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 26 of 38
Found at i:3976973 original size:33 final size:33
Alignment explanation
Indices: 3976931--3976997 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3976921 GCCAAGGAAA
***
3976931 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3976964 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3976997 T
1 T
3976998 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3979565 original size:51 final size:51
Alignment explanation
Indices: 3979503--3979673 Score: 207
Period size: 51 Copynumber: 3.3 Consensus size: 51
3979493 TTATTTCTGA
* * *
3979503 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
3979554 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** *
3979607 GGGGATACTCCAATTCCGATTTTATTTTCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
3979659 GAGGATACTCCAACC
1 GGGGATACTCCAACC
3979674 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.18
53 33 0.34
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:3979692 original size:28 final size:28
Alignment explanation
Indices: 3979656--3979737 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
3979646 ATTTTTCACA
*
3979656 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
3979684 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
3979712 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
3979738 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:3982271 original size:34 final size:34
Alignment explanation
Indices: 3982228--3982297 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
3982218 ACAAACAGCA
*
3982228 AATGTATCGATACATGCCCAAAATATATCGATAC
1 AATGTATCGATACATGCCCAAAATATATCAATAC
* *
3982262 AATGTATCGATACATGCCTAAAATGTATCAATAC
1 AATGTATCGATACATGCCCAAAATATATCAATAC
3982296 AA
1 AA
3982298 AACCACCCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (34 bp):
AATGTATCGATACATGCCCAAAATATATCAATAC
Found at i:3985162 original size:156 final size:157
Alignment explanation
Indices: 3984707--3985254 Score: 555
Period size: 156 Copynumber: 3.5 Consensus size: 157
3984697 TAAGTTCAAG
* * * * *
3984707 AAAAATTACGAAAATGCCCATAGGGGATACCTTCAAAGTAAAATTA-CCCAATACCCCTAAAGGA
1 AAAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTATCCCGATACCCCTAAAGGA
* ** *
3984771 CCTAAAAATTA-TA-AAAATGGGATAAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGAC
66 CTTAAAAAGGACTATAAAA-GGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGAC
* * * * *
3984834 CTGGTGACGACCTAAGAGTTAGTTCT-A
130 CCGCTGACGACCTAGGACTTGGTTCTAA
* * * * * *
3984861 GAAAATTACGAAAATGTCCCTACGAGTATACTTTCGACGTAAAAGTATCCCAGCA-A-CTCTAAA
1 AAAAATTACGAAAATGCCCCTA-GGGGATACCTTCGACGTAAAAGTATCCC-G-ATACCCCTAAA
*
3984924 GGACTT--AAACGACTTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCA
63 GGACTTAAAAAGGAC-TATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCA
** *
3984987 GACATGGC-AACGACCTAGGACTTGGTTCTAA
127 GAC-CCGCTGACGACCTAGGACTTGGTTCTAA
* * * * *
3985018 AAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAATA-CCCGATACCCCTAAAGGA
1 AAAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTATCCCGATACCCCTAAAGGA
* * *
3985082 CTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCAGTATAAAAGCAAACC
66 CTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACC
* * *
3985147 CGCTGACAACTTAGGAGC-CGGTTCTGAA
131 CGCTGACGACCTAGGA-CTTGGTTCT-AA
* * * * *
3985175 AAAAA--ATGAAAATGCCCCTAGGGGTATACCTTCGACGTGAAAGTATCCTGATAACCCTGAAGG
1 AAAAATTACGAAAATGCCCCTAGGGG-ATACCTTCGACGTAAAAGTATCCCGATACCCCTAAAGG
*
3985238 TCTTAAAAAGGACTATA
65 ACTTAAAAAGGACTATA
3985255 GACATGAGGG
Statistics
Matches: 324, Mismatches: 52, Indels: 33
0.79 0.13 0.08
Matches are distributed among these distances:
153 1 0.00
154 25 0.08
155 50 0.15
156 178 0.55
157 69 0.21
158 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.21
Consensus pattern (157 bp):
AAAAATTACGAAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTATCCCGATACCCCTAAAGGA
CTTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACC
CGCTGACGACCTAGGACTTGGTTCTAA
Found at i:3986873 original size:27 final size:28
Alignment explanation
Indices: 3986835--3986895 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
3986825 TATCTTTGAT
*
3986835 AAAAAATAAAAATATA-ATAATAAAACA-
1 AAAAAATAAAAAAATATA-AATAAAACAC
* *
3986862 AAAAAATCAAAAAATTTAAATAAAACAC
1 AAAAAATAAAAAAATATAAATAAAACAC
3986890 AAAAAA
1 AAAAAA
3986896 ATTCTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (28 bp):
AAAAAATAAAAAAATATAAATAAAACAC
Found at i:3986891 original size:29 final size:27
Alignment explanation
Indices: 3986835--3986897 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
3986825 TATCTTTGAT
3986835 AAAAAATAAAAATATAATAATAAAACA
1 AAAAAATAAAAATATAATAATAAAACA
* *
3986862 AAAAAATCAAAAAATTTAAATAA-AACACA
1 AAAAAAT--AAAAATAT-AATAATAAAACA
3986891 AAAAAAT
1 AAAAAAT
3986898 TCTAATTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.23
29 19 0.61
30 5 0.16
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.17
Consensus pattern (27 bp):
AAAAAATAAAAATATAATAATAAAACA
Found at i:3988715 original size:79 final size:78
Alignment explanation
Indices: 3988614--3989281 Score: 399
Period size: 79 Copynumber: 8.6 Consensus size: 78
3988604 TCTCTATAAC
* * * *
3988614 CGGGGATACTCCAACCCCGTTATTTCAGAGAGGATACTCTAACCCTAGTTTTTCTTTCAAAACAA
1 CGGGGATACTCCAACCCTGTTATTTCAGAGGGGATACTCCAACCCTAGTTTTTATTTCAAAAC-A
3988679 TGACTTTTCACAAT
65 TGACTTTTCACAAT
** * * ***
3988693 CAAGGATACTCCAACCCTGTTATTTTC-GAGGGGATACTCCAA-TCTCGGCCTTATTTCTAAAAC
1 CGGGGATACTCCAACCCTGTTA-TTTCAGAGGGGATACTCCAACCCTAGTTTTTATTTC-AAAAC
* * *
3988756 ATCGATTTTTTATAAT
64 AT-GACTTTTCACAAT
** * *
3988772 CGGGGATACTCCAA-CCTCGTTATTTCTTAGGGGATACTCCAACCCTAGTTTTTTTTTCTAAACA
1 CGGGGATACTCCAACCCT-GTTATTTCAGAGGGGATACTCCAACCCTAGTTTTTATTTCAAAACA
*
3988836 CCGACTTTTCACAAT
65 -TGACTTTTCACAAT
* * * **
3988851 TGGGGATACTCCAATCCTGTTATTTTCA-AAGGGATACTCCAATCCC-AG-CCTTATTTCTAAAA
1 CGGGGATACTCCAACCCTGTTA-TTTCAGAGGGGATACTCCAA-CCCTAGTTTTTATTTC-AAAA
* * **
3988913 CATCAATTTTCTATGAT
63 CATGACTTTTC-ACAAT
* * *
3988930 CGGGGATACTCCAACCCTATTATTTCTGAGGGGATACTCCAACCCTAGTTTTTTTTTCCAAAACA
1 CGGGGATACTCCAACCCTGTTATTTCAGAGGGGATACTCCAACCCTAGTTTTTATTT-CAAAACA
*
3988995 TCGACTTTTCATAAT
65 T-GACTTTTCACAAT
* * * ** ** * ***
3989010 TGGGAATACTCTAACCC-GTTATTTTC-GAATGGATACT-CAAATCTCGGCCTTATTTCTAAAAC
1 CGGGGATACTCCAACCCTGTTA-TTTCAGAGGGGATACTCCAACCCTAGTTTTTATTTC-AAAAC
*
3989072 ATAGA-TTTTCCATAAT
64 AT-GACTTTT-CACAAT
* * * * * *
3989088 CAGGGATACTCCAACCCCGTTATTTCGGAGGGGATATTCCAACCC-CGATTTTATTTCCAAAACA
1 CGGGGATACTCCAACCCTGTTATTTCAGAGGGGATACTCCAACCCTAGTTTTTATTT-CAAAACA
** *
3989152 CCAATTTTTCAC---
65 -TGACTTTTCACAAT
* ** * * **
3989164 C----AT--TCTAACCCCATTATTTTC-GAGGTGATACTCCAA-CCTCGGCTTTATTTCTAAAAC
1 CGGGGATACTCCAACCCTGTTA-TTTCAGAGGGGATACTCCAACCCTAGTTTTTATTTC-AAAAC
*
3989221 ATCGATTTTTCACAAT
64 AT-GACTTTTCACAAT
* * ***
3989237 CGGGGAAACTCCAACCCTGTTATTTCTGAAAAGATACTCCAACCC
1 CGGGGATACTCCAACCCTGTTATTTCAGAGGGGATACTCCAACCC
3989282 CGGTTTGTTT
Statistics
Matches: 453, Mismatches: 95, Indels: 81
0.72 0.15 0.13
Matches are distributed among these distances:
69 3 0.01
70 48 0.11
71 4 0.01
72 2 0.00
73 1 0.00
76 1 0.00
77 6 0.01
78 84 0.19
79 229 0.51
80 68 0.15
81 7 0.02
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (78 bp):
CGGGGATACTCCAACCCTGTTATTTCAGAGGGGATACTCCAACCCTAGTTTTTATTTCAAAACAT
GACTTTTCACAAT
Found at i:3988902 original size:158 final size:157
Alignment explanation
Indices: 3988606--3989281 Score: 753
Period size: 158 Copynumber: 4.3 Consensus size: 157
3988596 TTCCAAAATC
* * * * *
3988606 TCTATAACCGGGGATACTCCAACCCCGTTATTTCAGAGAGGATACTCTAACCCTAGTTTTTCTTT
1 TCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTAGTTTTTTTTT
* *** *
3988671 CAAAACAATGACTTTTCACAATCAAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAAT
66 CAAAACAACGACTTTTCACAATTGGGGATACTCCAA-CCTGTTATTTTCGAAGGGATACTCCAAT
3988736 CTCGGCCTTATTTCTAAAACATCGATTT
130 CTCGGCCTTATTTCTAAAACATCGATTT
* * *
3988764 TTTATAATCGGGGATACTCCAACCTCGTTATTTCTTAGGGGATACTCCAACCCTAGTTTTTTTTT
1 TCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTAGTTTTTTTTT
* * *
3988829 CTAAACACCGACTTTTCACAATTGGGGATACTCCAATCCTGTTATTTTCAAAGGGATACTCCAAT
66 CAAAACAACGACTTTTCACAATTGGGGATACTCCAA-CCTGTTATTTTCGAAGGGATACTCCAAT
* * *
3988894 CCCAGCCTTATTTCTAAAACATCAATTT
130 CTCGGCCTTATTTCTAAAACATCGATTT
* **
3988922 TCTATGATCGGGGATACTCCAACCCTATTATTTCTGAGGGGATACTCCAACCCTAGTTTTTTTTT
1 TCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTAGTTTTTTTTT
* * * * * * *
3988987 CCAAAACATCGACTTTTCATAATTGGGAATACTCTAACCCGTTATTTTCGAATGGATACTCAAAT
66 -CAAAACAACGACTTTTCACAATTGGGGATACTCCAACCTGTTATTTTCGAAGGGATACTCCAAT
*
3989052 CTCGGCCTTATTTCTAAAACATAGATTT
130 CTCGGCCTTATTTCTAAAACATCGATTT
* * * * * *
3989080 TCCATAATCAGGGATACTCCAACCCCGTTATTTCGGAGGGGATATTCCAACCC-CGATTTTATTT
1 TCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTAG-TTTTTTTT
* * * * * * * *
3989144 CCAAAACACCAATTTTTCACCATT----CTA-ACC--CC-ATTATTTTCG-AGGTGATACTCCAA
65 TCAAAACAACGACTTTTCACAATTGGGGATACTCCAACCTGTTATTTTCGAAGG-GATACTCCAA
* *
3989200 CCTCGGCTTTATTTCTAAAACATCGATTT
129 TCTCGGCCTTATTTCTAAAACATCGATTT
* * * ***
3989229 T-TCACAATCGGGGAAACTCCAACCCTGTTATTTCTGAAAAGATACTCCAACCC
1 TCT-ATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCC
3989282 CGGTTTGTTT
Statistics
Matches: 441, Mismatches: 73, Indels: 17
0.83 0.14 0.03
Matches are distributed among these distances:
148 2 0.00
149 86 0.20
150 2 0.00
152 1 0.00
153 2 0.00
157 19 0.04
158 298 0.68
159 31 0.07
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (157 bp):
TCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTAGTTTTTTTTT
CAAAACAACGACTTTTCACAATTGGGGATACTCCAACCTGTTATTTTCGAAGGGATACTCCAATC
TCGGCCTTATTTCTAAAACATCGATTT
Found at i:3989213 original size:70 final size:70
Alignment explanation
Indices: 3989100--3989233 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 70
3989090 GGGATACTCC
* * *
3989100 AACCCCGTTATTTCGGAGGGGATATTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACC
1 AACCCCATTATTTCGGAGGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCACC
3989165 ATTCT
66 ATTCT
* * * * * *
3989170 AACCCCATTATTTTC-GAGGTGATACTCCAACCTCGGCTTTATTTCTAAAACATCGATTTTTCAC
1 AACCCCATTA-TTTCGGAGGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCAC
3989234 AATCGGGGAA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 50 0.93
71 4 0.07
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (70 bp):
AACCCCATTATTTCGGAGGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTTTCACC
ATTCT
Found at i:3989332 original size:78 final size:79
Alignment explanation
Indices: 3989190--3989335 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 79
3989180 TTTTCGAGGT
* * * *
3989190 GATACTCCAACCTCGGCTTTATTTCTAAAACATCGATTTTTCACAATCGGGGAAACTCCAACCCT
1 GATACTCCAACCCCGGCTTTATTTCCAAAACATCGATTTTCCACAATCGGAGAAACTCCAACCCT
3989255 GTTATTTCTGAAAA
66 GTTATTTCTGAAAA
* * * *
3989269 GATACTCCAACCCCGG-TTTGTTTCCAAATCATCGATTTTCCACCA-CTGGAGATACTCCAACCC
1 GATACTCCAACCCCGGCTTTATTTCCAAAACATCGATTTTCCACAATC-GGAGAAACTCCAACCC
3989332 TGTT
65 TGTT
3989336 TTTATCTCCA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
77 1 0.02
78 42 0.72
79 15 0.26
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (79 bp):
GATACTCCAACCCCGGCTTTATTTCCAAAACATCGATTTTCCACAATCGGAGAAACTCCAACCCT
GTTATTTCTGAAAA
Found at i:3991008 original size:19 final size:19
Alignment explanation
Indices: 3990984--3991051 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3990974 AATTCAACAA
3990984 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3991003 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3991018 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3991035 CTTGTATCGATACATAA
1 TTTGTATCGATACATAA
3991052 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3991023 original size:13 final size:13
Alignment explanation
Indices: 3991005--3991029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3990995 ACATAAGTTT
3991005 TGTATCGATACAA
1 TGTATCGATACAA
3991018 TGTATCGATACA
1 TGTATCGATACA
3991030 TAAGTCTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3991027 original size:32 final size:32
Alignment explanation
Indices: 3990986--3991048 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3990976 TTCAACAATT
*
3990986 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTCTTGTATCGATACAA
3991018 TGTATCGATACATAAGTCTTGTATCGATACA
1 TGTATCGATACATAAGTCTTGTATCGATACA
3991049 TAATTAGCTA
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:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTCTTGTATCGATACAA
Found at i:3991109 original size:13 final size:13
Alignment explanation
Indices: 3991091--3991116 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3991081 CATTTTTCTG
3991091 TGTATCGATACAT
1 TGTATCGATACAT
3991104 TGTATCGATACAT
1 TGTATCGATACAT
3991117 GGATCTTTGT
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:3991113 original size:33 final size:33
Alignment explanation
Indices: 3991071--3991137 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3991061 GCCAAGGAAA
***
3991071 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3991104 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3991137 T
1 T
3991138 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3993662 original size:28 final size:27
Alignment explanation
Indices: 3993595--3993667 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
3993585 CTTCACAATC
* *
3993595 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
3993622 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
3993650 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
3993668 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:3993712 original size:51 final size:51
Alignment explanation
Indices: 3993650--3993820 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
3993640 TTATTTCTGA
* * *
3993650 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
3993701 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
3993754 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
3993806 GAGGATACTCCAACC
1 GGGGATACTCCAACC
3993821 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:3993839 original size:28 final size:28
Alignment explanation
Indices: 3993803--3993884 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
3993793 ATTTTTCACA
*
3993803 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
3993831 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
3993859 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
3993885 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:4000071 original size:55 final size:54
Alignment explanation
Indices: 4000005--4000788 Score: 802
Period size: 55 Copynumber: 13.9 Consensus size: 54
3999995 TTCTCCTCTT
*
4000005 AAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGACACCTTTC
** * *
4000060 AAAGCCCACACAAGTTGGTGGCATTTTTCCAGTCCTCAAAGAGTAGGACACCTCTC
1 AAAGCCCACACAAGTTGGTGGCA-CCTT-CAGTCCTCAAAGAGCAGGACACCTTTC
** * *
4000116 AAAGCCCACACAAGTTGGTGGCACCTTTTGTCCCCAAAGAGCAGGACGCCTTCTCC
1 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTT-T-C
* *
4000172 TTTTAAAGCCCATACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAAGACTGCCTTCACCTT
1 ----AAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGAGC-AG---G---ACACCTT
4000236 TC
53 TC
* ** *
4000238 AAAGCCCACAAAAGTTGGTGGCATTTTCTAGTCCTCAGAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGACACCT-TTC
* *
4000293 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACAC-----CTTTC
*
4000352 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTC
* * ** * *
4000406 AAAGCCCACACAGGCTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTC
* * *
4000467 AAAGCCCACACAGGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTT
1 AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACACCTTTC
**
4000522 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACACCT-TTC
* *
4000577 AAAGCCCACACATGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACACCTTTC
** *
4000632 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTGAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACACCT-TTC
* *
4000687 AAAGCCCACGCAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACACCTTTC
* * * * * *
4000742 AAAGCCAACACGAGTTGGTGGCACTTTTTACTCCTCAATGAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGA
4000789 TACACTTTAT
Statistics
Matches: 618, Mismatches: 69, Indels: 84
0.80 0.09 0.11
Matches are distributed among these distances:
54 72 0.12
55 300 0.49
56 59 0.10
57 1 0.00
58 3 0.00
59 54 0.09
60 22 0.04
61 61 0.10
62 36 0.06
63 2 0.00
65 1 0.00
66 1 0.00
67 1 0.00
68 5 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (54 bp):
AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTC
Found at i:4000641 original size:110 final size:110
Alignment explanation
Indices: 3999999--4000788 Score: 928
Period size: 110 Copynumber: 7.0 Consensus size: 110
3999989 GACGCCTTCT
*
3999999 CCTCTTAAAGCCCACACAAGTTGGTGGCATCC-TCCAGTCCTCAAAGAGCAGGACACCTTTCAAA
1 CCTCTTAAAGCCCACACAAGTTGGTGGCA-CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAA
*
4000063 GCCCACACAAGTTGGTGGCATTTTTCCAGTCCTCAAAGAGTAGGACA
65 GCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
* * * *
4000110 CCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-TGTCCCCAAAGAGCAGGACGCCTTCTCCTT
1 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTT-T-C--
* * * * *
4000174 TTAAAGCCCATACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACTG
62 --AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-A
* * *
4000226 CCTTCACCTTTCAAAGCCCACAAAAGTTGGTGGCA-TTTTCTAGTCCTCAGAGAGCAGGACACCT
1 CC-T---C-TT-AAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACACCT
** *
4000290 CTT-AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACA
59 -TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
*
4000341 CATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACACCTTT
1 C-----CTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTT
* * * * *
4000405 TAAAGCCCACACAGGCTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTT
61 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C---A
* * * * *
4000460 TCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTTAAA
1 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAA
4000525 GCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
65 GCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
* *
4000571 CCTCTTAAAGCCCACACATGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAG
1 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
*
4000636 CCCACACAAGTTGGTGGCATTTTCCAGTCCTGAAAGAGCAGGACA
66 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
* *
4000681 CCTCTTAAAGCCCACGCAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
1 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
* * * * *
4000746 CCAACACGAGTTGGTGGCACTTTT-TACTCCTCAATGAGCAGGA
66 CCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
4000789 TACACTTTAT
Statistics
Matches: 590, Mismatches: 56, Indels: 67
0.83 0.08 0.09
Matches are distributed among these distances:
110 217 0.37
111 38 0.06
112 3 0.01
113 45 0.08
114 49 0.08
115 48 0.08
116 115 0.19
117 25 0.04
119 1 0.00
120 2 0.00
121 4 0.01
122 22 0.04
123 20 0.03
124 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (110 bp):
CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
Found at i:4000721 original size:165 final size:165
Alignment explanation
Indices: 3999999--4000788 Score: 898
Period size: 165 Copynumber: 4.7 Consensus size: 165
3999989 GACGCCTTCT
*
3999999 CCTCTTAAAGCCCACACAAGTTGGTGGCATCC-TCCAGTCCTCAAAGAGCAGGACACCTTTCAAA
1 CCTCTTAAAGCCCACACAAGTTGGTGGCA-CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAA
* * *
4000063 GCCCACACAAGTTGGTGGCATTTTTCCAGTCCTCAAAGAGTAGGACACCTCTCAAAGCCCACACA
65 GCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACA
* *
4000128 AGTTGGTGGCACCTTT-TGTCCCCAAAGAGCAGGACGC
129 AGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGAC-A
* *
4000165 CTTCTCCTTTTAAAGCCCATACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAAGACTGCCT
1 C--CT-C--TTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGC-AG---G---
* * *
4000229 TCACCTTTCAAAGCCCACAAAAGTTGGTGGCA-TTTTCTAGTCCTCAGAGAGCAGGACACCTCTT
53 ACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACACCT-TT
* *
4000293 -AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACA
116 CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
*
4000341 CATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACACCTTT
1 C-----CTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTT
* * * * * *
4000405 TAAAGCCCACACAGGCTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAA
61 CAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAA
*
4000470 GCCCACACAGGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
120 GCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
* *
4000516 CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AA
1 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAA
* * *
4000579 AGCCCACACATGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACA
64 AGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACA
* **
4000644 AGTTGGTGGCA-TTTTCCAGTCCTGAAAGAGCAGGACA
129 AGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACA
* *
4000681 CCTCTTAAAGCCCACGCAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAG
1 CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
* * * * *
4000746 CCAACACGAGTTGGTGGCACTTTTTACTCCTCAATGAGCAGGA
66 CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
4000789 TACACTTTAT
Statistics
Matches: 540, Mismatches: 48, Indels: 73
0.82 0.07 0.11
Matches are distributed among these distances:
164 5 0.01
165 135 0.25
166 4 0.01
168 46 0.09
169 8 0.01
170 32 0.06
171 107 0.20
172 4 0.01
173 2 0.00
174 28 0.05
175 38 0.07
176 29 0.05
177 67 0.12
178 31 0.06
179 4 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (165 bp):
CCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
CCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAG
TTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
Found at i:4001725 original size:27 final size:28
Alignment explanation
Indices: 4001687--4001747 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
4001677 TATCTTTGAT
*
4001687 AAAAAATAAAAATATA-ATAATAAAACA-
1 AAAAAATAAAAAAATATA-AATAAAACAC
* *
4001714 AAAAAATCAAAAAATTTAAATAAAACAC
1 AAAAAATAAAAAAATATAAATAAAACAC
4001742 AAAAAA
1 AAAAAA
4001748 ATTCTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (28 bp):
AAAAAATAAAAAAATATAAATAAAACAC
Found at i:4001743 original size:29 final size:27
Alignment explanation
Indices: 4001687--4001749 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
4001677 TATCTTTGAT
4001687 AAAAAATAAAAATATAATAATAAAACA
1 AAAAAATAAAAATATAATAATAAAACA
* *
4001714 AAAAAATCAAAAAATTTAAATAA-AACACA
1 AAAAAAT--AAAAATAT-AATAATAAAACA
4001743 AAAAAAT
1 AAAAAAT
4001750 TCTAATTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.23
29 19 0.61
30 5 0.16
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.17
Consensus pattern (27 bp):
AAAAAATAAAAATATAATAATAAAACA
Found at i:4003567 original size:79 final size:77
Alignment explanation
Indices: 4003466--4004132 Score: 377
Period size: 79 Copynumber: 8.6 Consensus size: 77
4003456 TCTCTATAAC
* * *
4003466 CGGGGATACTCCAACCCCGTTATTTCAGAGAGGATACTCTAACCCTAGTTTTTCTTTCAAAACAA
1 CGGGGATACTCCAACCCTGTTATTTCAGAG-GGATACTCCAACCCTAGTTTTTATTTCAAAAC-A
4003531 TGACTTTTCACAAT
64 TGACTTTTCACAAT
** * * ***
4003545 CAAGGATACTCCAACCCTGTTATTTTC-GAGGGGATACTCCAA-TCTCGGCCTTATTTCTAAAAC
1 CGGGGATACTCCAACCCTGTTA-TTTCAGA-GGGATACTCCAACCCTAGTTTTTATTTC-AAAAC
* * *
4003608 ATCGATTTTTTATAAT
63 AT-GACTTTTCACAAT
** * *
4003624 CGGGGATACTCCAA-CCTCGTTATTTCTTAGGGATACTCCAACCCTAGTTTTTTTTTCTAAACAC
1 CGGGGATACTCCAACCCT-GTTATTTCAGAGGGATACTCCAACCCTAGTTTTTATTTCAAAACA-
*
4003688 CGACTTTTCACAAT
64 TGACTTTTCACAAT
* * * **
4003702 TGGGGATACTCCAATCCTGTTATTTTCAAAGGGATACTCCAATCCC-AG-CCTTATTTCTAAAAC
1 CGGGGATACTCCAACCCTGTTA-TTTCAGAGGGATACTCCAA-CCCTAGTTTTTATTTC-AAAAC
* * **
4003765 ATCAATTTTCTATGAT
63 ATGACTTTTC-ACAAT
* * *
4003781 CGGGGATACTCCAACCCTATTATTTCTGAGGGGATACTCCAACCCTAGTTTTTTTTTCCAAAACA
1 CGGGGATACTCCAACCCTGTTATTTCAGA-GGGATACTCCAACCCTAGTTTTTATTT-CAAAACA
*
4003846 TCGACTTTTCATAAT
64 T-GACTTTTCACAAT
* * * * ** * ***
4003861 TGGGAATACTCTAACCC-GTTATTTTC-GAATGGATACT-CAAATCTCGGCCTTATTTCTAAAAC
1 CGGGGATACTCCAACCCTGTTA-TTTCAG-AGGGATACTCCAACCCTAGTTTTTATTTC-AAAAC
*
4003923 ATAGA-TTTTCCATAAT
63 AT-GACTTTT-CACAAT
* * * * * *
4003939 CAGGGATACTCCAACCCCGTTATTTCGGAGGGGATATTCCAACCC-CGATTTTATTTCCAAAACA
1 CGGGGATACTCCAACCCTGTTATTTCAGA-GGGATACTCCAACCCTAGTTTTTATTT-CAAAACA
** *
4004003 CCAATTTTTCAC---
64 -TGACTTTTCACAAT
* * * * **
4004015 C----ATTCT-AAACCC-ATTATTTTC-GAGGTGATACTCCAA-CCTCGGCTTTATTTCTAAAAC
1 CGGGGATACTCCAACCCTGTTA-TTTCAGAGG-GATACTCCAACCCTAGTTTTTATTTC-AAAAC
*
4004072 ATCGATTTTTCACAAT
63 AT-GACTTTTCACAAT
* * **
4004088 CGGGGAAACTCCAACCCTGTTATTTCTGAAAAGATACTCCAACCC
1 CGGGGATACTCCAACCCTGTTATTTCAG-AGGGATACTCCAACCC
4004133 CGGTTTGTTT
Statistics
Matches: 451, Mismatches: 91, Indels: 91
0.71 0.14 0.14
Matches are distributed among these distances:
69 5 0.01
70 38 0.08
71 9 0.02
72 4 0.01
73 1 0.00
76 1 0.00
77 8 0.02
78 135 0.30
79 188 0.42
80 55 0.12
81 7 0.02
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (77 bp):
CGGGGATACTCCAACCCTGTTATTTCAGAGGGATACTCCAACCCTAGTTTTTATTTCAAAACATG
ACTTTTCACAAT
Found at i:4003753 original size:157 final size:157
Alignment explanation
Indices: 4003458--4004132 Score: 744
Period size: 158 Copynumber: 4.3 Consensus size: 157
4003448 TTCCAAAATC
* * * * *
4003458 TCTATAACCGGGGATACTCCAACCCCGTTATTTCAGAGAGGATACTCTAACCCTAGTTTTTCTTT
1 TCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTAGTTTTTTTTT
* *** *
4003523 CAAAACAATGACTTTTCACAATCAAGGATACTCCAACCCTGTTATTTTCGAGGGGATACTCCAAT
66 CAAAACAACGACTTTTCACAATTGGGGATACTCCAA-CCTGTTATTTTCGAAGGGATACTCCAAT
4003588 CTCGGCCTTATTTCTAAAACATCGATTT
130 CTCGGCCTTATTTCTAAAACATCGATTT
* * *
4003616 TTTATAATCGGGGATACTCCAACCTCGTTATTTCTTA-GGGATACTCCAACCCTAGTTTTTTTTT
1 TCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTAGTTTTTTTTT
* * *
4003680 CTAAACACCGACTTTTCACAATTGGGGATACTCCAATCCTGTTATTTTCAAAGGGATACTCCAAT
66 CAAAACAACGACTTTTCACAATTGGGGATACTCCAA-CCTGTTATTTTCGAAGGGATACTCCAAT
* * *
4003745 CCCAGCCTTATTTCTAAAACATCAATTT
130 CTCGGCCTTATTTCTAAAACATCGATTT
* **
4003773 TCTATGATCGGGGATACTCCAACCCTATTATTTCTGAGGGGATACTCCAACCCTAGTTTTTTTTT
1 TCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTAGTTTTTTTTT
* * * * * * *
4003838 CCAAAACATCGACTTTTCATAATTGGGAATACTCTAACCCGTTATTTTCGAATGGATACTCAAAT
66 -CAAAACAACGACTTTTCACAATTGGGGATACTCCAACCTGTTATTTTCGAAGGGATACTCCAAT
*
4003903 CTCGGCCTTATTTCTAAAACATAGATTT
130 CTCGGCCTTATTTCTAAAACATCGATTT
* * * * * *
4003931 TCCATAATCAGGGATACTCCAACCCCGTTATTTCGGAGGGGATATTCCAACCC-CGATTTTATTT
1 TCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTAG-TTTTTTTT
* * * * * * **
4003995 CCAAAACACCAATTTTTCACCA-T-----T-CT-AAACCCATTATTTTCG-AGGTGATACTCCAA
65 TCAAAACAACGACTTTTCACAATTGGGGATACTCCAACCTGTTATTTTCGAAGG-GATACTCCAA
* *
4004051 CCTCGGCTTTATTTCTAAAACATCGATTT
129 TCTCGGCCTTATTTCTAAAACATCGATTT
* * * ***
4004080 T-TCACAATCGGGGAAACTCCAACCCTGTTATTTCTGAAAAGATACTCCAACCC
1 TCT-ATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCC
4004133 CGGTTTGTTT
Statistics
Matches: 441, Mismatches: 71, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
148 2 0.00
149 91 0.21
150 2 0.00
151 1 0.00
156 1 0.00
157 153 0.35
158 160 0.36
159 31 0.07
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (157 bp):
TCTATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCTAGTTTTTTTTT
CAAAACAACGACTTTTCACAATTGGGGATACTCCAACCTGTTATTTTCGAAGGGATACTCCAATC
TCGGCCTTATTTCTAAAACATCGATTT
Found at i:4004180 original size:78 final size:79
Alignment explanation
Indices: 4004041--4004186 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 79
4004031 TTTTCGAGGT
* * * *
4004041 GATACTCCAACCTCGGCTTTATTTCTAAAACATCGATTTTTCACAATCGGGGAAACTCCAACCCT
1 GATACTCCAACCCCGGCTTTATTTCCAAAACATCGATTTTCCACAATCGGAGAAACTCCAACCCT
4004106 GTTATTTCTGAAAA
66 GTTATTTCTGAAAA
* * * *
4004120 GATACTCCAACCCCGG-TTTGTTTCCAAATCATCGATTTTCCACCA-CTGGAGATACTCCAACCC
1 GATACTCCAACCCCGGCTTTATTTCCAAAACATCGATTTTCCACAATC-GGAGAAACTCCAACCC
4004183 TGTT
65 TGTT
4004187 TTTATCTCCA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
77 1 0.02
78 42 0.72
79 15 0.26
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (79 bp):
GATACTCCAACCCCGGCTTTATTTCCAAAACATCGATTTTCCACAATCGGAGAAACTCCAACCCT
GTTATTTCTGAAAA
Found at i:4005859 original size:19 final size:19
Alignment explanation
Indices: 4005835--4005902 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
4005825 AATTCAACAA
4005835 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
4005854 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
4005869 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
4005886 CTTGTATCGATACATAA
1 TTTGTATCGATACATAA
4005903 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:4005874 original size:13 final size:13
Alignment explanation
Indices: 4005856--4005880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4005846 ACATAAGTTT
4005856 TGTATCGATACAA
1 TGTATCGATACAA
4005869 TGTATCGATACA
1 TGTATCGATACA
4005881 TAAGTCTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4005878 original size:32 final size:32
Alignment explanation
Indices: 4005837--4005899 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4005827 TTCAACAATT
*
4005837 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTCTTGTATCGATACAA
4005869 TGTATCGATACATAAGTCTTGTATCGATACA
1 TGTATCGATACATAAGTCTTGTATCGATACA
4005900 TAATTAGCTA
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:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTCTTGTATCGATACAA
Found at i:4005960 original size:13 final size:13
Alignment explanation
Indices: 4005942--4005967 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4005932 CATTTTTCTG
4005942 TGTATCGATACAT
1 TGTATCGATACAT
4005955 TGTATCGATACAT
1 TGTATCGATACAT
4005968 GGATCTTTGT
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:4005964 original size:33 final size:33
Alignment explanation
Indices: 4005922--4005988 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4005912 GCCAAGGAAA
***
4005922 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
4005955 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
4005988 T
1 T
4005989 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:4008513 original size:28 final size:27
Alignment explanation
Indices: 4008446--4008518 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
4008436 CTTCACAATC
* *
4008446 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
4008473 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
4008501 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
4008519 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:4008563 original size:51 final size:51
Alignment explanation
Indices: 4008501--4008671 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
4008491 TTATTTCTGA
* * *
4008501 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
4008552 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
* ** * *
4008605 GGGGATACTCCCATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
4008657 GAGGATACTCCAACC
1 GGGGATACTCCAACC
4008672 TCGTTATTTC
Statistics
Matches: 95, Mismatches: 22, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
51 36 0.38
52 17 0.18
53 31 0.33
54 11 0.12
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:4008690 original size:28 final size:28
Alignment explanation
Indices: 4008654--4008735 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
4008644 ATTTTTCACA
*
4008654 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
4008682 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
4008710 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
4008736 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:4010675 original size:166 final size:164
Alignment explanation
Indices: 4010467--4010893 Score: 513
Period size: 167 Copynumber: 2.6 Consensus size: 164
4010457 AACAAAAAAA
* * *
4010467 TCAACCAAAAAAATCCAAAACTC-TTGAAAATGAATTAATTTTTAGAAATGAATTAATATGAATC
1 TCAAGCAAAAAAATCAAAAACTCATT-AAAATGAATAAATTTTTA-AAATGAATTAATATGAATC
* * * *
4010531 AAATAATGATGA-TTGATAAATTTTAAAAATTGAAAACCGAGAAACATCCCCCCGAAAAAATTTA
64 AAATAATAAT-ATTTGATGAATTTTAAAAATTGAAAACCAAGAAA-ATCCCCCCGAAAAAATCTA
4010595 CGGAGTAGAAAACACCGTATTTCGAAAAAATGAG-AGTT
127 CGGAGTAGAAAACACCGTATTTCGAAAAAA-GAGAAGTT
** *
4010633 TCAAGCAAAAAAATCAAAAACTCATTAAAATGAATAAATTTTTTAAAACAAAATTAATATAAAAT
1 TCAAGCAAAAAAATCAAAAACTCATTAAAATGAATAAA-TTTTTAAAA-TGAATTAATAT-GAAT
* * * *
4010698 -AAATGATAATATTTGATGAATTTTACAAATTGAAAACCAAGAAAATCCCCTCGAAAAAATCTAT
63 CAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAATCCCCCCGAAAAAATCTAC
*
4010762 GGAGTTGAAAACACCGTATTTCGAAAAAAGAGAAGTT
128 GGAGTAGAAAACACCGTATTTCGAAAAAAGAGAAGTT
* * * * * *
4010799 TCAAGGAAAAAAATAAAAAAACTCATGAAAAT-AGATGATTTTTTAAAAAATGATTTAATATGAA
1 TCAAGCAAAAAAAT-CAAAAACTCATTAAAATGA-ATAAATTTTT--AAAATGAATTAATATGAA
*
4010863 ACAAATAATAATATTTGATGAATTTTAAAAA
62 TCAAATAATAATATTTGATGAATTTTAAAAA
4010894 GTAAAAAATT
Statistics
Matches: 223, Mismatches: 27, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
165 3 0.01
166 106 0.48
167 107 0.48
168 7 0.03
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (164 bp):
TCAAGCAAAAAAATCAAAAACTCATTAAAATGAATAAATTTTTAAAATGAATTAATATGAATCAA
ATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAATCCCCCCGAAAAAATCTACGGA
GTAGAAAACACCGTATTTCGAAAAAAGAGAAGTT
Found at i:4010878 original size:167 final size:167
Alignment explanation
Indices: 4010467--4010933 Score: 554
Period size: 166 Copynumber: 2.8 Consensus size: 167
4010457 AACAAAAAAA
* ** * * * *
4010467 TCAACCAAAAAAATCCAAAACTCTTGAAAATGAATTAA-TTTTT-AGAAATGAATTAATATGAAT
1 TCAAGCAAAAAAATAAAAAACTCATGAAAATGAATAAATTTTTTAAAAAATGAATTAATATGAAA
* * * *
4010530 CAAATAATGATGA-TTGATAAATTTTAAAAATTGAAAACCGAGAAACATCCCCCCGAAAAAATTT
66 CAAATAATAAT-ATTTGATGAATTTTAAAAATTGAAAACCAAGAAA-ATCCCCTCGAAAAAATTT
*
4010594 ACGGAGTAGAAAACACCGTATTTCGAAAAAATGAGAGTT
129 ATGGAGTAGAAAACACCGTATTTCGAAAAAATGAGAGTT
* * *
4010633 TCAAGCAAAAAAATCAAAAACTCATTAAAATGAATAAATTTTTTAAAACAA--AATTAATATAAA
1 TCAAGCAAAAAAATAAAAAACTCATGAAAATGAATAAATTTTTTAAAA-AATGAATTAATATGAA
* * * *
4010696 ATAAATGATAATATTTGATGAATTTTACAAATTGAAAACCAAGAAAATCCCCTCGAAAAAATCTA
65 ACAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAATCCCCTCGAAAAAATTTA
*
4010761 TGGAGTTGAAAACACCGTATTTCGAAAAAA-GAGAAGTT
130 TGGAGTAGAAAACACCGTATTTCGAAAAAATGAG-AGTT
* * *
4010799 TCAAGGAAAAAAATAAAAAAACTCATGAAAAT-AGAT-GATTTTTTAAAAAATGATTTAATATGA
1 TCAAGCAAAAAAAT-AAAAAACTCATGAAAATGA-ATAAATTTTTTAAAAAATGAATTAATATGA
** ** *
4010862 AACAAATAATAATATTTGATGAATTTTAAAAAGTAAAAAATTAAGAAAAATCCTCTCGAAAAAAT
64 AACAAATAATAATATTTGATGAATTTTAAAAA-TTGAAAACCAAG-AAAATCCCCTCGAAAAAAT
4010927 TTATGGA
127 TTATGGA
4010934 AAAGAAAAAC
Statistics
Matches: 257, Mismatches: 33, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
165 5 0.02
166 108 0.42
167 108 0.42
168 10 0.04
169 26 0.10
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.27
Consensus pattern (167 bp):
TCAAGCAAAAAAATAAAAAACTCATGAAAATGAATAAATTTTTTAAAAAATGAATTAATATGAAA
CAAATAATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAATCCCCTCGAAAAAATTTAT
GGAGTAGAAAACACCGTATTTCGAAAAAATGAGAGTT
Found at i:4013060 original size:13 final size:13
Alignment explanation
Indices: 4013042--4013066 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4013032 CATAAAGTGC
4013042 TGTATCGATACAA
1 TGTATCGATACAA
4013055 TGTATCGATACA
1 TGTATCGATACA
4013067 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4013083 original size:32 final size:33
Alignment explanation
Indices: 4013022--4013090 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
4013012 TTCAACAATT
4013022 TGTATCAATACATAAAGTGCTGTATCGATACAA
1 TGTATCAATACATAAAGTGCTGTATCGATACAA
* ** *
4013055 TGTATCGATACAT-AAGTTTTGTATCGATATAA
1 TGTATCAATACATAAAGTGCTGTATCGATACAA
4013087 TGTA
1 TGTA
4013091 AGCTATTGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 20 0.62
33 12 0.38
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (33 bp):
TGTATCAATACATAAAGTGCTGTATCGATACAA
Found at i:4013146 original size:13 final size:13
Alignment explanation
Indices: 4013128--4013152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4013118 ATTACTCAAA
4013128 TGTATCGATACAT
1 TGTATCGATACAT
4013141 TGTATCGATACA
1 TGTATCGATACA
4013153 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:4013202 original size:52 final size:51
Alignment explanation
Indices: 4013141--4013289 Score: 190
Period size: 52 Copynumber: 2.9 Consensus size: 51
4013131 ATCGATACAT
*** *
4013141 TGTATCGATACACTGATCTTTGTATCAATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* * * *
4013193 TGTTTCGATACACTATAAAAGTTATCGATACATACAGGCAAATTTGCCTAGA
1 TGTATCGATACACTATAAATG-TATCGATACATGCAGGCAAATTTGCCCAGA
*
4013245 TGTATCGATACACTATGAAATGTATCGATACATGCAAGCAAATTT
1 TGTATCGATACACTAT-AAATGTATCGATACATGCAGGCAAATTT
4013290 TCATATTTCG
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 3 0.04
52 76 0.92
53 4 0.05
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (51 bp):
TGTATCGATACACTATAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:4014625 original size:20 final size:20
Alignment explanation
Indices: 4014580--4014631 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
4014570 GTAGCCAAAC
**
4014580 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
4014600 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
4014619 TTGTATCGATACA
1 TTGTATCGATACA
4014632 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:4018689 original size:15 final size:15
Alignment explanation
Indices: 4018669--4018699 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4018659 TAAAAATGTC
*
4018669 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4018684 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4018699 C
1 C
4018700 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:4020796 original size:13 final size:13
Alignment explanation
Indices: 4020778--4020815 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4020768 CATTTTTCTT
4020778 TGTATCGATACAA
1 TGTATCGATACAA
*
4020791 TGTATCGATACAC
1 TGTATCGATACAA
4020804 TGTATCGATACA
1 TGTATCGATACA
4020816 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4024923 original size:13 final size:13
Alignment explanation
Indices: 4024901--4024936 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
4024891 TTTTTCAGAA
4024901 TGTATCGATACAT
1 TGTATCGATACAT
*
4024914 TGTATGGATACAT
1 TGTATCGATACAT
4024927 TGTATCGATA
1 TGTATCGATA
4024937 TAAAGGTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4025071 original size:21 final size:22
Alignment explanation
Indices: 4025047--4025096 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
4025037 ATCAAATCTT
* *
4025047 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
4025068 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
4025090 --TCAAAAT
1 CTTCAAAAT
4025097 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:4026940 original size:21 final size:21
Alignment explanation
Indices: 4026914--4026987 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
4026904 TTATCCAAAC
4026914 GTATCGATACATTTGTAGAAT
1 GTATCGATACATTTGTAGAAT
*
4026935 GTATCGATACATTTGTGGAAT
1 GTATCGATACATTTGTAGAAT
* * *
4026956 GTATCAATACA-TTCTACAAAT
1 GTATCGATACATTTGTA-GAAT
4026977 GTATCGATACA
1 GTATCGATACA
4026988 GGGTCCCAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 3 0.07
21 43 0.93
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (21 bp):
GTATCGATACATTTGTAGAAT
Found at i:4027047 original size:19 final size:19
Alignment explanation
Indices: 4027023--4027090 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
4027013 AATTCAACAA
4027023 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
4027042 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
4027057 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
4027074 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
4027091 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:4027062 original size:13 final size:13
Alignment explanation
Indices: 4027044--4027068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4027034 ACATAAGTTT
4027044 TGTATCGATACAA
1 TGTATCGATACAA
4027057 TGTATCGATACA
1 TGTATCGATACA
4027069 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4027066 original size:32 final size:32
Alignment explanation
Indices: 4027025--4027087 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4027015 TTCAACAATT
*
4027025 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
4027057 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
4027088 TAATTAGCTA
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:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:4027148 original size:13 final size:13
Alignment explanation
Indices: 4027130--4027155 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4027120 CATTTTTCTG
4027130 TGTATCGATACAT
1 TGTATCGATACAT
4027143 TGTATCGATACAT
1 TGTATCGATACAT
4027156 GGATCTTTGT
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:4027152 original size:33 final size:33
Alignment explanation
Indices: 4027110--4027176 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4027100 GCCAAGGAAA
***
4027110 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
4027143 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
4027176 T
1 T
4027177 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:4029693 original size:28 final size:27
Alignment explanation
Indices: 4029626--4029698 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
4029616 TTTCACAATT
4029626 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATC
* **
4029653 GGGGATACTCCAACCCTGTT-ATTTTC
1 GGGGATACTCCAACCCCGTTAATCATC
4029679 GAGGGGATACTCCAACCCCG
1 --GGGGATACTCCAACCCCG
4029699 ACTTTATTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.10
27 19 0.47
28 17 0.43
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.23
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATC
Found at i:4029750 original size:52 final size:52
Alignment explanation
Indices: 4029681--4029855 Score: 208
Period size: 52 Copynumber: 3.3 Consensus size: 52
4029671 TTATTTTCGA
* **
4029681 GGGGATACTCCAACCCCGACTTTATTTCCAAAATACTGATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCCACAATC
* * * * **
4029733 GGGGATACTCCAACCCCGGTTTTATTTTCGAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCC-ACAATC
* * *
4029786 GGGGATACTCTAACTCCAATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAATACCAATTTTTCCACAATC
*
4029838 GAGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
4029856 TTATTTCTGA
Statistics
Matches: 99, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
52 57 0.58
53 29 0.29
54 13 0.13
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCCACAATC
Found at i:4042057 original size:54 final size:50
Alignment explanation
Indices: 4041934--4042059 Score: 144
Period size: 51 Copynumber: 2.4 Consensus size: 50
4041924 CTCAATTCTC
* ** * * *
4041934 CACAATCGGGGATATTTTAACTCCGATTTTATTTTCAAGACACTAATTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTACAAAACACAAATTTT
*
4041984 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCACAAAAACACCAAATTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTT--AC-AAAACA-CAAATTTT
4042039 CACAATCGGGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
4042060 CCCGTTAATC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 1 0.02
51 29 0.46
53 1 0.02
54 24 0.38
55 8 0.13
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTACAAAACACAAATTTT
Found at i:4042114 original size:28 final size:28
Alignment explanation
Indices: 4042046--4042115 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 28
4042036 TTTCACAATC
4042046 GGGGATACTCCAACCCCGTTAATCATCA
1 GGGGATACTCCAACCCCGTTAATCATCA
* *
4042074 -GGGATACTCCAACCCCGTTATTTA-CGA
1 GGGGATACTCCAACCCCGTTAATCATC-A
4042101 GGGGATACTCCAACC
1 GGGGATACTCCAACC
4042116 TCGACTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.03
27 23 0.61
28 14 0.37
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTAATCATCA
Found at i:4042177 original size:52 final size:52
Alignment explanation
Indices: 4042101--4042273 Score: 197
Period size: 52 Copynumber: 3.3 Consensus size: 52
4042091 TTATTTACGA
* * **
4042101 GGGGATACTCCAACCTCGACTTTATTTCCAAAATACTGATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCCACAATC
* * * **
4042153 GGGGATACTCTAACCCC-AGTTTTATTTTCAAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCCAACCCCGA-TTTTATTTCCAAAATACCAATTTTTCC-ACAATC
* *
4042206 GGGGATACTCCAACTCCGATTTTAGTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAATACCAATTTTTCCACAATC
*
4042258 GAGGATACTCCAACCC
1 GGGGATACTCCAACCC
4042274 TGTTAATCAT
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
51 1 0.01
52 55 0.56
53 28 0.28
54 15 0.15
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCCACAATC
Found at i:4042255 original size:105 final size:102
Alignment explanation
Indices: 4041934--4042273 Score: 299
Period size: 105 Copynumber: 3.2 Consensus size: 102
4041924 CTCAATTCTC
* ** * * * *
4041934 CACAATCGGGGATATTTTAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGGGGATA
1 CACAATCGGGGATACTCCAACCCCG-TTTTATTTTCAAAACACCAATTTTCTTTAATCGGGGATA
* *
4041999 CTCCAACTCCGATTTTATTTCCACAAAAACACCAAATTTT
65 CTCCAACTCCGATTTTATTT-C-CAAAAATACCAATTTTT
* ** * * ** * ***
4042039 CACAATCGGGGATACTCCAACCCCG-TTAATCATCAGGGATACTCCAACCCCGTTATTTACGAGG
1 CACAATCGGGGATACTCCAACCCCGTTTTATTTTCA---AAACACCAA---TTTTCTTTAATCGG
* **
4042103 GGATACTCCAAC-CTCGACTTTATTTCC-AAAATACTGATTTTT
60 GGATACTCCAACTC-CGATTTTATTTCCAAAAATACCAATTTTT
*
4042145 CCACAATCGGGGATACTCTAACCCCAGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGGG
1 -CACAATCGGGGATACTCCAACCCC-GTTTTATTTTCAAAACACCAA-TTTT-CTTTAATCGGGG
*
4042210 ATACTCCAACTCCGATTTTAGTTCCAAAAATACCAATTTTT
62 ATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
*
4042251 CACAATCGAGGATACTCCAACCC
1 CACAATCGGGGATACTCCAACCC
4042274 TGTTAATCAT
Statistics
Matches: 181, Mismatches: 41, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
103 7 0.04
104 2 0.01
105 71 0.39
106 38 0.21
107 24 0.13
108 3 0.02
109 36 0.20
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (102 bp):
CACAATCGGGGATACTCCAACCCCGTTTTATTTTCAAAACACCAATTTTCTTTAATCGGGGATAC
TCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
Found at i:4042299 original size:212 final size:212
Alignment explanation
Indices: 4041929--4042381 Score: 646
Period size: 212 Copynumber: 2.1 Consensus size: 212
4041919 AGTTTCTCAA
* * * * *
4041929 TTCTCCACAATCGGGGATATTTTAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGG
1 TTCTCCACAATCGGGGATACTCTAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGG
* *
4041994 GGATACTCCAACTCCGATTTTATTTCCACAAAAACACCAAATTTTCACAATCGGGGATACTCCAA
66 GGATACTCCAACTCCGATTTTAGTTCCACAAAAACACCAAATTTTCACAATCGAGGATACTCCAA
* *
4042059 CCCCGTTAATCATCAGGGATACTCCAACCCCGTTATTTAC-GAGGGGATACTCCAACCTCGACTT
131 CCCCGTTAATCATCAGGGATACTCCAACCCCGTTATTT-CTGAGGGGACACTCCAACCCCGACTT
* *
4042123 TATTTCCAAAATACTGAT
195 TATTCCCAAAATACTAAT
* *
4042141 TTTTCCACAATCGGGGATACTCTAACCCC-AGTTTTATTTTCAAAACACCAATTTTTCCTTTAAT
1 TTCTCCACAATCGGGGATACTCTAACCCCGA-TTTTATTTTCAAAACACCAA-TTTT-CTATAAT
* *
4042205 CGGGGATACTCCAACTCCGATTTTAGTT-C-CAAAAATACCAATTTTTCACAATCGAGGATACTC
63 CGGGGATACTCCAACTCCGATTTTAGTTCCACAAAAACACCAAATTTTCACAATCGAGGATACTC
* * *
4042268 CAACCCTGTTAATCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCGGC
128 CAACCCCGTTAATCATCAGGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCGAC
4042333 TTTATTCCCAAAATACTAAT
193 TTTATTCCCAAAATACTAAT
* * *
4042353 TTCT-CATAATTGGGGATACTCCAACCCCG
1 TTCTCCACAATCGGGGATACTCTAACCCCG
4042382 TTATTTTCGA
Statistics
Matches: 214, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
211 23 0.11
212 153 0.71
213 5 0.02
214 33 0.15
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
TTCTCCACAATCGGGGATACTCTAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGG
GGATACTCCAACTCCGATTTTAGTTCCACAAAAACACCAAATTTTCACAATCGAGGATACTCCAA
CCCCGTTAATCATCAGGGATACTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCGACTTT
ATTCCCAAAATACTAAT
Found at i:4042466 original size:78 final size:79
Alignment explanation
Indices: 4042284--4042487 Score: 234
Period size: 78 Copynumber: 2.6 Consensus size: 79
4042274 TGTTAATCAT
*
4042284 CGGGGATACTCCAACCCCGTTA-TTTCTGAGGGGACACTCCAACCCCGGCTTTATTCCCAAAATA
1 CGGGGATACTCCAACCCCGTTATTTTC-GAGGGGACACTCCAACCCCGACTTTATTCCCAAAATA
* *
4042348 CTAATTTCTCATAAT
65 CTAATTTCTCACAAC
* * * * * * * *
4042363 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTCTAATCAT-
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGACTTTATTCCCAA-AATA
*
4042427 C-GATTTCTCACAAC
65 CTAATTTCTCACAAC
* * *
4042441 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCG
4042488 TTATTATCTC
Statistics
Matches: 105, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
78 51 0.49
79 48 0.46
80 6 0.06
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGACTTTATTCCCAAAATAC
TAATTTCTCACAAC
Found at i:4043854 original size:20 final size:19
Alignment explanation
Indices: 4043801--4043857 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
4043791 TTGTGTCGAT
*
4043801 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
4043820 TCATTGTATCAATACATGG
1 ACATTGTATCGATACATGG
*
4043839 ACAATTGTATTGATACATG
1 AC-ATTGTATCGATACATG
4043858 AAACTGGTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:4043925 original size:13 final size:13
Alignment explanation
Indices: 4043907--4043931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4043897 CATGGCACAT
4043907 TGTATCGATACAA
1 TGTATCGATACAA
4043920 TGTATCGATACA
1 TGTATCGATACA
4043932 TGATGAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4044737 original size:35 final size:35
Alignment explanation
Indices: 4044691--4044812 Score: 145
Period size: 35 Copynumber: 3.5 Consensus size: 35
4044681 TTAAGCTTTC
* *
4044691 ACAAACGATGATGAAAAGAGTTTGAGCAAATACAG
1 ACAAACGATGATGAAAAGAGTTTGAGCAGATATAG
* *
4044726 ACAAATGATGATGAAAAGAGTTTAAGCAGATATAG
1 ACAAACGATGATGAAAAGAGTTTGAGCAGATATAG
* * * * * *
4044761 CCAAATGATGATGACAATAGTTTGACCAGATGTAG
1 ACAAACGATGATGAAAAGAGTTTGAGCAGATATAG
*
4044796 CCAAACGATGATGAAAA
1 ACAAACGATGATGAAAA
4044813 TAATTTGTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 75 1.00
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.20
Consensus pattern (35 bp):
ACAAACGATGATGAAAAGAGTTTGAGCAGATATAG
Found at i:4054897 original size:52 final size:52
Alignment explanation
Indices: 4054819--4054972 Score: 211
Period size: 52 Copynumber: 3.0 Consensus size: 52
4054809 CTCGAAATAT
4054819 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGG
** * * *
4054871 GAAAATTTGCCTGCATGTATCGATACATTTTTTTGTGTATCGATAGATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGG
* ***
4054923 GCAAATTTGCCTGCATGTATCGATACA-AAGATTAGTGTATCGATACATTT
1 GAAAATTTGCCTGCATGTATCGATACATTTCA-TAGTGTATCGATACATTT
4054973 TTTGGTAGTT
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
52 88 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATTTGG
Found at i:4055015 original size:19 final size:19
Alignment explanation
Indices: 4054991--4055055 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
4054981 TTGCTTACAT
4054991 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
4055010 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
4055023 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
4055042 TGTATCGATACAAA
1 TGTATCGATACAAA
4055056 TTGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:4055027 original size:32 final size:32
Alignment explanation
Indices: 4054986--4055053 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
4054976 GGTAGTTGCT
4054986 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
*
4055018 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
4055050 TACA
1 TACA
4055054 AATTGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCGA
Found at i:4055028 original size:13 final size:13
Alignment explanation
Indices: 4055010--4055034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4055000 ACAAAACTTA
4055010 TGTATCGATACAT
1 TGTATCGATACAT
4055023 TGTATCGATACA
1 TGTATCGATACA
4055035 ACACTTATGT
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:4061184 original size:19 final size:20
Alignment explanation
Indices: 4061143--4061195 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 20
4061133 TACAAGCCAA
4061143 TGTATCGATACATATTTTTTTG
1 TGTATCGATACATA--TTTTTG
4061165 TGTATCGATACATA-TTTTG
1 TGTATCGATACATATTTTTG
4061184 TGTATCGATACA
1 TGTATCGATACA
4061196 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 17 0.55
22 14 0.45
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.47
Consensus pattern (20 bp):
TGTATCGATACATATTTTTG
Found at i:4061272 original size:20 final size:20
Alignment explanation
Indices: 4061226--4061299 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
4061216 ATCCCAATGA
***
4061226 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
4061247 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
4061267 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
4061287 TATGTATCGATAC
1 CATGTATCGATAC
4061300 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:4063749 original size:20 final size:20
Alignment explanation
Indices: 4063724--4063775 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
4063714 ATAATTCCCC
4063724 TGTATCGATACA-AAGAAAAA
1 TGTATCGATACACAA-AAAAA
* *
4063744 TGTATCGATACACAAACACA
1 TGTATCGATACACAAAAAAA
4063764 TGTATCGATACA
1 TGTATCGATACA
4063776 TTTTGGACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.23
Consensus pattern (20 bp):
TGTATCGATACACAAAAAAA
Found at i:4065812 original size:15 final size:15
Alignment explanation
Indices: 4065792--4065822 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4065782 ATTTCGTTTG
*
4065792 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4065807 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4065822 G
1 G
4065823 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4069908 original size:13 final size:13
Alignment explanation
Indices: 4069890--4069915 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4069880 ATTTTTTTTG
4069890 TGTATCGATACAT
1 TGTATCGATACAT
4069903 TGTATCGATACAT
1 TGTATCGATACAT
4069916 ATTTTGTGTA
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:4069926 original size:32 final size:33
Alignment explanation
Indices: 4069869--4069933 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
4069859 TACAAGCCAA
*
4069869 TGTATCGATACATTTTTTTTGTGTATCGATACAT
1 TGTATCGATACA-TTATTTTGTGTATCGATACAT
4069903 TGTATCGATACA-TATTTTGTGTATCGATACA
1 TGTATCGATACATTATTTTGTGTATCGATACA
4069934 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
34 12 0.40
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.46
Consensus pattern (33 bp):
TGTATCGATACATTATTTTGTGTATCGATACAT
Found at i:4070010 original size:20 final size:20
Alignment explanation
Indices: 4069964--4070037 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
4069954 ATCCCAATGA
***
4069964 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
4069985 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
4070005 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
4070025 TATGTATCGATAC
1 CATGTATCGATAC
4070038 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:4074537 original size:52 final size:52
Alignment explanation
Indices: 4074459--4074587 Score: 233
Period size: 52 Copynumber: 2.5 Consensus size: 52
4074449 CGAAATATGG
4074459 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGG-C
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCT-GGAC
*
4074511 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGAC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGAC
4074563 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4074588 AAGATAAGTG
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
51 2 0.03
52 73 0.97
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGAC
Found at i:4074598 original size:52 final size:52
Alignment explanation
Indices: 4074459--4074607 Score: 205
Period size: 52 Copynumber: 2.9 Consensus size: 52
4074449 CGAAATATGG
*
4074459 AAATTTGCCTGCATGTATCGATACATTTCAT-AGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-ATCATAAGTGTATCGATACATCTAGGC
**
4074511 AAATTTGCCTGCATGTATCGATAC-ATTTTATAGTGTATCGATACATCT-GGAC
1 AAATTTGCCTGCATGTATCGATACAATCATA-AGTGTATCGATACATCTAGG-C
**
4074563 AAATTTGCCTGCATGTATCGATACAAAGATAAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAATCATAAGTGTATCGATACA
4074608 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
50 2 0.02
51 2 0.02
52 80 0.92
53 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACAATCATAAGTGTATCGATACATCTAGGC
Found at i:4074614 original size:13 final size:13
Alignment explanation
Indices: 4074596--4074620 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4074586 CAAAGATAAG
4074596 TGTATCGATACAA
1 TGTATCGATACAA
4074609 TGTATCGATACA
1 TGTATCGATACA
4074621 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4074687 original size:19 final size:19
Alignment explanation
Indices: 4074663--4074742 Score: 100
Period size: 19 Copynumber: 4.5 Consensus size: 19
4074653 TAGCTTACAT
*
4074663 TGTATCGATATAAAACTTA
1 TGTATCGATATAACACTTA
*
4074682 TGTATCGATACAACACTTA
1 TGTATCGATATAACACTTA
4074701 TGTATCG--AT-ACA--T-
1 TGTATCGATATAACACTTA
4074714 TGTATCGATATAACACTTA
1 TGTATCGATATAACACTTA
4074733 TGTATCGATA
1 TGTATCGATA
4074743 CATTGTATCG
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 7 0.13
14 1 0.02
15 2 0.04
16 6 0.12
17 1 0.02
18 1 0.02
19 34 0.65
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (19 bp):
TGTATCGATATAACACTTA
Found at i:4074719 original size:13 final size:13
Alignment explanation
Indices: 4074701--4074757 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
4074691 ACAACACTTA
4074701 TGTATCGATACAT
1 TGTATCGATACAT
4074714 TGTATCGATATAACACTT
1 TGTATCG--AT-ACA--T
4074732 ATGTATCGATACAT
1 -TGTATCGATACAT
4074746 TGTATCGATACA
1 TGTATCGATACA
4074758 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 19 0.50
14 1 0.03
15 2 0.05
16 6 0.16
17 2 0.05
18 1 0.03
19 7 0.18
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4074723 original size:32 final size:32
Alignment explanation
Indices: 4074682--4074777 Score: 165
Period size: 32 Copynumber: 3.0 Consensus size: 32
4074672 ATAAAACTTA
4074682 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
*
4074714 TGTATCGATATAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
*
4074746 TGTATCGATACAACACTTTATGTATGGATACA
1 TGTATCGATACAACAC-TTATGTATCGATACA
4074778 AATCGTTGAA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 46 0.77
33 14 0.23
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:4075480 original size:55 final size:54
Alignment explanation
Indices: 4075411--4075979 Score: 314
Period size: 55 Copynumber: 10.7 Consensus size: 54
4075401 ATAAAAGGAC
* * **
4075411 CAATATGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGATGT
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAG-AAAAGGATGT
* * * * * * * *
4075466 CAATATGCTAATTCACGGTCAATGACATTAGACTTGAAGATGAGAAAA--ATGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAGGATGT
* * * **
4075518 CAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGATG--AAGG-TG-
1 CAATATGCTGATTCAAGGCCAACGATATT-GGACTTAAAGATGA-GAAAAGGATGT
* * *
4075570 CTAATATGCTGATTCAAGGCCAACAATATTGAACTCAAAGATGAAGATAAGAAAAGTGATAAAGA
1 C-AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT---G---AGAAAAG-GAT---G-
4075635 T
54 T
* * * * *
4075636 GCCAATATGTTAATTTACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGT
1 -C-AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAG-AAAAGGATGT
* * * * * *
4075693 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-GAAAAGG-TGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAGGATGT
* * *
4075745 CAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T----AAAGG-TGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAGGATGT
* * * * * *
4075788 CAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGA--AG--AAGG-TGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAGGATGT
* * *
4075837 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAATGATGT
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAG-AAAAGGATGT
* * * * * *
4075892 CAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G-AAA-G-TGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAGGATGT
*
4075941 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
4075980 GTGCCATTGT
Statistics
Matches: 413, Mismatches: 65, Indels: 78
0.74 0.12 0.14
Matches are distributed among these distances:
43 38 0.09
44 1 0.00
46 1 0.00
49 81 0.20
50 1 0.00
51 6 0.01
52 69 0.17
53 45 0.11
54 9 0.02
55 107 0.26
56 1 0.00
57 2 0.00
58 2 0.00
59 3 0.01
60 1 0.00
61 6 0.01
62 5 0.01
64 2 0.00
67 33 0.08
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (54 bp):
CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAGGATGT
Found at i:4075754 original size:174 final size:172
Alignment explanation
Indices: 4075461--4075783 Score: 407
Period size: 174 Copynumber: 1.9 Consensus size: 172
4075451 TGAGAAAAAG
* * * *
4075461 GATGTCAATATGCTAATTCACGGTCAATGACATTAGACTTGAAGATGAGAAAAATGCCAATGTGC
1 GATGCCAATATGCTAATTCACGGCCAACGACATTAGACTTAAAGATGAGAAAAATGCCAATGTGC
*** * *
4075526 TGATTCAAGGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGCTAATATGCTGATTCAAGGCC
66 TGATTCAAGGCCAACAACATTGGAACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCC
4075591 AACAATATTGAACTCAAAGATGAAGATAAGAAAAGTGATAAA
131 AACAATATTGAACTCAAAGATGAAGATAAGAAAAGTGATAAA
* * * * * *
4075633 GATGCCAATATGTTAATTTACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATG
1 GATGCCAATATGCTAATTCACGGCCAACGACATTAGACTTAAAGATGAG-AAAA--ATGCCAATG
* *
4075698 TGCTGATTCAAGGCCAGCTACATT-GAACTTAAAGATGGA-AAAGGTGCCAATATGCTGATTCAA
63 TGCTGATTCAAGGCCAACAACATTGGAACTTAAAGAT-GATAAAGGTGCCAATATGCTGATTCAA
* * * *
4075761 GGCCAGCTATATTGGACTTAAAG
127 GGCCAACAATATTGAACTCAAAG
4075784 GTGCCAATGT
Statistics
Matches: 126, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
172 40 0.32
173 4 0.03
174 50 0.40
175 32 0.25
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (172 bp):
GATGCCAATATGCTAATTCACGGCCAACGACATTAGACTTAAAGATGAGAAAAATGCCAATGTGC
TGATTCAAGGCCAACAACATTGGAACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCC
AACAATATTGAACTCAAAGATGAAGATAAGAAAAGTGATAAA
Found at i:4075867 original size:92 final size:92
Alignment explanation
Indices: 4075684--4076162 Score: 652
Period size: 92 Copynumber: 5.0 Consensus size: 92
4075674 AAGATGAGAA
* * *
4075684 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
4075749 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
*
4075780 AAAGGTGCCAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
4075845 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * * *
4075872 AAAGATGAGAAAAATGATGTCAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAA
1 --A-A--AG------G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAG
*
4075937 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
54 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
4075976 AAAGGTGCCATTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
4076041 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * * * *
4076068 AAAAGTGCCAACGTGCTGATTCAAGGCTACCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* * *
4076133 TGATTCAAGGCCATCGATATTGGGCTT
66 TGATTCAAGGCCAGCTATATTGGACTT
4076160 AAA
1 AAA
4076163 AGGGTTGCCA
Statistics
Matches: 346, Mismatches: 25, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
92 210 0.61
93 1 0.00
94 1 0.00
95 41 0.12
96 5 0.01
97 2 0.01
99 2 0.01
101 1 0.00
102 1 0.00
103 1 0.00
104 81 0.23
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:4076155 original size:49 final size:49
Alignment explanation
Indices: 4075693--4076145 Score: 501
Period size: 49 Copynumber: 9.4 Consensus size: 49
4075683 AAAAGGATGT
* *
4075693 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
*
4075745 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
4075788 CAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
4075837 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAATGATGT
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G---AA-GGTGC
* * *
4075892 CAATGTGTTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
4075941 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
4075984 CATTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
4076033 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-A--AA-GTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
** * *
4076076 CAACGTGCTGATTCAAGGCTACCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
4076125 CAATATGCTGATTCAAGGCCA
1 CAATATGCTGATTCAAGGCCA
4076146 TCGATATTGG
Statistics
Matches: 339, Mismatches: 38, Indels: 51
0.79 0.09 0.12
Matches are distributed among these distances:
43 110 0.32
44 2 0.01
45 2 0.01
46 2 0.01
47 3 0.01
48 3 0.01
49 138 0.41
50 2 0.01
51 1 0.00
52 32 0.09
53 1 0.00
54 2 0.01
55 41 0.12
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:4076249 original size:33 final size:32
Alignment explanation
Indices: 4076165--4076381 Score: 257
Period size: 33 Copynumber: 6.8 Consensus size: 32
4076155 GGCTTAAAAG
* *
4076165 GGTTGCCACTGACTTGTGTGGGCTTT-GAG-G
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
**
4076195 GGATTGCCACTAACTTGTGTGGGCTTTAGAAGAA
1 GG-TTGCCACCGACTTGTGTGGGCTTTAG-AGAA
* *
4076229 GGTTGCGACCGACTTGTGTGGGC-TTAG-G-G
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
*
4076258 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
*
4076290 GGGTTGCCACCGACTTGTGTGGGCTTT-GCGAA
1 -GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
*
4076322 GGGTTGGCACCGACTTGTGTGGGCTTTAGAAGAA
1 -GGTTGCCACCGACTTGTGTGGGCTTTAG-AGAA
*
4076356 GGTTGCCACCGACTTTTGTGGGCTTT
1 GGTTGCCACCGACTTGTGTGGGCTTT
4076382 GAGGGGGTGA
Statistics
Matches: 162, Mismatches: 15, Indels: 17
0.84 0.08 0.09
Matches are distributed among these distances:
29 22 0.14
30 7 0.04
31 23 0.14
32 34 0.21
33 71 0.44
34 5 0.03
ACGTcount: A:0.16, C:0.18, G:0.36, T:0.30
Consensus pattern (32 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
Found at i:4076277 original size:62 final size:64
Alignment explanation
Indices: 4076165--4076389 Score: 330
Period size: 65 Copynumber: 3.5 Consensus size: 64
4076155 GGCTTAAAAG
* * **
4076165 GGTTGCCACTGACTTGTGTGGGCTTTGAGGGGATTGCCACTAACTTGTGTGGGCTTTAGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA
*
4076229 GGTTGCGACCGACTTGTGTGGGC-TT-AGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAA-AA
1 GGTTGCCACCGACTTGTGTGGGCTTTGAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA
* * *
4076290 GGGTTGCCACCGACTTGTGTGGGCTTTGCGAAGGGTTGGCACCGACTTGTGTGGGCTTTAGAAGA
1 -GGTTGCCACCGACTTGTGTGGGCTTTGAG-GGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGA
4076355 A
64 A
*
4076356 GGTTGCCACCGACTTTTGTGGGCTTTGAGGGGGT
1 GGTTGCCACCGACTTGTGTGGGCTTTGAGGGGGT
4076390 GAAAGATGCC
Statistics
Matches: 144, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
61 2 0.01
62 53 0.37
63 4 0.03
64 26 0.18
65 57 0.40
66 2 0.01
ACGTcount: A:0.16, C:0.17, G:0.37, T:0.29
Consensus pattern (64 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA
Found at i:4076531 original size:33 final size:34
Alignment explanation
Indices: 4076396--4077183 Score: 684
Period size: 31 Copynumber: 23.8 Consensus size: 34
4076386 GGGTGAAAGA
* *
4076396 TGCCACGAAGTTGTGGACTTTAAAAGGGACAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
* * *
4076430 TGCCACGGAGTTGTGGGCTTTTAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGAC-TTTAAAAGGAACAAG-G
*
4076466 TGCCACGGAGTTGTGGGCTTTGAAAA-G---AAGG
1 TGCCACGGAGTTGTGGACTTT-AAAAGGAACAAGG
** *
4076497 TGCCATAGAGTCGTGGAC-TTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
* *
4076530 TGCCACGGAGTTGTAGACTTTAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTTAAAA-GGAACAAG-G
* * * * *
4076566 TGCCACAGAGTTGTGGGCTTCAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
4076600 TGCCACGGAGTTGTGGAC-TTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
*
4076633 TGCCACGGAGTTGTGGACTTTAAAA--AA-GA-G
1 TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
*
4076663 TGCCACGGAGTTGTGGGCTTTGAAAA-G-AC--GG
1 TGCCACGGAGTTGTGGACTTT-AAAAGGAACAAGG
*** *
4076694 TGCCACGGAGTTGCACACTTTGAAAGG---AAGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
*
4076725 TGCCACGGAGTCGTGGAC-TTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
*
4076758 TGCCACGGGGTTGTGGACTTTAAAAGGGAGA-AAGAG
1 TGCCACGGAGTTGTGGACTTTAAAA-GGA-ACAAG-G
*
4076794 TGCCACGGAGTTGTGGGCTTTGAAAA-G-A-AA-G
1 TGCCACGGAGTTGTGGACTTT-AAAAGGAACAAGG
* * *
4076825 TGCCACGGAGTTTTGGACTTTGAAAGGAACAAGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
* *
4076859 TGCCATGGGGTTGTGGAC-TTAAAAGGAACAAAGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAC-AAG-G
* *
4076894 TGCCACGGAGTTGTGGGCTTTGAAA--AA-AAGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
**
4076925 TGCCACGGAGTCATGGAC-TTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
* * *
4076958 TGCCACAGAGTTGTGGACTTTAAAAGGGAAAAAAAG
1 TGCCACGGAGTTGTGGACTTTAAAA-GG-AACAAGG
* *
4076994 TGCCACGGAGTTGTGGGCTTTGAAAAGG----AGT
1 TGCCACGGAGTTGTGGACTTT-AAAAGGAACAAGG
* * * * *
4077025 TCCCACGAAGTCGCGGACTTTGAAAGG---AAGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
*
4077056 TGCCACGGAGTCGTGGAC-TTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
* *
4077089 TGCCACGGGGTTGTGGACTTTAAAAGGGACAAAGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGAAC-AAG-G
4077125 TGCCACGGAGTTGTGGACTTTGAAAA-G---AAGG
1 TGCCACGGAGTTGTGGACTTT-AAAAGGAACAAGG
* *
4077156 TACCACGGAGTCGTGGACTTTAAGAAGG
1 TGCCACGGAGTTGTGGACTTTAA-AAGG
4077184 TTTTGAAGAA
Statistics
Matches: 620, Mismatches: 84, Indels: 102
0.77 0.10 0.13
Matches are distributed among these distances:
29 4 0.01
30 56 0.09
31 149 0.24
32 15 0.02
33 122 0.20
34 87 0.14
35 57 0.09
36 118 0.19
37 12 0.02
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.20
Consensus pattern (34 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGAACAAGG
Found at i:4076881 original size:100 final size:100
Alignment explanation
Indices: 4076391--4077183 Score: 562
Period size: 100 Copynumber: 8.0 Consensus size: 100
4076381 TGAGGGGGTG
* * * * *
4076391 AAAGA-TGCCACGAAGTTGTGGACTTT-AAAAGGGACAAGGTGCCACGGAGTTGTGGGCTTTTAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--GA-AA-GTGCCACGGAGTCGTGGACTTTGAA
* *
4076454 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--G-
62 A-GGAACAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGGGA
** * * * * *
4076493 -AAG-GTGCCATAGAGTCGTGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTAGACTTTAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G-A-AA-GTGCCACGGAGTCGTGGACTTTGAA
* * * * * *
4076554 AGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTCAAAAAGAA
62 A-GGAACAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGGA
* *
4076595 AAAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGGACTTT--A
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G-A-AA-GTGCCACGGAGTCGTGGACTTTGAA
*
4076655 A--AA-AAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--G-
62 AGGAACAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGGGA
* **** * * *
4076690 -ACG-GTGCCACGGAGTTGCACACTTTGAAAGGAAGGTGCCACGGAGTCGTGGAC-TTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTCGTGGACTTTGAAAGGA
*
4076752 ACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGA
66 ACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGA
**
4076787 GAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTTTTGGACTTTGAAAGG
1 -AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTCGTGGACTTTGAAAGG
* * * *
4076852 AACAAGATGCCATGGGGTTGTGGAC-TTAAAAGGAA
65 AACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGA
* *
4076887 CAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-AAAGGTGCCACGGAGTCATGGAC-TTAAAAG
1 -AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAA-GTGCCACGGAGTCGTGGACTTTGAAAG
*
4076950 GAACAAGGTGCCACAGAGTTGTGGACTTTAAAAGGGAA
64 GAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGG-A
* * * * *
4076988 AAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAG-GAGTTCCCACGAAGTCGCGGACTTTGAAAGG
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAG-TGCCACGGAGTCGTGGACTTTGAAAGG
*
4077052 ---AAGGTGCCACGGAGTCGTGGAC-TTAAAA-GGA
65 AACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGA
* * *
4077083 ACAAG-GTGCCACGGGGTTGTGGACTTT-AAAAGGGACAAAGAGTGCCACGGAGTTGTGGACTTT
1 A-AAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--G---AA-AGTGCCACGGAGTCGTGGACTTT
* * *
4077146 G-AA--AAGAAGGTACCACGGAGTCGTGGACTTTAAGAAGG
59 GAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAA-AAGG
4077184 TTTTGAAGAA
Statistics
Matches: 584, Mismatches: 66, Indels: 81
0.80 0.09 0.11
Matches are distributed among these distances:
91 2 0.00
92 18 0.03
93 3 0.01
94 27 0.05
95 47 0.08
96 12 0.02
97 30 0.05
98 26 0.04
99 42 0.07
100 257 0.44
101 63 0.11
102 2 0.00
103 55 0.09
ACGTcount: A:0.32, C:0.15, G:0.33, T:0.20
Consensus pattern (100 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTCGTGGACTTTGAAAGGA
ACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGA
Found at i:4076928 original size:131 final size:128
Alignment explanation
Indices: 4076391--4077178 Score: 556
Period size: 131 Copynumber: 6.0 Consensus size: 128
4076381 TGAGGGGGTG
* * * *
4076391 AAAGA-TGCCACGAAGTTGTGGACTTT-AAAAGGGACAAGGTGCCACGGAGTTGTGGGCTTTTAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--GA-AA-GTGCCACGGAGTTGTGGACTTTGAA
* ** * ** *
4076454 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA--AAGAAGGTGCCATAGAGTCGTGGACTT
62 A-GG-AAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
*
4076517 AAAAGGA
124 TAAA--A
* * * *
4076524 ACAAG-GTGCCACGGAGTTGTAGACTTT-AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTC
1 A-AAGAGTGCCACGGAGTTGTGGGCTTTGAAAA--G---AA-AGTGCCACGGAGTTGTGGACTT-
** *
4076587 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACT
58 TGAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACT
4076652 TT-AAA
123 TTAAAA
** ***
4076657 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGACGGTGCCACGGAGTTGCACACTTTGAAAGG-
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTTGTGGACTTTGAAAGGA
* *
4076721 -AAGGTGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGG
66 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTT-AAA--
4076785 GA
128 -A
*
4076787 GAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTTTTGGACTTTGAAAGG
1 -AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTTGTGGACTTTGAAAGG
* * * *
4076852 AACAAGATGCCATGGGGTTGTGGACTTAAAAGGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGA
65 AA-AAGGTGCCACGGAGTTGTGGACTTAAAAGGAAC-AAG-GTGCCACGGAGTTGTGGACTTT-A
4076917 AAA
126 AAA
** * * *
4076920 AAAG-GTGCCACGGAGTCATGGAC-TT-AAAAGGAACAAGGTGCCACAGAGTTGTGGACTTTAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G-A-AA-GTGCCACGGAGTTGTGGACTTTGAA
* * * * * * *
4076982 AGGGAAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGG----AGTTCCCACGAAGTCGCGGAC
62 A-GG--AAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGGAC
*
4077043 TTTGAAAG
122 TTT-AAAA
* * * * *
4077051 GAAG-GTGCCACGGAGTCGTGGAC-TT-AAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G-A-AA-GTGCCACGGAGTTGTGGACTTTGAA
** * * *
4077113 AGGGACAAAGAGTGCCACGGAGTTGTGGACTTTGAA--AAGAAGGTACCACGGAGTCGTGGACTT
62 A-GGA-AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
4077176 TAA
124 TAA
4077179 GAAGGTTTTG
Statistics
Matches: 547, Mismatches: 71, Indels: 77
0.79 0.10 0.11
Matches are distributed among these distances:
125 56 0.10
127 6 0.01
128 16 0.03
129 8 0.01
130 11 0.02
131 195 0.36
132 12 0.02
133 47 0.09
134 86 0.16
135 27 0.05
136 72 0.13
137 11 0.02
ACGTcount: A:0.32, C:0.15, G:0.33, T:0.20
Consensus pattern (128 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTTGTGGACTTTGAAAGGA
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAA
Found at i:4077100 original size:331 final size:328
Alignment explanation
Indices: 4076396--4077183 Score: 1138
Period size: 331 Copynumber: 2.4 Consensus size: 328
4076386 GGGTGAAAGA
* * * * * *
4076396 TGCCACGAAGTTGTGGACTTTAAAAGGGACAAGGTGCCACGGAGTTGTGGGCTTTTAAAGGGAAA
1 TGCCACGGAGTCGTGGAC-TTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAA
**
4076461 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCATAGAGTCGTGGAC-TTAAAAGGAA
65 AAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGGAA
*
4076525 CAAGGTGCCACGGAGTTGTAGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTCAAA
130 CAAGATGCCACGGAGTTGTAGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT-AAA
** *
4076590 AAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTA
194 AAGAAAAAGGTGCCACGGAGTCATGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACTTTA
* * * *
4076655 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGACGGTGCCACGGAGTTGCACACTTTGAAAG
259 AAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGACGGTCCCACGAAGTCGCACACTTTGAAAG
4076720 GAAGG
324 GAAGG
*
4076725 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAGAA
1 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
* ** *
4076790 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTTTTGGACTTTGAAAGGAAC
66 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGGAAC
* * * * **
4076855 AAGATGCCATGGGGTTGTGGAC-TTAAAA-GGAACAAAGAGTGCCACGGAGTTGTGGGCTT-TGA
131 AAGATGCCACGGAGTTGTAGACTTTAAAAGGGAA-AAAGAGTGCCACAGAGTTGTGGGCTTAAAA
4076917 A-AAAAAGGTGCCACGGAGTCATGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACTTTAA
195 AGAAAAAGGTGCCACGGAGTCATGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACTTT--
* **
4076981 AAGGGAAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGA-GTTCCCACGAAGTCGCGGACTT
258 -A---AAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAA-GACGGTCCCACGAAGTCGCACACTT
4077045 TGAAAGGAAGG
318 TGAAAGGAAGG
*
4077056 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGACAA
1 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
* *
4077121 AGAGTGCCACGGAGTTGTGGACTTTGAAAAGAAGGTACCACGGAGTCGTGGACTTTAAGAAGG
66 AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAA-AAGG
4077184 TTTTGAAGAA
Statistics
Matches: 412, Mismatches: 37, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
325 58 0.14
326 2 0.00
327 4 0.01
328 122 0.30
329 44 0.11
331 176 0.43
332 6 0.01
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.20
Consensus pattern (328 bp):
TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
AGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGGAAC
AAGATGCCACGGAGTTGTAGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAA
GAAAAAGGTGCCACGGAGTCATGGACTTAAAAGGAACAAGGTGCCACAGAGTTGTGGACTTTAAA
AAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGACGGTCCCACGAAGTCGCACACTTTGAAAGGA
AGG
Found at i:4078453 original size:17 final size:17
Alignment explanation
Indices: 4078428--4078463 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
4078418 CTTTTTTCTG
*
4078428 TGTTTTTTTTGTTTTGTT
1 TGTTTTTTTT-TTGTGTT
4078446 TGTTTTTTTTTTGTGTT
1 TGTTTTTTTTTTGTGTT
4078463 T
1 T
4078464 ACTTTTGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (17 bp):
TGTTTTTTTTTTGTGTT
Found at i:4085341 original size:52 final size:52
Alignment explanation
Indices: 4085193--4085321 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
4085183 TGAAATATGG
*
4085193 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* *
4085245 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
4085297 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4085322 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:4085348 original size:13 final size:13
Alignment explanation
Indices: 4085330--4085354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4085320 CAAAGATCAG
4085330 TGTATCGATACAA
1 TGTATCGATACAA
4085343 TGTATCGATACA
1 TGTATCGATACA
4085355 TTTTTTGGCA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4085400 original size:19 final size:19
Alignment explanation
Indices: 4085376--4085524 Score: 109
Period size: 19 Copynumber: 8.7 Consensus size: 19
4085366 TAGCTTACAT
*
4085376 TGTATCGATATAAAACTTA
1 TGTATCGATACAAAACTTA
*
4085395 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
4085414 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
4085427 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
4085446 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
4085459 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
4085478 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
4085491 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
*
4085511 TGTATGGATACAAA
1 TGTATCGATACAAA
4085525 TCGTTGAAAT
Statistics
Matches: 107, Mismatches: 4, Indels: 37
0.72 0.03 0.25
Matches are distributed among these distances:
13 33 0.31
14 3 0.03
16 6 0.06
18 2 0.02
19 51 0.48
20 12 0.11
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:4085432 original size:13 final size:13
Alignment explanation
Indices: 4085414--4085502 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
4085404 ACAACACTTA
4085414 TGTATCGATACAT
1 TGTATCGATACAT
4085427 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
4085445 ATGTATCGATACAT
1 -TGTATCGATACAT
4085459 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
4085477 ATGTATCGATACAT
1 -TGTATCGATACAT
4085491 TGTATCGATACA
1 TGTATCGATACA
4085503 ACACTTTATG
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 30 0.47
14 2 0.03
16 12 0.19
18 2 0.03
19 18 0.28
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4085436 original size:32 final size:32
Alignment explanation
Indices: 4085395--4085522 Score: 238
Period size: 32 Copynumber: 4.0 Consensus size: 32
4085385 ATAAAACTTA
4085395 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
4085427 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
4085459 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
*
4085491 TGTATCGATACAACACTTTATGTATGGATACA
1 TGTATCGATACAACAC-TTATGTATCGATACA
4085523 AATCGTTGAA
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 80 0.85
33 14 0.15
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:4086223 original size:55 final size:54
Alignment explanation
Indices: 4086156--4086724 Score: 350
Period size: 55 Copynumber: 10.7 Consensus size: 54
4086146 ATAAAAGGAC
* * **
4086156 CAATATGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGATGT
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAG-AAAAGGATGT
* * * * * * *
4086211 CAATATGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAAA--ATGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAGGATGT
* * * ** *
4086263 CAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGTTG--AAGG-TG-
1 CAATATGCTGATTCAAGGCCAACGATATT-GGACTTAAAGATG-AGAAAAGGATGT
*
4086315 CTAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATAAGAAAAGTGATAAAGA
1 C-AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT---G---AGAAAAG-GAT---G-
4086380 T
54 T
* * * * *
4086381 GCCAATATGTTGATTTACGGCCAATGATATTGGGCTTAAAGATGAGAAAGAGGATGT
1 -C-AATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAA-AGGATGT
* * * * * *
4086438 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-GAAAAGG-TGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAGGATGT
* * *
4086490 CAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T----AAAGG-TGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAGGATGT
* * * * * *
4086533 CAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGA--AG--AAGG-TGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAGGATGT
* *
4086582 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAGGATGT
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAG-AAAAGGATGT
* * * * *
4086637 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G-AAA-G-TGC
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAGGATGT
*
4086686 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG
4086725 GTGCCATTGT
Statistics
Matches: 420, Mismatches: 59, Indels: 76
0.76 0.11 0.14
Matches are distributed among these distances:
43 38 0.09
44 1 0.00
46 1 0.00
49 82 0.20
50 1 0.00
51 6 0.01
52 72 0.17
53 41 0.10
54 13 0.03
55 109 0.26
56 1 0.00
57 2 0.00
58 1 0.00
59 3 0.01
60 1 0.00
61 9 0.02
62 2 0.00
64 2 0.00
67 35 0.08
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (54 bp):
CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAGAAAAGGATGT
Found at i:4086291 original size:52 final size:52
Alignment explanation
Indices: 4086155--4086890 Score: 285
Period size: 49 Copynumber: 14.4 Consensus size: 52
4086145 GATAAAAGGA
* * * * **
4086155 CCAATATGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGATG
1 CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAG-AAAA--ATG
* * * * * * *
4086210 TCAATATGCTGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAAAATG
1 CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAAAATG
* ** * **
4086262 CCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGTTG-AAGGTG
1 CCAATATGCTGATTCAAGGCCAACAACATT-GGACTTAAAGATG-AGAAAAATG
* *
4086315 CTAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATAAGAAAAGTG
1 CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATG-AG---A-AAAA-TG
** * * * ** * *
4086373 ATAAAGATGCCAATATGTTGATTTACGGCCAATGATATTGGGCTTAAAGATGAGAAAGAGGATG
1 --CCA-A------TATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAA-A--ATG
* * * * * *
4086437 TCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-GAAAAGGTG
1 CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAAA-ATG
* * *
4086489 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G-G-----TG
1 CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAAAATG
* * * * **
4086532 CCAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGA--AG-AAGGTG
1 CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAAAATG
* * *
4086581 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAGGATG
1 CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAG-AAAA--ATG
* * * * *
4086636 TCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G-AAAGTG
1 CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAAAATG
* * *
4086685 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G-G-----TG
1 CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAAAATG
* * * * **
4086728 CCATTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--AG-AAGGTG
1 CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAAAATG
* * * *
4086777 CCAATATGCTGATTCAAGGCCACCTATATTGGACCT-AA-A-G-G-----TG
1 CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAAAATG
** * * * **
4086820 CCAACGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGAT--G-AAGGTG
1 CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAAAATG
4086869 CCAATATGCTGATTCAAGGCCA
1 CCAATATGCTGATTCAAGGCCA
4086891 GCGATATTGG
Statistics
Matches: 543, Mismatches: 89, Indels: 104
0.74 0.12 0.14
Matches are distributed among these distances:
43 101 0.19
44 6 0.01
45 6 0.01
47 4 0.01
48 4 0.01
49 131 0.24
50 1 0.00
51 7 0.01
52 74 0.14
53 44 0.08
54 9 0.02
55 106 0.20
57 2 0.00
58 2 0.00
60 1 0.00
61 2 0.00
62 3 0.01
63 2 0.00
64 2 0.00
65 1 0.00
66 2 0.00
67 33 0.06
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (52 bp):
CCAATATGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAAAATG
Found at i:4086598 original size:49 final size:49
Alignment explanation
Indices: 4086438--4086907 Score: 508
Period size: 49 Copynumber: 9.8 Consensus size: 49
4086428 AAGAGGATGT
* * *
4086438 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGC
*
4086490 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* *
4086533 CAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* *
4086582 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAGGATGT
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--AG---AAGG-TGC
* * *
4086637 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* *
4086686 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* *
4086729 CATTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* * *
4086778 CAATATGCTGATTCAAGGCCACCTATATTGGACCT-----A-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
** * *
4086821 CAACGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
* * *
4086870 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAA
4086908 AGGGTTGCCA
Statistics
Matches: 354, Mismatches: 40, Indels: 51
0.80 0.09 0.11
Matches are distributed among these distances:
43 112 0.32
44 2 0.01
48 2 0.01
49 156 0.44
50 3 0.01
51 2 0.01
52 32 0.09
53 1 0.00
54 4 0.01
55 40 0.11
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGC
Found at i:4086612 original size:92 final size:92
Alignment explanation
Indices: 4086438--4086907 Score: 670
Period size: 92 Copynumber: 4.9 Consensus size: 92
4086428 AAGAGGATGT
* *
4086438 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAATATGCTGATT
4086503 CAAGGCCAGCTATATTGGACTTAAAGGTGC
63 CAAGGCCAGCTATATTGGACTTAAAGGTGC
*
4086533 CAATGTGCTTATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
4086598 GGCCAGCTATATTGGACTTAAAGATGAGAAAAAGGATGT
66 GGCCAGCTATATTGGAC-T-----T-----AAAGG-TGC
* *
4086637 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
*
4086702 GGCCAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
*
4086729 CATTGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
* *
4086794 GGCCACCTATATTGGACCTAAAGGTGC
66 GGCCAGCTATATTGGACTTAAAGGTGC
* * *
4086821 CAACGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
* *
4086886 GGCCAGCGATATTGGGCTTAAA
66 GGCCAGCTATATTGGACTTAAA
4086908 AGGGTTGCCA
Statistics
Matches: 340, Mismatches: 23, Indels: 27
0.87 0.06 0.07
Matches are distributed among these distances:
92 208 0.61
93 6 0.02
95 38 0.11
98 2 0.01
103 6 0.02
104 80 0.24
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
GGCCAGCTATATTGGACTTAAAGGTGC
Found at i:4086994 original size:33 final size:32
Alignment explanation
Indices: 4086910--4087124 Score: 244
Period size: 33 Copynumber: 6.8 Consensus size: 32
4086900 GGCTTAAAAG
* *
4086910 GGTTGCCACTGACTTGTGTGGGCTTT-GAG-G
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
**
4086940 GGATTGCCACTAACTTGTGTGGGCTTTAGAAGAA
1 GG-TTGCCACCGACTTGTGTGGGCTTTAG-AGAA
*
4086974 GGTTGCGACCGACTTGTGTGGGC-TTAGAG--
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
*
4087003 GGTTGCCACCGACTTGTGTGGGCTTTAGAAAA
1 GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
* *
4087035 GGGTTGCCACCGACTTGTATGGGCTTT-GGGAA
1 -GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
* *
4087067 GGGTTGGCACCGACTTGTGTGGACTTTAGAAGAA
1 -GGTTGCCACCGACTTGTGTGGGCTTTAG-AGAA
*
4087101 GGTTGCCACCGACTTTTGTGGGCT
1 GGTTGCCACCGACTTGTGTGGGCT
4087125 CTAAAACTAC
Statistics
Matches: 158, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
29 22 0.14
30 7 0.04
31 25 0.16
32 32 0.20
33 67 0.42
34 5 0.03
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (32 bp):
GGTTGCCACCGACTTGTGTGGGCTTTAGAGAA
Found at i:4087094 original size:65 final size:64
Alignment explanation
Indices: 4086910--4087124 Score: 285
Period size: 65 Copynumber: 3.4 Consensus size: 64
4086900 GGCTTAAAAG
* * **
4086910 GGTTGCCACTGACTTGTGTGGGCTTTGAGG-GGATTGCCACTAACTTGTGTGGGCTTTAGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTG-GGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA
* *
4086974 GGTTGCGACCGACTTGTGTGGGC-TT-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAA-AA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA
* * *
4087035 GGGTTGCCACCGACTTGTATGGGCTTTGGGAAGGGTTGGCACCGACTTGTGTGGACTTTAGAAGA
1 -GGTTGCCACCGACTTGTGTGGGCTTTGGG-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGA
4087100 A
64 A
*
4087101 GGTTGCCACCGACTTTTGTGGGCT
1 GGTTGCCACCGACTTGTGTGGGCT
4087125 CTAAAACTAC
Statistics
Matches: 132, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
61 3 0.02
62 49 0.37
63 4 0.03
64 22 0.17
65 52 0.39
66 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (64 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA
Found at i:4088081 original size:32 final size:32
Alignment explanation
Indices: 4088040--4088107 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
4088030 GGCAGTAGCT
*
4088040 TACATTGTATCGATATAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
*
4088072 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
4088104 TACA
1 TACA
4088108 ACACTTTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCGA
Found at i:4088082 original size:13 final size:13
Alignment explanation
Indices: 4088064--4088088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4088054 ATAAAACTTA
4088064 TGTATCGATACAT
1 TGTATCGATACAT
4088077 TGTATCGATACA
1 TGTATCGATACA
4088089 ACACTTATGT
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:4088118 original size:20 final size:19
Alignment explanation
Indices: 4088045--4088128 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
4088035 TAGCTTACAT
* *
4088045 TGTATCGATATAAAACTTA
1 TGTATCGATACAACACTTA
4088064 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
4088077 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
4088096 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
4088116 TGTATCGATACAA
1 TGTATCGATACAA
4088129 ATCGATGAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 13
0.80 0.01 0.18
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
16 5 0.09
18 1 0.02
19 25 0.44
20 16 0.28
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:4088823 original size:140 final size:139
Alignment explanation
Indices: 4088679--4089128 Score: 434
Period size: 142 Copynumber: 3.2 Consensus size: 139
4088669 TCCATGCCAT
* * * * * *
4088679 AATGGAGGATTGAAAAGACACGAAAGGTTTTCAAAATTTTTATAACCTTACAGATACCTAGAGGA
1 AATGGAGAACTGAAAAGATACAAAAAGTTTT-AAAATTTTTATAACCTTACAGAAACCTAGA-GA
* * *
4088744 ATATTAGAAAT-TTCAAAAAATTCAGATAATAATTTTTATTTAATTTTTAGTTTTT-AAAAATTC
64 ATATTAGAAATCTT-GAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTTAAAAAATTC
*
4088807 ATTTCGTATCTG
128 ATTTCGTACCTG
* ** * * * * *
4088819 AATGGAAAACCAAAAAGATATAAAAAGTTTTAAAGATTTTTATACCCCTACGGAAAACCATA-TG
1 AATGGAGAACTGAAAAGATACAAAAAGTTTTAAA-ATTTTTATAACCTTACAG-AAACC-TAGAG
** *
4088883 AATATTAGAAATCTTGAAAAATTAAGATTTTTATTTTTATTTAATTTTTTAATTTTTAAAAAATT
63 AATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAA-TTTTTAATTTTTAAAAAATT
*
4088948 CATTTTGTACCTG
127 CATTTCGTACCTG
* * *
4088961 AATGAAGAACTGAAAAGGTACAAAAAGTTTTAAAATTTTCTATAACCCTATA-AAAAACCATAGA
1 AATGGAGAACTGAAAAGATACAAAAAGTTTTAAAATTTT-TATAA-CCT-TACAGAAACC-TAGA
** *
4089025 -AATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAA--TTT--TTTCCAAAAATTT
62 GAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTTAAAAAATT
*
4089085 CATTTCGTACCTT
127 CATTTCGTACCTG
* * *
4089098 AATGGA-AACCCGAAAACATACGAAAAGTTTT
1 AATGGAGAA-CTGAAAAGATACAAAAAGTTTT
4089129 TGGAGACTTT
Statistics
Matches: 253, Mismatches: 46, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
136 2 0.01
137 44 0.17
139 6 0.02
140 74 0.29
141 22 0.09
142 101 0.40
143 2 0.01
144 2 0.01
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (139 bp):
AATGGAGAACTGAAAAGATACAAAAAGTTTTAAAATTTTTATAACCTTACAGAAACCTAGAGAAT
ATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTTAAAAAATTCATT
TCGTACCTG
Found at i:4089010 original size:142 final size:140
Alignment explanation
Indices: 4088742--4089128 Score: 441
Period size: 142 Copynumber: 2.8 Consensus size: 140
4088732 ATACCTAGAG
* * *
4088742 GAATATTAGAAAT-TTCAAAAAATTCAGATAATAATTTTTATTTAA-TTTTTAGTTTTTAAAAAT
1 GAATATTAGAAATCTT-GAAAAATTAAGATAATAATTTTTATTTAATTTTTTAATTTTTAAAAAT
* * *
4088805 TCATTTCGTATCTGAATGGAAAACCAAAAAGATATAAAAAGTTTTAAAGATTTTTATACCCCTAC
65 TCATTTCGTACCTGAATGGAAAACCAAAAAGATACAAAAAGTTTTAAAGATTTTTATAACCCTAC
**
4088870 GGAAAACCATA
130 AAAAAACCATA
** *
4088881 TGAATATTAGAAATCTTGAAAAATTAAGATTTTTATTTTTATTTAATTTTTTAATTTTTAAAAAA
1 -GAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTTAATTTTT-AAAAA
* ** *
4088946 TTCATTTTGTACCTGAAT-GAAGAACTGAAAAGGTACAAAAAGTTTTAAA-ATTTTCTATAACCC
64 TTCATTTCGTACCTGAATGGAA-AACCAAAAAGATACAAAAAGTTTTAAAGATTTT-TATAACCC
*
4089009 TATAAAAAACCATA
127 TACAAAAAACCATA
* *
4089023 GAAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTTCCA-----AAAAT
1 G-AATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTT-AATTTTTAAAAA
* * * * *
4089083 TTCATTTCGTACCTTAATGGAAACCCGAAAACATACGAAAAGTTTT
64 TTCATTTCGTACCTGAATGGAAAACCAAAAAGATACAAAAAGTTTT
4089129 TGGAGACTTT
Statistics
Matches: 211, Mismatches: 28, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
137 39 0.18
138 3 0.01
140 37 0.18
141 22 0.10
142 109 0.52
143 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (140 bp):
GAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTTAATTTTTAAAAATT
CATTTCGTACCTGAATGGAAAACCAAAAAGATACAAAAAGTTTTAAAGATTTTTATAACCCTACA
AAAAACCATA
Found at i:4091193 original size:13 final size:13
Alignment explanation
Indices: 4091175--4091200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4091165 TACACCAAGT
4091175 ATGTATCGATACA
1 ATGTATCGATACA
4091188 ATGTATCGATACA
1 ATGTATCGATACA
4091201 CCAAAAAATT
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:4097366 original size:20 final size:20
Alignment explanation
Indices: 4097290--4097368 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 20
4097280 ATTTTCTAAA
*
4097290 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATCTTTCT
* *
4097310 GTGTATCGATACATCTGGAAAATTCA
1 ATGTATCGATACATCT------TTCT
*
4097336 ATGTATGGATACATCTTTCT
1 ATGTATCGATACATCTTTCT
*
4097356 TTGTATCGATACA
1 ATGTATCGATACA
4097369 GGGGGATTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
20 28 0.62
26 17 0.38
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATCTTTCT
Found at i:4099905 original size:13 final size:13
Alignment explanation
Indices: 4099887--4099912 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4099877 TACACCAAGT
4099887 ATGTATCGATACA
1 ATGTATCGATACA
4099900 ATGTATCGATACA
1 ATGTATCGATACA
4099913 CCAAAAAATT
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:4099931 original size:34 final size:32
Alignment explanation
Indices: 4099869--4099933 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
4099859 TAGCCAAACT
**
4099869 TGTATCGATACACCAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAATGTATCGATACAA
4099901 TGTATCGATACACCAAAAAATTGTATCGATACA
1 TGTATCGATACACC-AAAAA-TGTATCGATACA
4099934 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 14 0.48
33 3 0.10
34 12 0.41
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACCAAAAATGTATCGATACAA
Found at i:4099985 original size:51 final size:51
Alignment explanation
Indices: 4099918--4100036 Score: 231
Period size: 51 Copynumber: 2.4 Consensus size: 51
4099908 ATACACCAAA
4099918 AAAT-TGTATCGATACATTGGCTTGTAACGGCTAGTAACGGCTATATTTTC
1 AAATATGTATCGATACATTGGCTTGTAACGGCTAGTAACGGCTATATTTTC
4099968 AAATATGTATCGATACATTGGCTTGTAACGGCTAGTAACGGCTATATTTTC
1 AAATATGTATCGATACATTGGCTTGTAACGGCTAGTAACGGCTATATTTTC
4100019 AAATATGTATCGATACAT
1 AAATATGTATCGATACAT
4100037 CAAAAATTGT
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
50 4 0.06
51 64 0.94
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (51 bp):
AAATATGTATCGATACATTGGCTTGTAACGGCTAGTAACGGCTATATTTTC
Found at i:4102027 original size:14 final size:14
Alignment explanation
Indices: 4102008--4102038 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4101998 TTTTTCACTA
4102008 TTCTTTCTTATTTT
1 TTCTTTCTTATTTT
*
4102022 TTCTTTCTTTTTTT
1 TTCTTTCTTATTTT
4102036 TTC
1 TTC
4102039 CTCTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (14 bp):
TTCTTTCTTATTTT
Found at i:4102036 original size:13 final size:13
Alignment explanation
Indices: 4102008--4102049 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
4101998 TTTTTCACTA
4102008 TTCTTTCTTATTTT
1 TTCTTTCTT-TTTT
4102022 TTCTTTCTTTTTT
1 TTCTTTCTTTTTT
*
4102035 TT-TCCTCTTTTTT
1 TTCT-TTCTTTTTT
4102048 TT
1 TT
4102050 GCTGAGTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 1 0.04
13 16 0.62
14 9 0.35
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (13 bp):
TTCTTTCTTTTTT
Found at i:4105412 original size:155 final size:157
Alignment explanation
Indices: 4105143--4105734 Score: 649
Period size: 155 Copynumber: 3.7 Consensus size: 157
4105133 AAACTCATGC
* * * * *
4105143 AAATAAATGAATTTTTTAAAAATGATTTAGTATGAATTAAATAATAATATTTAATGAA-TTTAAA
1 AAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAA
* * * * * * * *
4105207 AATCAAAAACCAAGAAAAATC-CCCTCCAAAACATTTACAAAGTAAAAAACTTTGTATTTTGGAA
66 AATTAAAAACTAAGAAAAATCTCCCTCAAAAATATTTACAGAGTAAAAAACTCTATATTTTGAAA
* * * *
4105271 ACAGTAGAATTTCAAGAAAAAAATAAA
131 ATAGGAGAGTTTCAAGAAAAAAATAGA
* * *
4105298 AAATGAGTGAATTTTT-AAAACTAATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAA
1 AAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAA
* * * *
4105362 AATTTAAAACTAAGAAAAATCTCGC-CAAAAATATTTACGGAGTAGAAAACTCTATATTTTGAAA
66 AATTAAAAACTAAGAAAAATCTCCCTCAAAAATATTTACAGAGTAAAAAACTCTATATTTTGAAA
*
4105426 ATAGGAGAGCTTCAAAGAAAAAAAT-GA
131 ATAGGAGAGTTTC-AAGAAAAAAATAGA
*
4105453 AAATGAATGAATTTTTGAACAA-TGATTTAATATGATTTAAATAATAATATTTGATGAATTTTAA
1 AAATGAATGAATTTTTGAA-AACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
* * * * * ** * *
4105517 AAATTAAGAATTAAGAAAAATCCCCCCCAAAAATATTTACATAGTAGTAAACTCTATAATTCGAA
65 AAATTAAAAACTAAGAAAAATCTCCCTCAAAAATATTTACAGAGTAAAAAACTCTATATTTTGAA
*
4105582 AATAGGAGAGTTTTAAGGAACAATTTAAAACCTATGA
130 AATAGGAGAGTTTCAA-G-A-AA---AAAA--TA-GA
* * * * *
4105619 AAATAAATGAATTTTTGAAAACTGATTTAATATAAATTAAATAATAAAATTGGACGAATTTTAAA
1 AAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAA
* *
4105684 AATTAAAAACTAAGAAAAAT-TCCTTCGAAAATATTTACAGAGTAAAAAACT
66 AATTAAAAACTAAGAAAAATCTCCCTCAAAAATATTTACAGAGTAAAAAACT
4105735 ATATTTCAAA
Statistics
Matches: 366, Mismatches: 54, Indels: 24
0.82 0.12 0.05
Matches are distributed among these distances:
154 37 0.10
155 94 0.26
156 77 0.21
157 48 0.13
158 1 0.00
159 2 0.01
162 4 0.01
164 1 0.00
165 26 0.07
166 76 0.21
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (157 bp):
AAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAA
AATTAAAAACTAAGAAAAATCTCCCTCAAAAATATTTACAGAGTAAAAAACTCTATATTTTGAAA
ATAGGAGAGTTTCAAGAAAAAAATAGA
Found at i:4107365 original size:20 final size:20
Alignment explanation
Indices: 4107342--4107415 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
4107332 ACAATTCAAA
4107342 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
4107362 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
4107383 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
4107403 GTATCGATACATG
1 GTATCGATACATG
4107416 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:4107386 original size:21 final size:21
Alignment explanation
Indices: 4107360--4107435 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
4107350 ACATGTTGCA
4107360 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
4107381 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
4107401 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
4107422 ATGTATCGATACAT
1 ATGTATCGATACAT
4107436 TTCTTGGTAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:4107393 original size:41 final size:41
Alignment explanation
Indices: 4107342--4107435 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
4107332 ACAATTCAAA
4107342 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
4107383 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
4107424 GTATCGATACAT
1 GTATCGATACAT
4107436 TTCTTGGTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:4107492 original size:13 final size:13
Alignment explanation
Indices: 4107474--4107499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4107464 TACAGCAAGT
4107474 ATGTATCGATACA
1 ATGTATCGATACA
4107487 ATGTATCGATACA
1 ATGTATCGATACA
4107500 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:4111579 original size:15 final size:15
Alignment explanation
Indices: 4111559--4111589 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4111549 TAAAAATGTC
*
4111559 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4111574 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4111589 C
1 C
4111590 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
Done.