAAATGTC
*
5760870 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
5760885 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
5760900 C
1 C
5760901 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:5762994 original size:13 final size:13
Alignment explanation
Indices: 5762972--5763009 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
5762962 CATTTTTATT
*
5762972 TGTATTGATACAA
1 TGTATCGATACAA
*
5762985 TGTATCGATACAC
1 TGTATCGATACAA
5762998 TGTATCGATACA
1 TGTATCGATACA
5763010 GGGTGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5764917 original size:48 final size:48
Alignment explanation
Indices: 5764846--5764941 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
5764836 GGGGAGATAA
*
5764846 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAAAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
5764894 AGGAGAAAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAAAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
5764942 CGTAAAATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (48 bp):
AGGAGAAAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
Found at i:5765518 original size:20 final size:20
Alignment explanation
Indices: 5765495--5765567 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
5765485 ACAATTCAAA
5765495 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
5765515 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
5765536 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
5765556 GTATCGATACAT
1 GTATCGATACAT
5765568 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:5765538 original size:21 final size:21
Alignment explanation
Indices: 5765512--5765588 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
5765502 TACATGTTGC
5765512 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
5765533 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
5765553 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
5765573 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
5765589 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:5765546 original size:41 final size:41
Alignment explanation
Indices: 5765495--5765588 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
5765485 ACAATTCAAA
5765495 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
5765536 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
5765577 GTATCGATACAT
1 GTATCGATACAT
5765589 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:5765645 original size:13 final size:13
Alignment explanation
Indices: 5765627--5765652 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5765617 TACAGCAAGT
5765627 ATGTATCGATACA
1 ATGTATCGATACA
5765640 ATGTATCGATACA
1 ATGTATCGATACA
5765653 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:5768080 original size:49 final size:49
Alignment explanation
Indices: 5767925--5768210 Score: 282
Period size: 49 Copynumber: 5.9 Consensus size: 49
5767915 AATGATAATG
* * * * *
5767925 TGCTGATTCATGGCCAACGACATTAGACTTGAAGAAG-A-ATGCCAATG
1 TGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGCCAATA
** * * * * *
5767972 TGCTGAGACAAGGCCAGCGACATCGGGCTTAGGAATGTTAAAGATGCCAATA
1 TGCTGATTCAAGGCCAACGACATTGGACTTA--AA-GATGAAGATGCCAATA
* * * * *
5768024 TGCTGATTTAAGGCCAACGATATCGGACTTAAAGATGAAGATACCAATG
1 TGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGCCAATA
* *
5768073 TGCTGATTCAAGGCCGATGACATTGGACTT-AA-A-G--G-TGCCAATA
1 TGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGCCAATA
* *
5768116 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGCCAATA
* *
5768165 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGAAGATGCCA
1 TGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGCCA
5768211 CCAACTTGTG
Statistics
Matches: 193, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
43 32 0.17
44 3 0.02
45 1 0.01
46 2 0.01
47 24 0.12
48 3 0.02
49 91 0.47
50 3 0.02
51 1 0.01
52 33 0.17
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:5768169 original size:92 final size:92
Alignment explanation
Indices: 5768009--5768201 Score: 307
Period size: 92 Copynumber: 2.1 Consensus size: 92
5767999 CTTAGGAATG
* * *
5768009 TTAAAGATGCCAATATGCTGATTTAAGGCCAACGATATCGGACTTAAAGATGAAGATACCAATGT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGATACCAATAT
*
5768074 GCTGATTCAAGGCC-GATGACATTGGAC
66 GCTGATTCAAGGCCAG-CGACATTGGAC
* * *
5768101 TTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATAT
1 TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGATACCAATAT
5768166 GCTGATTCAAGGCCAGCGACATTGGAC
66 GCTGATTCAAGGCCAGCGACATTGGAC
5768193 TTAAAGGTG
1 TTAAAGGTG
5768202 AAGATGCCAC
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
92 92 0.99
93 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (92 bp):
TTAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATCGGACTTAAAGATGAAGATACCAATAT
GCTGATTCAAGGCCAGCGACATTGGAC
Found at i:5768306 original size:57 final size:57
Alignment explanation
Indices: 5768219--5768435 Score: 228
Period size: 57 Copynumber: 3.8 Consensus size: 57
5768209 CACCAACTTG
* * * * *
5768219 TGTGGGCTTTTGAAAGAGTTGCACCA--ACTTGCGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAA-AGATGC-CAATGACTTGTGGGCTTTTGAAGGTTACCACTGACT
* * *
5768276 TGCGGGCTTTTGAAAAGATGCCAATGACTTGTGGGC-TTTGAAAAGGGTACTACTGACT
1 TGTGGGCTTTTGAAAAGATGCCAATGACTTGTGGGCTTTTG--AAGGTTACCACTGACT
* * *
5768334 TATGGGC-TTTGAAAGGGGTGCC-ATCGACTTGTGGGCTTTTGAAGGTTACCACTGACT
1 TGTGGGCTTTTGAAA-AGATGCCAAT-GACTTGTGGGCTTTTGAAGGTTACCACTGACT
* *
5768391 TGTGGGCTTTGGAAAAGATGCCATTGACTTGTGGGCTTTTGAAGG
1 TGTGGGCTTTTGAAAAGATGCCAATGACTTGTGGGCTTTTGAAGG
5768436 GTGAGGTATG
Statistics
Matches: 132, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
55 2 0.02
56 9 0.07
57 76 0.58
58 41 0.31
59 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.32
Consensus pattern (57 bp):
TGTGGGCTTTTGAAAAGATGCCAATGACTTGTGGGCTTTTGAAGGTTACCACTGACT
Found at i:5768311 original size:29 final size:29
Alignment explanation
Indices: 5768219--5768433 Score: 172
Period size: 29 Copynumber: 7.5 Consensus size: 29
5768209 CACCAACTTG
* **
5768219 TGTGGGCTTTTGAAAGAGTTG-CACCAACT
1 TGTGGGCTTTTGAAA-AGATGCCACTGACT
* * * *
5768248 TGCGTGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
5768276 TGCGGGCTTTTGAAAAGATGCCAATGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* * *
5768305 TGTGGGC-TTTGAAAAGGGTACTACTGACT
1 TGTGGGCTTTTGAAAA-GATGCCACTGACT
* * *
5768334 TATGGGC-TTTGAAAGGGGTGCCA-TCGACT
1 TGTGGGCTTTTGAAA-AGATGCCACT-GACT
* * *
5768363 TGTGGGCTTTTG-AAGGTTACCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
5768391 TGTGGGCTTTGGAAAAGATGCCATTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
5768420 TGTGGGCTTTTGAA
1 TGTGGGCTTTTGAA
5768434 GGGTGAGGTA
Statistics
Matches: 151, Mismatches: 27, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
27 4 0.03
28 49 0.32
29 94 0.62
30 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.32
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAAGATGCCACTGACT
Found at i:5769877 original size:3 final size:3
Alignment explanation
Indices: 5769869--5769902 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
5769859 CGGACCCTTC
*
5769869 TTG TTG TTG TT- TTT TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
5769903 TTTTTTTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.00, C:0.00, G:0.26, T:0.74
Consensus pattern (3 bp):
TTG
Found at i:5769894 original size:20 final size:20
Alignment explanation
Indices: 5769869--5769966 Score: 80
Period size: 19 Copynumber: 5.0 Consensus size: 20
5769859 CGGACCCTTC
5769869 TTGTTGTTGTT-TTTTTGTTG
1 TTGTTGTTGTTGTTTTT-TTG
5769889 TTGTTGTTGTTGTTTTTTT-
1 TTGTTGTTGTTGTTTTTTTG
* **
5769908 TTGTTTTTGTTTGTCGTTTT-
1 TTGTTGTTG-TTGTTTTTTTG
* *
5769928 TT-TTGTCTCTTTTTTTTTTG
1 TTGTTGT-TGTTGTTTTTTTG
*
5769948 TT-TTGTTGTTTTTTTTTTG
1 TTGTTGTTGTTGTTTTTTTG
5769967 CGGAAGATGC
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
19 30 0.46
20 30 0.46
21 5 0.08
ACGTcount: A:0.00, C:0.03, G:0.18, T:0.79
Consensus pattern (20 bp):
TTGTTGTTGTTGTTTTTTTG
Found at i:5769899 original size:23 final size:22
Alignment explanation
Indices: 5769869--5769931 Score: 90
Period size: 23 Copynumber: 2.8 Consensus size: 22
5769859 CGGACCCTTC
5769869 TTGTTGTTGTTTTTTTGTTGTTG
1 TTGTTGTTGTTTTTTT-TTGTTG
*
5769892 TTGTTGTTGTTTTTTTTTGTTT
1 TTGTTGTTGTTTTTTTTTGTTG
*
5769914 TTGTTTGTCGTTTTTTTT
1 TTG-TTGTTGTTTTTTTT
5769932 GTCTCTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.22
23 29 0.78
ACGTcount: A:0.00, C:0.02, G:0.21, T:0.78
Consensus pattern (22 bp):
TTGTTGTTGTTTTTTTTTGTTG
Done.