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 33 of 38
Found at i:5035859 original size:31 final size:31
Alignment explanation
Indices: 5035818--5035895 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
5035808 ATACATTTAA
*
5035818 AGAATATATCGATACATTTAGGTCAAAACCC
1 AGAATGTATCGATACATTTAGGTCAAAACCC
* *
5035849 AGAATGTATCGATACATTTGGGTCAAAACCT
1 AGAATGTATCGATACATTTAGGTCAAAACCC
*
5035880 AGAATGTATAGATACA
1 AGAATGTATCGATACA
5035896 ATGAATAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (31 bp):
AGAATGTATCGATACATTTAGGTCAAAACCC
Found at i:5036091 original size:13 final size:13
Alignment explanation
Indices: 5036073--5036099 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5036063 TTTCCTATCG
5036073 TCCCTAGTTGAGA
1 TCCCTAGTTGAGA
5036086 TCCCTAGTTGAGA
1 TCCCTAGTTGAGA
5036099 T
1 T
5036100 AAAGTGTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (13 bp):
TCCCTAGTTGAGA
Found at i:5036249 original size:21 final size:20
Alignment explanation
Indices: 5036219--5036271 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
5036209 TTTTACAATT
* *
5036219 TGTATTGATATAAATAGTAAA
1 TGTATCGATACAAA-AGTAAA
*
5036240 TGTATCGATACATAAGTAAA
1 TGTATCGATACAAAAGTAAA
*
5036260 TGCATCGATACA
1 TGTATCGATACA
5036272 TGCCTGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAAAAGTAAA
Found at i:5036259 original size:20 final size:20
Alignment explanation
Indices: 5036234--5036272 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
5036224 TGATATAAAT
*
5036234 AGTAAATGTATCGATACATA
1 AGTAAATGCATCGATACATA
5036254 AGTAAATGCATCGATACAT
1 AGTAAATGCATCGATACAT
5036273 GCCTGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (20 bp):
AGTAAATGCATCGATACATA
Found at i:5037623 original size:35 final size:35
Alignment explanation
Indices: 5037576--5037702 Score: 112
Period size: 35 Copynumber: 3.4 Consensus size: 35
5037566 TCAACACCCC
*
5037576 TTGTCCTCAAGGAGTAGGACCCATTTCATTCTTCT
1 TTGTCCTCAAGGAGAAGGACCCATTTCATTCTTCT
* ** * *
5037611 TTGTCCTTAAGGAGCAAGACGCATTCCTTTTTTCCTTTTTCCT
1 TTGTCCTCAAGGAG-AAG--G-A--CC-CATTTCATTCTT-CT
5037654 TTGTCCTCAAGGAGCAA-GACCCATTTCATTCTTCT
1 TTGTCCTCAAGGAG-AAGGACCCATTTCATTCTTCT
5037689 TTGTCCTCAAGGAG
1 TTGTCCTCAAGGAG
5037703 CAAGACGCAT
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
35 29 0.40
36 10 0.14
37 2 0.03
38 1 0.01
39 2 0.03
40 1 0.01
41 2 0.03
42 8 0.11
43 18 0.25
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.38
Consensus pattern (35 bp):
TTGTCCTCAAGGAGAAGGACCCATTTCATTCTTCT
Found at i:5037670 original size:43 final size:43
Alignment explanation
Indices: 5037609--5037833 Score: 197
Period size: 43 Copynumber: 5.5 Consensus size: 43
5037599 TTTCATTCTT
*
5037609 CTTTGTCCTTAAGGAGCAAGACGCATTCCTTTTTTCCTTTTTC
1 CTTTGTCCTCAAGGAGCAAGACGCATTCCTTTTTTCCTTTTTC
* * *
5037652 CTTTGTCCTCAAGGAGCAAGA--C---CC--ATTTCATTCTT-
1 CTTTGTCCTCAAGGAGCAAGACGCATTCCTTTTTTCCTTTTTC
*
5037687 CTTTGTCCTCAAGGAGCAAGACGCATTCTTTTTTTCCTTTTTC
1 CTTTGTCCTCAAGGAGCAAGACGCATTCCTTTTTTCCTTTTTC
* * ** *
5037730 CTTTGTTCTCAAGGAGCAAGACCCA-T--TTCATCCCTTTTTCC
1 CTTTGTCCTCAAGGAGCAAGACGCATTCCTTTTTTCCTTTTT-C
** * * *
5037771 CTTTGTCCTTTAGGAGCAGGACGCACTTCATTTCTT--TTTTTC
1 CTTTGTCCTCAAGGAGCAAGACGCA-TTCCTTTTTTCCTTTTTC
*
5037813 CTTTGTCCTCAAAGAGCAAGA
1 CTTTGTCCTCAAGGAGCAAGA
5037834 TGCCCACTCA
Statistics
Matches: 144, Mismatches: 25, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
35 21 0.15
36 8 0.06
37 1 0.01
38 2 0.01
40 11 0.08
41 22 0.15
42 27 0.19
43 49 0.34
45 3 0.02
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.40
Consensus pattern (43 bp):
CTTTGTCCTCAAGGAGCAAGACGCATTCCTTTTTTCCTTTTTC
Found at i:5037705 original size:78 final size:78
Alignment explanation
Indices: 5037576--5037833 Score: 340
Period size: 78 Copynumber: 3.2 Consensus size: 78
5037566 TCAACACCCC
* * *
5037576 TTGTCCTCAAGGAGTAGGACCCATTTCATTCTTCTTTGTCCTTAAGGAGCAAGACGCATTCCTTT
1 TTGTCCTCAAGGAGCAAGACCCATTTCATTCTTCTTTGTCCTTAAGGAGCAAGACGCATTCATTT
5037641 TTTCCTTTTTCCT
66 TTTCCTTTTTCCT
* *
5037654 TTGTCCTCAAGGAGCAAGACCCATTTCATTCTTCTTTGTCCTCAAGGAGCAAGACGCATTCTTTT
1 TTGTCCTCAAGGAGCAAGACCCATTTCATTCTTCTTTGTCCTTAAGGAGCAAGACGCATTCATTT
5037719 TTTCCTTTTTCCT
66 TTTCCTTTTTCCT
* * * *
5037732 TTGTTCTCAAGGAGCAAGACCCATTTCATCCCTTTTTCCCTTTGTCCTTTAGGAGCAGGACGCAC
1 TTGTCCTCAAGGAGCAAGACCCATTTCA----TTCTT--CTTTGTCCTTAAGGAGCAAGACGCA-
*
5037797 TTCATTTCTT--TTTTTCCT
59 TTCATTTTTTCCTTTTTCCT
*
5037815 TTGTCCTCAAAGAGCAAGA
1 TTGTCCTCAAGGAGCAAGA
5037834 TGCCCACTCA
Statistics
Matches: 160, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
78 101 0.63
82 4 0.03
83 25 0.16
84 22 0.14
85 8 0.05
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.39
Consensus pattern (78 bp):
TTGTCCTCAAGGAGCAAGACCCATTTCATTCTTCTTTGTCCTTAAGGAGCAAGACGCATTCATTT
TTTCCTTTTTCCT
Found at i:5038243 original size:31 final size:31
Alignment explanation
Indices: 5038208--5038399 Score: 143
Period size: 31 Copynumber: 6.2 Consensus size: 31
5038198 ACGAGTTGGT
*
5038208 GGCACCCTAGTCAAAGCCCACACAAGCTGGC
1 GGCACCCGAGTCAAAGCCCACACAAGCTGGC
* * * * * *
5038239 GGCACCCGAGTCTAAGCCTATACGAGTTGGT
1 GGCACCCGAGTCAAAGCCCACACAAGCTGGC
* * *
5038270 GGCACCCTAGTCAAAGCTCACGCAAGCTGGC
1 GGCACCCGAGTCAAAGCCCACACAAGCTGGC
* * * * * *
5038301 AGCATCCGAGTCTAAGCCCACACGAA-TTAGT
1 GGCACCCGAGTCAAAGCCCACAC-AAGCTGGC
* * *
5038332 GGCACCCTAGTCAAAACTCACACAAGCTGGC
1 GGCACCCGAGTCAAAGCCCACACAAGCTGGC
** * * * *
5038363 AACATCCGATTCAAAGCCCACACAAGCTAGT
1 GGCACCCGAGTCAAAGCCCACACAAGCTGGC
5038394 GGCACC
1 GGCACC
5038400 TAAGTCCAAG
Statistics
Matches: 113, Mismatches: 46, Indels: 4
0.69 0.28 0.02
Matches are distributed among these distances:
30 2 0.02
31 109 0.96
32 2 0.02
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (31 bp):
GGCACCCGAGTCAAAGCCCACACAAGCTGGC
Found at i:5038274 original size:62 final size:62
Alignment explanation
Indices: 5038196--5038399 Score: 264
Period size: 62 Copynumber: 3.3 Consensus size: 62
5038186 GTCAAAGACT
* * *
5038196 ACACGAGTTGGTGGCACCCTAGTCAAAGCCCACACAAGCTGGCGGCACCCGAGTCTAAGCCT
1 ACACGAGTTGGTGGCACCCTAGTCAAAGCTCACACAAGCTGGCAGCACCCGAGTCTAAGCCC
* * *
5038258 ATACGAGTTGGTGGCACCCTAGTCAAAGCTCACGCAAGCTGGCAGCATCCGAGTCTAAGCCC
1 ACACGAGTTGGTGGCACCCTAGTCAAAGCTCACACAAGCTGGCAGCACCCGAGTCTAAGCCC
* * * * * * *
5038320 ACACGAATTAGTGGCACCCTAGTCAAAACTCACACAAGCTGGCAACATCCGATTCAAAGCCC
1 ACACGAGTTGGTGGCACCCTAGTCAAAGCTCACACAAGCTGGCAGCACCCGAGTCTAAGCCC
* * *
5038382 ACACAAGCTAGTGGCACC
1 ACACGAGTTGGTGGCACC
5038400 TAAGTCCAAG
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 125 1.00
ACGTcount: A:0.29, C:0.32, G:0.23, T:0.16
Consensus pattern (62 bp):
ACACGAGTTGGTGGCACCCTAGTCAAAGCTCACACAAGCTGGCAGCACCCGAGTCTAAGCCC
Found at i:5042424 original size:52 final size:50
Alignment explanation
Indices: 5042372--5042466 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
5042362 ATTGGGTCAA
* ** * *
5042372 AAACCTAGAATATATTGATATAATGAAAAATGTATCGATACATTTGGATC
1 AAACCCAGAATATATCAATACAATAAAAAATGTATCGATACATTTGGATC
* *
5042422 AAACCCAGAATGTATCAATACAATAAAAAATTTATCGATACATTT
1 AAACCCAGAATATATCAATACAATAAAAAATGTATCGATACATTT
5042467 TCATTCCAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.31
Consensus pattern (50 bp):
AAACCCAGAATATATCAATACAATAAAAAATGTATCGATACATTTGGATC
Found at i:5043808 original size:20 final size:21
Alignment explanation
Indices: 5043783--5043825 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
5043773 TATACATGAC
5043783 AAAATCCAA-ATCATATC-ACA
1 AAAAT-CAACATCATATCAACA
5043803 AAAATCAACATCATATCAACA
1 AAAATCAACATCATATCAACA
5043824 AA
1 AA
5043826 CAACATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 3 0.14
20 13 0.62
21 5 0.24
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAATCAACATCATATCAACA
Found at i:5047316 original size:17 final size:17
Alignment explanation
Indices: 5047296--5047331 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5047286 AAGGAAGATG
* *
5047296 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
5047313 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
5047330 AA
1 AA
5047332 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:5047890 original size:22 final size:24
Alignment explanation
Indices: 5047864--5047913 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
5047854 AGAAAAGTTC
* *
5047864 AAAATTTATGTTT-TTT-TTTTAA
1 AAAATTGATCTTTATTTGTTTTAA
5047886 AAAA-TGATCTTTATTTGTTTTAA
1 AAAATTGATCTTTATTTGTTTTAA
5047909 AAAAT
1 AAAAT
5047914 AAAAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.26
22 7 0.30
23 10 0.43
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (24 bp):
AAAATTGATCTTTATTTGTTTTAA
Found at i:5053827 original size:36 final size:35
Alignment explanation
Indices: 5053747--5053827 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
5053737 CAAAATGACA
* *
5053747 AAAAAAAAAAGTCAAAAGCAAAAGCACAAAAAATG
1 AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
* *
5053782 AAAAGAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGGG
1 AAAACAAAAAGT-CAAAAGCAAAAGCACAAAAAA-GG
5053817 AACAACAAAAA
1 AA-AACAAAAA
5053828 TAAAAAAACG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
34 6 0.15
35 15 0.38
36 18 0.46
ACGTcount: A:0.72, C:0.10, G:0.14, T:0.05
Consensus pattern (35 bp):
AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
Found at i:5055201 original size:27 final size:27
Alignment explanation
Indices: 5055158--5055923 Score: 1111
Period size: 27 Copynumber: 27.9 Consensus size: 27
5055148 GTGGCATTTT
* *
5055158 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
5055186 CTTTTAAGTCCACAACTCTGTGGTACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5055213 CTTTTAAAGTCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
5055241 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5055268 CTTTTAAAATCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
5055296 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5055323 CTTTTAAGTCCACAACTCCGTGGCCCC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5055350 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5055377 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** *
5055404 CTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
5055432 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5055459 CTTTTAAGTCCACAACTCTGTGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
5055487 CTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGT-CCACAACTCCGTGGCACC
*
5055514 CTTTTAAATCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5055541 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5055568 CTTTTAAGTCCATAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
5055596 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5055623 CTTTTAAGACCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5055650 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
5055677 CTTTTAAGTCCATAACTCTGTGGCATCTT
1 CTTTTAAGTCCACAACTCCGTGGCA-C-C
* *
5055706 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5055733 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
5055761 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5055788 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
5055816 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
5055844 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5055871 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
5055899 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
5055924 ACCCATTCCA
Statistics
Matches: 673, Mismatches: 53, Indels: 24
0.90 0.07 0.03
Matches are distributed among these distances:
27 417 0.62
28 233 0.35
29 23 0.03
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:5055220 original size:55 final size:54
Alignment explanation
Indices: 5055158--5055923 Score: 1111
Period size: 55 Copynumber: 14.0 Consensus size: 54
5055148 GTGGCATTTT
* * * *
5055158 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
5055213 CTTTTAAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
5055268 CTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
5055323 CTTTTAAGTCCACAACTCCGTGGCCCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
** *
5055377 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
5055432 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
5055487 CTTTTAA-TACCACAACTCCGTGGCACCCTTTTAAATCCACAACTCCGTGGCACC
1 CTTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
5055541 CTTTTAAGTCCACAACTCCGTGGCACTCTTTTAAGTCCATAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* *
5055596 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
5055650 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCATCTT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-C-C
* *
5055706 TTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* *
5055761 CTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
5055816 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
5055871 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA
5055924 ACCCATTCCA
Statistics
Matches: 656, Mismatches: 46, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
54 211 0.32
55 369 0.56
56 58 0.09
57 18 0.03
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:5055258 original size:82 final size:81
Alignment explanation
Indices: 5055158--5055923 Score: 1111
Period size: 82 Copynumber: 9.3 Consensus size: 81
5055148 GTGGCATTTT
* * * *
5055158 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGTACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
5055223 CCACAACTCCGTGGTACC
64 CCACAACTCCGTGGCACC
* * * *
5055241 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
5055306 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
*
5055323 CTTTTAAGTCCACAACTCCGTGGCCCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
5055388 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
** *
5055404 CTTTTAAGTCCACAACTCTATGGCATTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
5055469 CACAACTCTGTGGCATTC
65 CACAACTCCGTGGCA-CC
*
5055487 CTTTTAA-TACCACAACTCCGTGGCACCCTTTTAAATCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
5055551 CACAACTCCGTGGCACT
65 CACAACTCCGTGGCACC
* * *
5055568 CTTTTAAGTCCATAACTCCATGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
5055633 CACAACTCCGTAGCACC
65 CACAACTCCGTGGCACC
* * **
5055650 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCATCTTTTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-C-CCTTTTAAGT
*
5055715 CCACAACTCTGTGGCACC
64 CCACAACTCCGTGGCACC
* *
5055733 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
5055798 CACAACTCCGTGGCATCC
65 CACAACTCCGTGGCA-CC
5055816 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
5055881 CACAACTCCGTGGCATCC
65 CACAACTCCGTGGCA-CC
* * * *
5055899 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
5055924 ACCCATTCCA
Statistics
Matches: 621, Mismatches: 51, Indels: 22
0.89 0.07 0.03
Matches are distributed among these distances:
81 113 0.18
82 299 0.48
83 164 0.26
84 45 0.07
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:5055951 original size:32 final size:32
Alignment explanation
Indices: 5055909--5056448 Score: 841
Period size: 32 Copynumber: 16.8 Consensus size: 32
5055899 CTTTTAAATT
* *
5055909 CACAAATCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
5055941 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
5055973 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
5056005 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
5056037 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
**
5056069 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTT-CAAAGCCCA
5056102 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
5056134 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
5056166 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
5056198 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
5056230 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
5056262 CACAAGTCGGTGGCAACCCA-TTCTAAAGCCAA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
* *
5056294 CACAAGTAGGTGGCAACCCATTTCAAGGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
5056326 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * * *
5056358 CAGAAGTTGGTGGCAACCTATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
5056390 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* ** *
5056422 CGCAAGTAAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
5056449 TCACCATTTT
Statistics
Matches: 473, Mismatches: 30, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
31 6 0.01
32 431 0.91
33 36 0.08
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:5057708 original size:17 final size:17
Alignment explanation
Indices: 5057688--5057723 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5057678 AAGGAAGATG
* *
5057688 AAGAAGAAAGAAAGAAA
1 AAGAAAAAAAAAAGAAA
5057705 AAGAAAAAAAAAAGAAA
1 AAGAAAAAAAAAAGAAA
5057722 AA
1 AA
5057724 ATATGAAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAGAAA
Found at i:5062071 original size:58 final size:58
Alignment explanation
Indices: 5062009--5062221 Score: 204
Period size: 57 Copynumber: 3.7 Consensus size: 58
5061999 TGAATGGTGC
* * * * *
5062009 TAAAATGCGTGGAATTACATAAAAGTCTTTAAAACATGACAAATTATTTAAATAACCA
1 TAAAATGCATGAAATTGCATAAAAGTCTTTAAAACATGACAAATTATTAAAATAACCT
* * * *
5062067 TAAAATGTATGAAATTGCAT-AAATTACCTTAAAA-ATGA-ACAATTACTAAAATAACCT
1 TAAAATGCATGAAATTGCATAAAAGT-CTTTAAAACATGACA-AATTATTAAAATAACCT
* * * * *
5062124 TAAAATCCATAAAATTTCATAAATAGTC-CTAAATCATGACAAATTATTAAAATAACCT
1 TAAAATGCATGAAATTGCATAAA-AGTCTTTAAAACATGACAAATTATTAAAATAACCT
* *
5062182 TAAATTGCATG-AATTGCATAAATG-CTCTTAAAACATGACA
1 TAAAATGCATGAAATTGCATAAAAGTCT-TTAAAACATGACA
5062222 TTAAAATGCA
Statistics
Matches: 123, Mismatches: 24, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
55 1 0.01
56 2 0.02
57 63 0.51
58 54 0.44
59 3 0.02
ACGTcount: A:0.48, C:0.14, G:0.08, T:0.30
Consensus pattern (58 bp):
TAAAATGCATGAAATTGCATAAAAGTCTTTAAAACATGACAAATTATTAAAATAACCT
Found at i:5062185 original size:29 final size:28
Alignment explanation
Indices: 5062107--5062186 Score: 67
Period size: 29 Copynumber: 2.8 Consensus size: 28
5062097 AAAAATGAAC
*
5062107 AATTACTAAAATAACCTTAAAATCCATAA
1 AATTATTAAAATAACCTT-AAATCCATAA
* *
5062136 AATT-TCATAAATAGTCC-TAAAT-CATGACA
1 AATTATTA-AAATA-ACCTTAAATCCAT-A-A
5062165 AATTATTAAAATAACCTTAAAT
1 AATTATTAAAATAACCTTAAAT
5062187 TGCATGAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
27 3 0.08
28 8 0.20
29 25 0.62
30 4 0.10
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (28 bp):
AATTATTAAAATAACCTTAAATCCATAA
Found at i:5062307 original size:47 final size:47
Alignment explanation
Indices: 5062223--5062313 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 47
5062213 AACATGACAT
* * *
5062223 TAAAATGCATGAAATGACATAAAAGTTCTTAAGTCATAGAAAATTAC
1 TAAAATGCATGAAAAGACAAAAAAGTTCTTAAGTCATAAAAAATTAC
5062270 TAAAATGCATGAAAAGACAAAAAAGTT-TCT-AGATCATAAAAAAT
1 TAAAATGCATGAAAAGACAAAAAAGTTCT-TAAG-TCATAAAAAAT
5062314 AACTTTGGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
46 3 0.08
47 36 0.92
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.25
Consensus pattern (47 bp):
TAAAATGCATGAAAAGACAAAAAAGTTCTTAAGTCATAAAAAATTAC
Found at i:5064862 original size:21 final size:21
Alignment explanation
Indices: 5064836--5064892 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
5064826 GAACACGATA
*
5064836 TTGTATCGATACAATATG-GC
1 TTGTATCGATACAATATGATC
*
5064856 TTTGTATCAATACAATATGATC
1 -TTGTATCGATACAATATGATC
*
5064878 TTGAATCGATACAAT
1 TTGTATCGATACAAT
5064893 GCATATTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (21 bp):
TTGTATCGATACAATATGATC
Found at i:5065161 original size:22 final size:22
Alignment explanation
Indices: 5065133--5065179 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
5065123 TCAAAAATTA
5065133 ATCAAGAAAGAGTGATGTGTGT
1 ATCAAGAAAGAGTGATGTGTGT
5065155 ATCAAGAAAGAGTGATGTGTGT
1 ATCAAGAAAGAGTGATGTGTGT
5065177 ATC
1 ATC
5065180 TAATATGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (22 bp):
ATCAAGAAAGAGTGATGTGTGT
Found at i:5067387 original size:2 final size:2
Alignment explanation
Indices: 5067380--5067420 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
5067370 TCATCAAACG
*
5067380 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
5067421 TCCTTTCGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:5071887 original size:18 final size:18
Alignment explanation
Indices: 5071864--5071899 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5071854 ACATTATTTT
*
5071864 AAAGCCAAGTCTTAGATA
1 AAAGCCAAGTCATAGATA
5071882 AAAGCCAAGTCATAGATA
1 AAAGCCAAGTCATAGATA
5071900 TAGTTAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (18 bp):
AAAGCCAAGTCATAGATA
Found at i:5074012 original size:2 final size:2
Alignment explanation
Indices: 5074007--5074040 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5073997 ATATATATAT
*
5074007 AG AG AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5074041 CTGCATGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5074802 original size:2 final size:2
Alignment explanation
Indices: 5074795--5074828 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5074785 AGCACAAGAC
5074795 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
5074829 AGCAAAGGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:5076854 original size:17 final size:17
Alignment explanation
Indices: 5076816--5076871 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
5076806 AAAGTGTTTG
*
5076816 AAAAA-ATAAAATATAAA
1 AAAAATATAAAA-ATAAT
*
5076833 AAAAATAGTTAAAATAAT
1 AAAAATA-TAAAAATAAT
5076851 AAAAATATAAAAATAAT
1 AAAAATATAAAAATAAT
5076868 AAAA
1 AAAA
5076872 TTATTTAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 18 0.53
18 12 0.35
19 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAAATATAAAAATAAT
Found at i:5076855 original size:9 final size:9
Alignment explanation
Indices: 5076816--5076871 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
5076806 AAAGTGTTTG
5076816 AAAA-AATA
1 AAAATAATA
*
5076824 AAATATAAAA
1 AAA-ATAATA
* *
5076834 AAAATAGTT
1 AAAATAATA
5076843 AAAATAATA
1 AAAATAATA
5076852 AAAAT-ATA
1 AAAATAATA
5076860 AAAATAATA
1 AAAATAATA
5076869 AAA
1 AAA
5076872 TTATTTAGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
8 11 0.28
9 22 0.56
10 6 0.15
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (9 bp):
AAAATAATA
Found at i:5080049 original size:32 final size:32
Alignment explanation
Indices: 5080012--5080125 Score: 113
Period size: 32 Copynumber: 3.6 Consensus size: 32
5080002 TGAAATTTTT
*
5080012 GGGTTATTTCGGATTCAAATCGTTTTGGGTTC
1 GGGTTATTTCGGATTCAAATCATTTTGGGTTC
* * * *
5080044 GGGTTACTTCGGGTTCGAATCATTTTGGATTC
1 GGGTTATTTCGGATTCAAATCATTTTGGGTTC
* * * * *
5080076 GAGTTATTTC-GAGTTTAGATCATTTCGGGTTT
1 GGGTTATTTCGGA-TTCAAATCATTTTGGGTTC
*
5080108 GGGTCATTTCGGATTCAA
1 GGGTTATTTCGGATTCAA
5080126 GTCAATCTGA
Statistics
Matches: 62, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
31 1 0.02
32 59 0.95
33 2 0.03
ACGTcount: A:0.18, C:0.13, G:0.27, T:0.42
Consensus pattern (32 bp):
GGGTTATTTCGGATTCAAATCATTTTGGGTTC
Found at i:5080119 original size:16 final size:16
Alignment explanation
Indices: 5080081--5080119 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5080071 GATTCGAGTT
*
5080081 ATTTCGAGTTTAGATC
1 ATTTCGGGTTTAGATC
* *
5080097 ATTTCGGGTTTGGGTC
1 ATTTCGGGTTTAGATC
5080113 ATTTCGG
1 ATTTCGG
5080120 ATTCAAGTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.28, T:0.44
Consensus pattern (16 bp):
ATTTCGGGTTTAGATC
Found at i:5082259 original size:77 final size:77
Alignment explanation
Indices: 5082009--5082291 Score: 243
Period size: 76 Copynumber: 3.7 Consensus size: 77
5081999 ATTATGTATG
* ** * *
5082009 TGACCTTAA-GGATATGTATTGACATTAAAAATACAAATTTGACCTTAGAGACTCAATTTTAATA
1 TGACCTTAATGGACATGTATTGACA-TAAAAATACAAACATGACCTTAGAGACT-AAGTTTAATG
*
5082073 TAACCATTGCCTAAA
64 T-ACTATTGCCTAAA
** ** * * **
5082088 TGATTTTAATGGACATGTATTGACATAAAAATACCCACATAACCTTAGAAACTTGGTTTTAATGT
1 TGACCTTAATGGACATGTATTGACATAAAAATACAAACATGACCTTAGAGACTAAG-TTTAATGT
5082153 --TATTGCCTAAA
65 ACTATTGCCTAAA
** * * * *
5082164 TGA-CTCTAATAAACATGTATCGACATAAAAATGCTAACATGACCCTAGAGACTAAGTTTAATGT
1 TGACCT-TAATGGACATGTATTGACATAAAAATACAAACATGACCTTAGAGACTAAGTTTAATGT
*
5082228 ACTATTACCTAAA
65 ACTATTGCCTAAA
* * * * *
5082241 TGACCATAATGGATATGTATGGACATGAAAATA-AGCACATGACCTTAGAGA
1 TGACCTTAATGGACATGTATTGACATAAAAATACA-AACATGACCTTAGAGA
5082292 TTCGGCTTTA
Statistics
Matches: 160, Mismatches: 37, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
75 9 0.06
76 52 0.32
77 48 0.30
78 1 0.01
79 36 0.22
80 14 0.09
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (77 bp):
TGACCTTAATGGACATGTATTGACATAAAAATACAAACATGACCTTAGAGACTAAGTTTAATGTA
CTATTGCCTAAA
Found at i:5089927 original size:52 final size:52
Alignment explanation
Indices: 5089779--5089907 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
5089769 CGAAATATGA
*
5089779 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* *
5089831 AAATTTGCCTGTATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
5089883 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
5089908 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:5089934 original size:13 final size:13
Alignment explanation
Indices: 5089916--5089940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5089906 CAAAGATCAG
5089916 TGTATCGATACAA
1 TGTATCGATACAA
5089929 TGTATCGATACA
1 TGTATCGATACA
5089941 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:5092368 original size:14 final size:14
Alignment explanation
Indices: 5092349--5092376 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5092339 CAAGCTAACT
5092349 TAGTTTATGATAAA
1 TAGTTTATGATAAA
5092363 TAGTTTATGATAAA
1 TAGTTTATGATAAA
5092377 GAGTAGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
TAGTTTATGATAAA
Found at i:5094081 original size:20 final size:22
Alignment explanation
Indices: 5094056--5094105 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
5094046 AACCCTCATT
5094056 TGTATCGATATACAAGA-A-AA
1 TGTATCGATATACAAGACACAA
*
5094076 TGTATC-A-ATACAATACACAA
1 TGTATCGATATACAAGACACAA
5094096 TGTATCGATA
1 TGTATCGATA
5094106 CATCCTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.28
19 2 0.08
20 14 0.56
21 1 0.04
22 1 0.04
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (22 bp):
TGTATCGATATACAAGACACAA
Found at i:5094087 original size:93 final size:91
Alignment explanation
Indices: 5093889--5094109 Score: 241
Period size: 92 Copynumber: 2.4 Consensus size: 91
5093879 TTTAAGATTG
* * * * * * *
5093889 AATGTATCAATACATTCTATGAATATATCAATACATATAGTTGGCAGTAGCTAAGAAGTGCTGAA
1 AATGTATCAATACATTATATGAATGTATCGATACATCTAGTTGGCAGTAACTAAGAAATGCTCAA
* *
5093954 ACTCTCATTTTTATCGATATAAGTAAA
66 ACCCTCATTTGTATCGATATAAG-AAA
* * *
5093981 AATATATCGATACATTATGTGAATGTATCGATACATCTAGTTGGCAGTAACTAAAGAAAT-CTTC
1 AATGTATCAATACATTATATGAATGTATCGATACATCTAGTTGGCAGTAACT-AAGAAATGC-TC
5094045 AAACCCTCATTTGTATCGATATACA-AGAA
64 AAACCCTCATTTGTATCGATATA-AGA-AA
* * *
5094074 AATGTATCAATACAATACA-CAATGTATCGATACATC
1 AATGTATCAATACATTATATGAATGTATCGATACATC
5094110 CTCAAATATA
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
92 62 0.58
93 44 0.41
94 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (91 bp):
AATGTATCAATACATTATATGAATGTATCGATACATCTAGTTGGCAGTAACTAAGAAATGCTCAA
ACCCTCATTTGTATCGATATAAGAAA
Found at i:5098045 original size:13 final size:13
Alignment explanation
Indices: 5098027--5098052 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5098017 CAATTTTTTG
5098027 TGTATCGATACAT
1 TGTATCGATACAT
5098040 TGTATCGATACAT
1 TGTATCGATACAT
5098053 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5098801 original size:21 final size:21
Alignment explanation
Indices: 5098760--5098803 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5098750 CTCCCCTTTA
* *
5098760 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
5098781 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
5098802 TC
1 TC
5098804 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:5100607 original size:13 final size:13
Alignment explanation
Indices: 5100589--5100614 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5100579 ATAATCACCC
5100589 TGTATCGATACAA
1 TGTATCGATACAA
5100602 TGTATCGATACAA
1 TGTATCGATACAA
5100615 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:5102713 original size:15 final size:15
Alignment explanation
Indices: 5102693--5102723 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5102683 ATTTCGTTTG
*
5102693 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
5102708 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
5102723 G
1 G
5102724 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:5104573 original size:21 final size:21
Alignment explanation
Indices: 5104527--5104571 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
5104517 AAGTTTTCAT
5104527 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
5104547 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
5104569 TTT
1 TTT
5104572 CAACTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:5106803 original size:13 final size:13
Alignment explanation
Indices: 5106785--5106810 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5106775 CAATTTTTTG
5106785 TGTATCGATACAT
1 TGTATCGATACAT
5106798 TGTATCGATACAT
1 TGTATCGATACAT
5106811 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5110028 original size:42 final size:42
Alignment explanation
Indices: 5109981--5110071 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
5109971 CTTGTTACCT
*
5109981 TGGATCCAAATCCATCGCTAAAATTAGAAATATAATCATCGA
1 TGGATCCAAATCCATCACTAAAATTAGAAATATAATCATCGA
* * *
5110023 TGGATCCAAATCCATCATTAAAATTGGAAATATAGTCATCGA
1 TGGATCCAAATCCATCACTAAAATTAGAAATATAATCATCGA
5110065 TGGATCC
1 TGGATCC
5110072 TTGGTGTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (42 bp):
TGGATCCAAATCCATCACTAAAATTAGAAATATAATCATCGA
Found at i:5112497 original size:13 final size:13
Alignment explanation
Indices: 5112479--5112504 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5112469 TACAGCAAGT
5112479 ATGTATCGATACA
1 ATGTATCGATACA
5112492 ATGTATCGATACA
1 ATGTATCGATACA
5112505 CACAAAAATT
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:5116960 original size:52 final size:52
Alignment explanation
Indices: 5116890--5117010 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
5116880 GAAAATTTAT
*
5116890 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
5116942 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
5116994 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
5117011 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:5117023 original size:52 final size:51
Alignment explanation
Indices: 5116890--5117030 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
5116880 GAAAATTTAT
5116890 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
5116942 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
5116994 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
5117031 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:5117037 original size:13 final size:13
Alignment explanation
Indices: 5117019--5117043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5117009 CAAAGATCAG
5117019 TGTATCGATACAA
1 TGTATCGATACAA
5117032 TGTATCGATACA
1 TGTATCGATACA
5117044 TGTGAGTAAT
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:5117127 original size:13 final size:13
Alignment explanation
Indices: 5117109--5117133 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5117099 CAAAAAAATA
5117109 TGTATCGATACAT
1 TGTATCGATACAT
5117122 TGTATCGATACA
1 TGTATCGATACA
5117134 ACATTTTATG
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:5117129 original size:33 final size:33
Alignment explanation
Indices: 5117087--5117153 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5117077 AGTAGCTTAA
5117087 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
5117120 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
5117153 A
1 A
5117154 AATCGTTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:5118367 original size:21 final size:22
Alignment explanation
Indices: 5118321--5118365 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
5118311 TTGCAAGTTG
5118321 AAATAAAGAAGTTAGCTAATGA
1 AAATAAAGAAGTTAGCTAATGA
*
5118343 AAATAATG-AGTTAGCTAA-GA
1 AAATAAAGAAGTTAGCTAATGA
5118363 AAA
1 AAA
5118366 ATGAAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 7 0.32
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (22 bp):
AAATAAAGAAGTTAGCTAATGA
Found at i:5120188 original size:15 final size:15
Alignment explanation
Indices: 5120168--5120198 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5120158 TAAAAATGTC
*
5120168 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
5120183 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
5120198 C
1 C
5120199 CCAACGAAAT
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:5122301 original size:13 final size:13
Alignment explanation
Indices: 5122283--5122308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5122273 ACATTTTTCC
5122283 TTGTATCGATACA
1 TTGTATCGATACA
5122296 TTGTATCGATACA
1 TTGTATCGATACA
5122309 GGGTGATTAT
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):
TTGTATCGATACA
Found at i:5122472 original size:20 final size:20
Alignment explanation
Indices: 5122429--5122474 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
5122419 AAATCTTTTG
5122429 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
5122450 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
5122470 CAAAA
1 CAAAA
5122475 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:5124882 original size:13 final size:13
Alignment explanation
Indices: 5124864--5124889 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5124854 TACAGCAAGT
5124864 ATGTATCGATACA
1 ATGTATCGATACA
5124877 ATGTATCGATACA
1 ATGTATCGATACA
5124890 CAAAAAAATT
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:5128445 original size:16 final size:16
Alignment explanation
Indices: 5128426--5128460 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
5128416 TTTTAATCAT
5128426 TTTTAAGTTTAAATTA
1 TTTTAAGTTTAAATTA
*
5128442 TTTTAATTTTAAATTA
1 TTTTAAGTTTAAATTA
5128458 TTT
1 TTT
5128461 CGAATTTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTAAGTTTAAATTA
Found at i:5128468 original size:16 final size:16
Alignment explanation
Indices: 5128433--5128467 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
5128423 CATTTTTAAG
*
5128433 TTTAAATTATTTTAAT
1 TTTAAATTATTTGAAT
5128449 TTTAAATTATTTCGAAT
1 TTTAAATTATTT-GAAT
5128466 TT
1 TT
5128468 AGATTAATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTAAATTATTTGAAT
Found at i:5129558 original size:3 final size:3
Alignment explanation
Indices: 5129552--5129588 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
5129542 AAACTACTAC
5129552 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
5129589 TGTTAGCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:5129752 original size:16 final size:17
Alignment explanation
Indices: 5129725--5129756 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5129715 TCACAAGAGT
5129725 TAAAATTTTTAAACAAC
1 TAAAATTTTTAAACAAC
5129742 TAAAA-TTTTAAACAA
1 TAAAATTTTTAAACAA
5129757 ATATTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATTTTTAAACAAC
Found at i:5130017 original size:22 final size:22
Alignment explanation
Indices: 5129992--5130033 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
5129982 ATGTTTTATT
5129992 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATATA
5130014 TAAATATTAATATAAAAATA
1 TAAATATTAATATAAAAATA
5130034 ATTTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:5130383 original size:30 final size:29
Alignment explanation
Indices: 5130325--5130396 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 29
5130315 ATATGATTAT
5130325 ATTTATATAATATAAATAAAATAATTAAA
1 ATTTATATAATATAAATAAAATAATTAAA
* *
5130354 ATTTAATATAATATAAAT-ACATATTTTAAA
1 ATTT-ATATAATATAAATAAAATA-ATTAAA
*
5130384 ATTTTTATAATAT
1 ATTTATATAATAT
5130397 TAATTATTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 16 0.42
30 22 0.58
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTTATATAATATAAATAAAATAATTAAA
Found at i:5133012 original size:21 final size:21
Alignment explanation
Indices: 5132987--5133046 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 21
5132977 TATTAAAAAT
5132987 TTTTAAATATTAAATA-AATAA
1 TTTT-AATATTAAATATAATAA
*
5133008 TTTTATTATTAAATATAATAAA
1 TTTTAATATTAAATATAAT-AA
*
5133030 TATTTAATA-AAAATATA
1 T-TTTAATATTAAATATA
5133047 CTTTTAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 10 0.30
21 7 0.21
22 10 0.30
23 6 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTTAATATTAAATATAATAA
Found at i:5134003 original size:21 final size:22
Alignment explanation
Indices: 5133977--5134017 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5133967 TTAAAAAATT
5133977 TTCATAA-AA-ATCAAAATTAGA
1 TTCATAATAATAT-AAAATTAGA
5133998 TTCATAATAATATAAAATTA
1 TTCATAATAATATAAAATTA
5134018 AAAAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 9 0.50
23 2 0.11
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (22 bp):
TTCATAATAATATAAAATTAGA
Found at i:5138164 original size:21 final size:21
Alignment explanation
Indices: 5138140--5138183 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
5138130 AGGTTGTAAT
*
5138140 TGTTGTTGTAGCTGCTGCTGC
1 TGTTGCTGTAGCTGCTGCTGC
* *
5138161 TGTTGCTGTAGTTGTTGCTGC
1 TGTTGCTGTAGCTGCTGCTGC
5138182 TG
1 TG
5138184 CTGTGGCTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.16, G:0.34, T:0.45
Consensus pattern (21 bp):
TGTTGCTGTAGCTGCTGCTGC
Found at i:5138167 original size:12 final size:12
Alignment explanation
Indices: 5138152--5138193 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
5138142 TTGTTGTAGC
5138152 TGCTGCTGCTGT
1 TGCTGCTGCTGT
*
5138164 TGCTG-TAGTTGT
1 TGCTGCT-GCTGT
5138176 TGCTGCTGCTGT
1 TGCTGCTGCTGT
*
5138188 GGCTGC
1 TGCTGC
5138194 ATTTCAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.02, C:0.21, G:0.36, T:0.40
Consensus pattern (12 bp):
TGCTGCTGCTGT
Found at i:5141429 original size:36 final size:36
Alignment explanation
Indices: 5141389--5141468 Score: 133
Period size: 36 Copynumber: 2.2 Consensus size: 36
5141379 CCAAAATCTA
* *
5141389 TCACTGCCACATTCTGAGTCTCAAAACCAAGCTAAG
1 TCACTACCACAATCTGAGTCTCAAAACCAAGCTAAG
*
5141425 TCACTACCACAATCTGAGTCTCAAAACCAGGCTAAG
1 TCACTACCACAATCTGAGTCTCAAAACCAAGCTAAG
5141461 TCACTACC
1 TCACTACC
5141469 TTTGTCCCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.34, C:0.33, G:0.12, T:0.21
Consensus pattern (36 bp):
TCACTACCACAATCTGAGTCTCAAAACCAAGCTAAG
Found at i:5145324 original size:21 final size:21
Alignment explanation
Indices: 5145299--5145342 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
5145289 GTAATGGGAC
*
5145299 TGTTGCTGCTGCTGACTTTGT
1 TGTTGCTGCTGCTGACGTTGT
* *
5145320 TGTTGCTGTTGCTGTCGTTGT
1 TGTTGCTGCTGCTGACGTTGT
5145341 TG
1 TG
5145343 CTGGAGTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.16, G:0.32, T:0.50
Consensus pattern (21 bp):
TGTTGCTGCTGCTGACGTTGT
Found at i:5145326 original size:18 final size:18
Alignment explanation
Indices: 5145299--5145345 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
5145289 GTAATGGGAC
*
5145299 TGTTGCTGCTGCTGACT-T
1 TGTTGTTGCTGCTG-CTGT
*
5145317 TGTTGTTGCTGTTGCTGT
1 TGTTGTTGCTGCTGCTGT
*
5145335 CGTTGTTGCTG
1 TGTTGTTGCTG
5145346 GAGTTGGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.02, C:0.17, G:0.32, T:0.49
Consensus pattern (18 bp):
TGTTGTTGCTGCTGCTGT
Found at i:5146463 original size:18 final size:19
Alignment explanation
Indices: 5146440--5146476 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5146430 AATTATCATA
5146440 TTATTAT-TTTAATTATTT
1 TTATTATATTTAATTATTT
*
5146458 TTATTATATTTATTTATTT
1 TTATTATATTTAATTATTT
5146477 ATTTTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTATTATATTTAATTATTT
Found at i:5146755 original size:15 final size:16
Alignment explanation
Indices: 5146724--5146758 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5146714 TAAAAAATAT
*
5146724 TTTTAATAATTTTAAA
1 TTTTAATAATTTGAAA
5146740 TTTTAAT-ATTTGAAA
1 TTTTAATAATTTGAAA
5146755 TTTT
1 TTTT
5146759 TTCTTTGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTTAATAATTTGAAA
Found at i:5146759 original size:16 final size:17
Alignment explanation
Indices: 5146722--5146759 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
5146712 TTTAAAAAAT
*
5146722 ATTTTTAATAATTTTAA
1 ATTTTTAATAATTTGAA
5146739 A-TTTTAAT-ATTTGAA
1 ATTTTTAATAATTTGAA
5146754 ATTTTT
1 ATTTTT
5146760 TCTTTGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 11 0.58
17 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTTTTAATAATTTGAA
Found at i:5151858 original size:2 final size:2
Alignment explanation
Indices: 5151851--5151875 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5151841 TAAGATTTAA
5151851 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5151876 ACCTGCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5167811 original size:65 final size:66
Alignment explanation
Indices: 5167702--5167832 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 66
5167692 ATTCACTGCC
5167702 TTCCTCACTAAATGGCTATACAATCCTTCCCTCTAGATGAAATATTTCCTTAAAAAAATGTTCCC
1 TTCCTCACTAAATGGCTATACAATCCTTCCCTCTAGATGAAATATTTCCTTAAAAAAATGTTCCC
5167767 A
66 A
5167768 TTCC-CACTAAATGGCTATACAATCCTTCCCTCTAGATGAAATATTTCCTTAAAAAAATGTTCCC
1 TTCCTCACTAAATGGCTATACAATCCTTCCCTCTAGATGAAATATTTCCTTAAAAAAATGTTCCC
5167832 A
66 A
5167833 ATTCACAGAT
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
65 61 0.94
66 4 0.06
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.33
Consensus pattern (66 bp):
TTCCTCACTAAATGGCTATACAATCCTTCCCTCTAGATGAAATATTTCCTTAAAAAAATGTTCCC
A
Found at i:5169298 original size:13 final size:13
Alignment explanation
Indices: 5169280--5169305 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5169270 GCTTCCCACC
5169280 ATCACTTTGCCAT
1 ATCACTTTGCCAT
5169293 ATCACTTTGCCAT
1 ATCACTTTGCCAT
5169306 GAATGGCCTC
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:0.23, C:0.31, G:0.08, T:0.38
Consensus pattern (13 bp):
ATCACTTTGCCAT
Found at i:5169388 original size:9 final size:10
Alignment explanation
Indices: 5169374--5169424 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
5169364 AGGTTCAACT
5169374 AAAAAAAGA-
1 AAAAAAAGAG
5169383 AAAAAAAGAG
1 AAAAAAAGAG
5169393 AAAGAAAAGAG
1 AAA-AAAAGAG
* *
5169404 AGAAGAAATAG
1 A-AAAAAAGAG
*
5169415 AAACAAAGAG
1 AAAAAAAGAG
5169425 GTAAAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 9 0.26
10 10 0.29
11 14 0.40
12 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:5174188 original size:13 final size:13
Alignment explanation
Indices: 5174170--5174194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5174160 CAAAGATCAG
5174170 TGTATCGATACAA
1 TGTATCGATACAA
5174183 TGTATCGATACA
1 TGTATCGATACA
5174195 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:5174272 original size:33 final size:33
Alignment explanation
Indices: 5174235--5174301 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5174225 AGTAGCTTAA
5174235 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
5174268 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
5174301 A
1 A
5174302 AATCATTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:5174275 original size:13 final size:13
Alignment explanation
Indices: 5174257--5174281 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5174247 CAAAAAAATA
5174257 TGTATCGATACAT
1 TGTATCGATACAT
5174270 TGTATCGATACA
1 TGTATCGATACA
5174282 ACATTTTATG
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:5174380 original size:21 final size:21
Alignment explanation
Indices: 5174339--5174380 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5174329 GTTGGGACCT
*
5174339 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
5174360 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
5174381 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:5177563 original size:15 final size:15
Alignment explanation
Indices: 5177545--5177607 Score: 72
Period size: 15 Copynumber: 3.9 Consensus size: 15
5177535 TGCTCTCTTC
*
5177545 TTTTTTTTTGTGTATTT
1 TTTTTTTTTGTG--TTG
*
5177562 TTTTGTTTTTGGTTTTG
1 TTTT-TTTTT-GTGTTG
5177579 TTTTTTTTTGTGTTG
1 TTTTTTTTTGTGTTG
5177594 TTTTTTTTTGTGTT
1 TTTTTTTTTGTGTT
5177608 TGCACTTTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 19 0.46
16 5 0.12
17 10 0.24
18 5 0.12
19 2 0.05
ACGTcount: A:0.02, C:0.00, G:0.17, T:0.81
Consensus pattern (15 bp):
TTTTTTTTTGTGTTG
Found at i:5177564 original size:12 final size:12
Alignment explanation
Indices: 5177545--5177608 Score: 69
Period size: 12 Copynumber: 5.2 Consensus size: 12
5177535 TGCTCTCTTC
5177545 TTTTTTTTTGTG
1 TTTTTTTTTGTG
*
5177557 TATTTTTTTGT-
1 TTTTTTTTTGTG
*
5177568 TTTTGGTTTTGT-
1 TTTT-TTTTTGTG
5177580 TTTTTTTTGTGTTG
1 TTTTTTTT-TG-TG
5177594 TTTTTTTTTGTG
1 TTTTTTTTTGTG
5177606 TTT
1 TTT
5177609 GCACTTTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.14
12 27 0.61
13 3 0.07
14 8 0.18
ACGTcount: A:0.02, C:0.00, G:0.17, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTGTG
Found at i:5184720 original size:49 final size:49
Alignment explanation
Indices: 5184562--5185857 Score: 1427
Period size: 49 Copynumber: 25.8 Consensus size: 49
5184552 AAAAGGATGT
* * * * *
5184562 CAATGTGCTGATTCACGGTCAGCGACATTTAGACTTGAAA-ATGAGAAGAATGC
1 CAATATGCTGATTCAAGGCCAGCGACA-TTGGACTT-AAAGAT--GAAG-GTGC
* * * ** *
5184615 CACTGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAGGTGC
* * *
5184668 CAATATGCTAATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
5184717 CAATAAGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-T--GAAGGTGC
* *
5184769 CAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT---GC
* * * * *
5184821 CAATGTGCTGATTCCTAGGCCAGCGATATTGGACTTCAAGTTGAAGGTGC
1 CAATATGCTGATT-CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
5184871 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGGTGCCAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
*
5184923 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
5184972 TAATGTACTGATTCAAGGCCAGCGACGTTGGACTTAAGGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
5185021 AAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
*
5185073 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT---GC
* *
5185125 CAATATGCTGATTCAAGGCCAGCGATATTGGACGTAAAGATGAAGGTGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGT---GC
* * * *
5185177 CAATATGCTGATTCCAGGCCAGCGATATTGGACTTCAAGTTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
5185226 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGGTGCCAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
*
5185278 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
5185327 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAGGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* **
5185376 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCAC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * *
5185428 CAATATGTTGATTCAAGGCCAGTGAGATTGGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
5185477 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* ** *
5185526 CAATATGCCGATTCAAGGCCAATGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* *
5185578 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
5185627 CGATGTGCTGATTCAAGGCCAGGGACATTGGACTTAAGGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
5185676 CAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
*
5185728 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G-A--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * ** *
5185771 CAATGTGCTGATTCAAGGCCAACAACATTGGTCTTAAAGAAAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
5185820 CAATATGCTGATTTAAGGCCAACGATATTGGACTTAAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
5185858 AGAAGATGCC
Statistics
Matches: 1070, Mismatches: 136, Indels: 78
0.83 0.11 0.06
Matches are distributed among these distances:
43 32 0.03
44 2 0.00
45 2 0.00
47 1 0.00
49 499 0.47
50 17 0.02
51 3 0.00
52 425 0.40
53 85 0.08
54 4 0.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:5184791 original size:101 final size:99
Alignment explanation
Indices: 5184620--5185857 Score: 1374
Period size: 101 Copynumber: 12.3 Consensus size: 99
5184610 AATGCCACTG
* ** * * *
5184620 TGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCTAATTCAAG
1 TGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT--TGAAGGTGCCAATATGCTGATTCAAG
*
5184685 GCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATA
63 GCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATA
* * *
5184722 AGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTACAAAGGTGCCAATATACTGATTCAAGG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATT--GAAGGTGCCAATATGCTGATTCAAGG
*
5184787 CCAGCGATATTGGACTTAAAGATGAAGGTGGCGCCAATG
64 CCAGCGATATTGGACTTAAAGATGAAGGT---GCCAATA
* * * *
5184826 TGCTGATTCCTAGGCCAGCGATATTGGACTTCAAG-TTGAAGGTGCCAATGTGCTGATTCAAGGC
1 TGCTGATT-CAAGGCCAGCGACATTGGACTTAAAGATTGAAGGTGCCAATATGCTGATTCAAGGC
* * * *
5184890 CAGCGACATTGGGCTTAAAGGTGCCAAAGGCGCCAATA
65 CAGCGATATTGGACTTAAAGATG---AAGGTGCCAATA
* * * *
5184928 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-TGAAGGTGCTAATGTACTGATTCAAGGCC
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTGAAGGTGCCAATATGCTGATTCAAGGCC
** * * *
5184992 AGCGACGTTGGACTTAAGGATGAAGGTGCAAATG
66 AGCGATATTGGACTTAAAGATGAAGGTGCCAATA
*
5185026 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-TGACAAAGGCGCCAATATGCTGATTCAAG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTG---AAGGTGCCAATATGCTGATTCAAG
5185090 GCCAGCGATATTGGACTTAAAGATGAAGGTGGCGCCAATA
63 GCCAGCGATATTGGACTTAAAGATGAAGGT---GCCAATA
* * *
5185130 TGCTGATTCAAGGCCAGCGATATTGGACGTAAAGA-TGAAGGTGGCGCCAATATGCTGATTCCAG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTGAAGGT---GCCAATATGCTGATTCAAG
* * *
5185194 GCCAGCGATATTGGACTTCAAGTTGAAGGTGCCAATG
63 GCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATA
* * *
5185231 TGCTGATTCAAGGCCAGCGACATTGGGCTTAAAG-GTGCCAAAGGCGCCAATATGCTGATTCAAG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTG---AAGGTGCCAATATGCTGATTCAAG
*
5185295 GCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
63 GCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATA
* * * *
5185332 TGCTGATTCAAGGCCAGCAACATTAGACTTAAGGA-TGAAGGTGCCAATGTGCTGATTCAAGGCC
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTGAAGGTGCCAATATGCTGATTCAAGGCC
* **
5185396 AGCGACATTGGACTTAAAGATGACAAAGGCACCAATA
66 AGCGATATTGGACTTAAAGATG---AAGGTGCCAATA
* * * * *
5185433 TGTTGATTCAAGGCCAGTGAGATTGGACTTAAAGA-TGAAGATGCCAATGTGCTGATTCAAGGCC
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTGAAGGTGCCAATATGCTGATTCAAGGCC
*
5185497 AGCGACATTGGACTTAAAGATGAAGGTGCCAATA
66 AGCGATATTGGACTTAAAGATGAAGGTGCCAATA
* ** *
5185531 TGCCGATTCAAGGCCAATGACATTGGACTTAAAGA-TGACAAAGGCGCCAATATGCTGATTCAAG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTG---AAGGTGCCAATATGCTGATTCAAG
* * *
5185595 GCCAGCGATATTGGACTTAAAGATGAAGATGCCGATG
63 GCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATA
* * *
5185632 TGCTGATTCAAGGCCAGGGACATTGGACTTAAGGA-TGAAGGTGCCAATGTGCTGATTCAAGGCC
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTGAAGGTGCCAATATGCTGATTCAAGGCC
* * *
5185696 AACGACATTGGACTTAAAGATGACAAAGGCGCCAATA
66 AGCGATATTGGACTTAAAGATG---AAGGTGCCAATA
* *
5185733 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A--G-A--TGCCAATGTGCTGATTCAAGGCC
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTGAAGGTGCCAATATGCTGATTCAAGGCC
* * * * ** *
5185791 AACAACATTGGTCTTAAAGAAAAAGATGCCAATA
66 AGCGATATTGGACTTAAAGATGAAGGTGCCAATA
* * *
5185825 TGCTGATTTAAGGCCAACGATATTGGACTTAAA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAA
5185858 AGAAGATGCC
Statistics
Matches: 991, Mismatches: 111, Indels: 77
0.84 0.09 0.07
Matches are distributed among these distances:
92 38 0.04
93 2 0.00
95 41 0.04
97 1 0.00
98 180 0.18
99 1 0.00
100 1 0.00
101 515 0.52
102 80 0.08
104 105 0.11
105 27 0.03
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (99 bp):
TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTGAAGGTGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGATGAAGGTGCCAATA
Found at i:5185057 original size:150 final size:148
Alignment explanation
Indices: 5184562--5185857 Score: 1591
Period size: 150 Copynumber: 8.6 Consensus size: 148
5184552 AAAAGGATGT
* * * * * *
5184562 CAATGTGCTGATTCACGGTCAGCGACATTTAGACTTGAAA-ATGAGAAGAATGCCACTGTGCTGA
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTT-AAAGAT--GAAG-GTGCCAATATGCTGA
* ** *
5184626 TTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCTAATTCAAGGCCAGC
61 TTCAAGGCCAGCGACATT-GGACTTAAAGATGA--AAGGCGCCAATATGCTGATTCAAGGCCAGC
*
5184691 GATATTAGACTTAAAGATGAAGGTGC
123 GATATTGGACTTAAAGATGAAGGTGC
** * *
5184717 CAATAAGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATTACAAAGGTGCCAATATACTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-T--GAAGGTGCCAATATGCTGATT
* * * *
5184782 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGGCGCCAATGTGCTGATTCCTAGGCCAGCGA
63 CAAGGCCAGCGACATTGGACTTAAAGATGAA--AGGCGCCAATATGCTGATT-CAAGGCCAGCGA
* *
5184847 TATTGGACTTCAAGTTGAAGGTGC
125 TATTGGACTTAAAGATGAAGGTGC
* * *
5184871 CAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGGTGCCAAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATT
* * * * * **
5184936 CAAGGCCAGCGATATTGGACTTAAAGATG-AAGGTGCTAATGTACTGATTCAAGGCCAGCGACGT
63 CAAGGCCAGCGACATTGGACTTAAAGATGAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATAT
*
5185000 TGGACTTAAGGATGAAGGTGC
128 TGGACTTAAAGATGAAGGTGC
* *
5185021 AAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATT
* *
5185086 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGGCGCCAATATGCTGATTCAAGGCCAGCGAT
63 CAAGGCCAGCGACATTGGACTTAAAGATGAA--AGGCGCCAATATGCTGATTCAAGGCCAGCGAT
*
5185151 ATTGGACGTAAAGATGAAGGTGGCGC
126 ATTGGACTTAAAGATGAAGGT---GC
* * * * * *
5185177 CAATATGCTGATTCCAGGCCAGCGATATTGGACTTCAAGTTGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
5185242 GGCCAGCGACATTGGGCTTAAAGGTGCCAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATT
66 GGCCAGCGACATTGGACTTAAAGATG--AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATT
5185307 GGACTTAAAGATGAAGGTGC
129 GGACTTAAAGATGAAGGTGC
* * * *
5185327 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAGGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* * * *
5185392 GGCCAGCGACATTGGACTTAAAGATGACAAAGGCACCAATATGTTGATTCAAGGCCAGTGAGATT
66 GGCCAGCGACATTGGACTTAAAGATG--AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATT
*
5185457 GGACTTAAAGATGAAGATGC
129 GGACTTAAAGATGAAGGTGC
*
5185477 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCCGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
**
5185542 GGCCAATGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATT
66 GGCCAGCGACATTGGACTTAAAGATG--AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATT
*
5185607 GGACTTAAAGATGAAGATGC
129 GGACTTAAAGATGAAGGTGC
* * * *
5185627 CGATGTGCTGATTCAAGGCCAGGGACATTGGACTTAAGGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
*
5185692 GGCCAACGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATT
66 GGCCAGCGACATTGGACTTAAAGATG--AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATT
5185757 GGACTT-AA-A-G-A--TGC
129 GGACTTAAAGATGAAGGTGC
* * * ** * *
5185771 CAATGTGCTGATTCAAGGCCAACAACATTGGTCTTAAAGAAAAAGATGCCAATATGCTGATTTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
* *
5185836 GGCCAACGATATTGGACTTAAA
66 GGCCAGCGACATTGGACTTAAA
5185858 AGAAGATGCC
Statistics
Matches: 1014, Mismatches: 111, Indels: 43
0.87 0.10 0.04
Matches are distributed among these distances:
144 78 0.08
146 1 0.00
147 1 0.00
148 1 0.00
149 2 0.00
150 525 0.52
151 17 0.02
153 172 0.17
154 150 0.15
155 29 0.03
156 38 0.04
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (148 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGG
ACTTAAAGATGAAGGTGC
Found at i:5185947 original size:35 final size:36
Alignment explanation
Indices: 5185885--5185998 Score: 171
Period size: 35 Copynumber: 3.2 Consensus size: 36
5185875 TGTGTGGGCT
* *
5185885 TTTAAAAAGGAGAAAGA-TGCCACGAAGTTGTGGAC
1 TTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGAC
5185920 -TTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGAC
1 TTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGAC
* *
5185955 TTTAAAA-AGAAAAAGAGTGCCACGAAGTTGTGGGC
1 TTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGAC
5185990 TTTAAAAGG
1 TTTAAAAGG
5185999 ATTGTGGACT
Statistics
Matches: 71, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
34 14 0.20
35 51 0.72
36 6 0.08
ACGTcount: A:0.40, C:0.11, G:0.29, T:0.20
Consensus pattern (36 bp):
TTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGAC
Found at i:5186096 original size:62 final size:64
Alignment explanation
Indices: 5186010--5186172 Score: 174
Period size: 62 Copynumber: 2.6 Consensus size: 64
5186000 TTGTGGACTT
* * * * *
5186010 AAAAGGAACAAGGTGCCACGGAGTTGTGGACTTT-A-AAAGGATGCCACGGAGTTGTGGGCTTTG
1 AAAA-GAAAAAGGTGCCACGGAGTTGTGGACTTTAAGAAAAGATGCCACGGAGTCGTAGACTTTG
* *
5186073 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTAGACTTTG
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTT-AAGAAAAGATGCCACGGAGTCGTAGACTTTG
* * * *
5186138 AAAAG--AGA-TTGCCACTGAGTCGTGGACTTTAAGAA
1 AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAGAA
5186173 GGTATTTGAA
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
61 5 0.06
62 45 0.53
63 6 0.07
64 1 0.01
65 28 0.33
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (64 bp):
AAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAGAAAAGATGCCACGGAGTCGTAGACTTTG
Found at i:5186120 original size:31 final size:31
Alignment explanation
Indices: 5186000--5186172 Score: 140
Period size: 31 Copynumber: 5.5 Consensus size: 31
5185990 TTTAAAAGGA
** *
5186000 TTGTGGACTTAAAAGGAACAAGGTGCCACGGAG
1 TTGTGGACTTTGAA-GAA-AAGATGCCACGGAG
*
5186033 TTGTGGACTTT--A-AAAGGATGCCACGGAG
1 TTGTGGACTTTGAAGAAAAGATGCCACGGAG
* *
5186061 TTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAG
1 TTGTGGACTTTG--AAG-AAAAGATGCCACGGAG
* *
5186095 TTGTGGGCTTTGAAGAAAAGATGCCACTGAG
1 TTGTGGACTTTGAAGAAAAGATGCCACGGAG
* * * *
5186126 TCGTAGACTTTGAA-AAGAGATTGCCACTGAG
1 TTGTGGACTTTGAAGAAAAGA-TGCCACGGAG
*
5186157 TCGTGGACTTT-AAGAA
1 TTGTGGACTTTGAAGAA
5186173 GGTATTTGAA
Statistics
Matches: 119, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
28 22 0.18
29 2 0.02
30 7 0.06
31 48 0.40
32 4 0.03
33 10 0.08
34 26 0.22
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (31 bp):
TTGTGGACTTTGAAGAAAAGATGCCACGGAG
Found at i:5187478 original size:12 final size:11
Alignment explanation
Indices: 5187460--5187528 Score: 68
Period size: 12 Copynumber: 6.1 Consensus size: 11
5187450 TCTCTTCCTC
5187460 TTTTTTTTGTGT
1 TTTTTTTTGT-T
*
5187472 ATTTTTTTGTT
1 TTTTTTTTGTT
5187483 TTTGTTTTTGTT
1 TTT-TTTTTGTT
5187495 TTTTTTTTGTGT
1 TTTTTTTTGT-T
*
5187507 TGTTTTTT-TT
1 TTTTTTTTGTT
**
5187517 TTACTTTTGTT
1 TTTTTTTTGTT
5187528 T
1 T
5187529 GTGTGTTTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
10 6 0.12
11 14 0.29
12 28 0.58
ACGTcount: A:0.03, C:0.01, G:0.13, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:5187486 original size:6 final size:6
Alignment explanation
Indices: 5187475--5187528 Score: 60
Period size: 6 Copynumber: 9.5 Consensus size: 6
5187465 TTTGTGTATT
* *
5187475 TTTTTG TTTTTG TTTTTG TTTTT- TTTTTG -TGTTG TTTTT- TTTTTA
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
*
5187520 CTTTTG TTT
1 TTTTTG TTT
5187529 GTGTGTTTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
5 14 0.35
6 26 0.65
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:5187496 original size:17 final size:16
Alignment explanation
Indices: 5187460--5187528 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
5187450 TCTCTTCCTC
*
5187460 TTTTTTTTGTGTATTT-
1 TTTTTTTTTTGT-TTTG
*
5187476 TTTTGTTTTTGTTTTTG
1 TTTTTTTTTTG-TTTTG
*
5187493 TTTTTTTTTTGTGTTG
1 TTTTTTTTTTGTTTTG
*
5187509 TTTTTTTTTTACTTTTG
1 TTTTTTTTTT-GTTTTG
5187526 TTT
1 TTT
5187529 GTGTGTTTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
16 26 0.59
17 18 0.41
ACGTcount: A:0.03, C:0.01, G:0.13, T:0.83
Consensus pattern (16 bp):
TTTTTTTTTTGTTTTG
Found at i:5187498 original size:22 final size:22
Alignment explanation
Indices: 5187463--5187528 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 22
5187453 CTTCCTCTTT
5187463 TTTTTGTGTATTTTTTTGTTTTTG
1 TTTTTGT-T-TTTTTTTGTTTTTG
*
5187487 TTTTTGTTTTTTTTT-TGTGTTG
1 TTTTTGTTTTTTTTTGT-TTTTG
5187509 TTTTT-TTTTTACTTTTGTTT
1 TTTTTGTTTTT--TTTTGTTT
5187529 GTGTGTTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
21 6 0.17
22 16 0.44
23 6 0.17
24 8 0.22
ACGTcount: A:0.03, C:0.02, G:0.14, T:0.82
Consensus pattern (22 bp):
TTTTTGTTTTTTTTTGTTTTTG
Found at i:5187509 original size:16 final size:16
Alignment explanation
Indices: 5187460--5187518 Score: 73
Period size: 16 Copynumber: 3.5 Consensus size: 16
5187450 TCTCTTCCTC
*
5187460 TTTTTTTTGTGTATTTT
1 TTTTTTTTGTGT-TGTT
*
5187477 TTTGTTTTTGTTTTTGTT
1 TTT-TTTTTG-TGTTGTT
5187495 TTTTTTTTGTGTTGTT
1 TTTTTTTTGTGTTGTT
5187511 TTTTTTTT
1 TTTTTTTT
5187519 ACTTTTGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 14 0.38
17 9 0.24
18 12 0.32
19 2 0.05
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.85
Consensus pattern (16 bp):
TTTTTTTTGTGTTGTT
Found at i:5187518 original size:33 final size:35
Alignment explanation
Indices: 5187460--5187528 Score: 97
Period size: 33 Copynumber: 2.0 Consensus size: 35
5187450 TCTCTTCCTC
* **
5187460 TTTTTTTTGTGTATTTTTTTGTTTTTGTTTTTGTT
1 TTTTTTTTGTGTATGTTTTTGTTTTTACTTTTGTT
5187495 TTTTTTTTGTGT-TGTTTTT-TTTTTACTTTTGTT
1 TTTTTTTTGTGTATGTTTTTGTTTTTACTTTTGTT
5187528 T
1 T
5187529 GTGTGTTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 13 0.42
34 6 0.19
35 12 0.39
ACGTcount: A:0.03, C:0.01, G:0.13, T:0.83
Consensus pattern (35 bp):
TTTTTTTTGTGTATGTTTTTGTTTTTACTTTTGTT
Found at i:5187524 original size:28 final size:28
Alignment explanation
Indices: 5187478--5187535 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
5187468 GTGTATTTTT
* * *
5187478 TTGTTTTTGTTTTTGTTTTTTTTTTGTG
1 TTGTTTTTGTTTTTCTTTTGTTTGTGTG
5187506 TTGTTTTT-TTTTTACTTTTGTTTGTGTG
1 TTGTTTTTGTTTTT-CTTTTGTTTGTGTG
5187534 TT
1 TT
5187536 TACTTTTACG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.02, C:0.02, G:0.17, T:0.79
Consensus pattern (28 bp):
TTGTTTTTGTTTTTCTTTTGTTTGTGTG
Found at i:5192635 original size:52 final size:52
Alignment explanation
Indices: 5192557--5192685 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
5192547 CGAAATATGA
*
5192557 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGAGTATCGATACATCTGGGC
*
5192609 AAATTTGCCTGTATGTATCGATACATTTCATAGAGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGAGTATCGATACATCTGGGC
5192661 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
5192686 AAAAAGCTAG
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:0.19, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGAGTATCGATACATCTGGGC
Found at i:5194286 original size:31 final size:28
Alignment explanation
Indices: 5194263--5194334 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 28
5194253 GAAATAAAGC
*
5194263 CGGGGTTGGAGTATCCCCTTGGAAGTAA
1 CGGGGTTGGAGTATCCCCTTGGAAATAA
* **
5194291 TGGGGTTGGAGTATCCTCGAT-GAAATAA
1 CGGGGTTGGAGTATCC-CCTTGGAAATAA
* *
5194319 CGAGGTTAGAGTATCC
1 CGGGGTTGGAGTATCC
5194335 TCGATTGTGA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.26
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTTGGAAATAA
Found at i:5194436 original size:51 final size:50
Alignment explanation
Indices: 5194322--5194438 Score: 128
Period size: 51 Copynumber: 2.3 Consensus size: 50
5194312 GAAATAACGA
* *
5194322 GGTTAGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTT-GAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACCGG
* * * * *
5194373 AGTTGAAATATCCCCGATTGTGGAGAATTGGTGTTTT-AGAAATAAAACCGG
1 GGTTG-AGTATCCCCGATTGTGAAAAATTAGTGTTTTGA-AAATAAAACCGG
5194424 GGTTCGAGTATCCCC
1 GGTT-GAGTATCCCC
5194439 TCGAGAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
50 2 0.04
51 51 0.94
52 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.31
Consensus pattern (50 bp):
GGTTGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGAAAATAAAACCGG
Found at i:5194455 original size:130 final size:132
Alignment explanation
Indices: 5194292--5194573 Score: 351
Period size: 130 Copynumber: 2.2 Consensus size: 132
5194282 TGGAAGTAAT
* * *
5194292 GGGGTTGGAGTATCCTCGATGAAATAACGAGGTTAGAGTATCCTCGATTGTGAAAAATT-AGTGT
1 GGGGTTCGAGTATCCTCGATGAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTGA-TGT
* * *
5194356 TTT-GAAAATAAAATC-GGAGTTGAAATATCCCCGATTGTGGAGAATTGGTG-TTTTAGAAATAA
65 TTTAG-AAATAAAACCGGGAGTTGAAATATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAA
5194418 AACC
129 AACC
*
5194422 GGGGTTCGAGTATCCCCTCGA-G-AATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTGATG
1 GGGGTTCGAGTAT--CCTCGATGAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTGATG
* * * *
5194485 TTTTAGAAATAAAACCGGGGGTTGAAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAA
64 TTTTAGAAATAAAACCGGGAGTTGAAATATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAA
**
5194550 AATT
129 AACC
* *
5194554 GGAGTTGGAGTATCCTCGAT
1 GGGGTTCGAGTATCCTCGAT
5194574 TAAAGGAAAA
Statistics
Matches: 130, Mismatches: 15, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
130 67 0.52
131 33 0.25
132 30 0.23
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (132 bp):
GGGGTTCGAGTATCCTCGATGAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATTGATGTT
TTAGAAATAAAACCGGGAGTTGAAATATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAA
CC
Found at i:5194586 original size:53 final size:51
Alignment explanation
Indices: 5194452--5194733 Score: 263
Period size: 52 Copynumber: 5.6 Consensus size: 51
5194442 AGAATAACGA
* * *
5194452 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGG
1 GGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGGAAATAAAACC-GG
* * **
5194504 GGTTGAAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCTCGATTATGAAAAATTGGTG-TTTTGGAAATAAAACCGG
* * * *
5194556 AGTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCTCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAACCGG
* * * * *
5194608 GGTTGGAGTATCCCCGGTTGTGAAAAATTGGTGTTTCGAAAATAAAA----
1 GGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGG
* * * * * * * *
5194655 --TTGAAGAATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCAG
1 GGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGG
5194704 GGTTGGAGTATCC-CTGATTATGAAAAATTG
1 GGTTGGAGTATCCTC-GATTATGAAAAATTG
5194734 AAAAACTTAA
Statistics
Matches: 186, Mismatches: 35, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
45 37 0.20
50 1 0.01
51 45 0.24
52 79 0.42
53 24 0.13
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGG
Found at i:5194633 original size:104 final size:101
Alignment explanation
Indices: 5194453--5194733 Score: 340
Period size: 96 Copynumber: 2.8 Consensus size: 101
5194443 GAATAACGAG
* * * *
5194453 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGGTTGAAGTATCCT
1 GTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAACC-GGGGTTGGAGTATCCC
* *
5194518 CGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATTGGA
65 CGATTGTGAAAAATTGGTG-TTTCGAAAATAAAATT-GA
* *
5194557 GTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTT-GAAAATAAAACCGGGGTTGGAGTATCC
1 GTTGGAGTATCCCCGATT-ATGGAAAATTGGTGTTTTAG-AAATAAAACCGGGGTTGGAGTATCC
*
5194621 CCGGTTGTGAAAAATTGGTGTTTCGAAAATAAAATTGA
64 CCGATTGTGAAAAATTGGTGTTTCGAAAATAAAATTGA
* * * * *
5194659 -----AGAATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCT
1 GTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
*
5194719 GATTATGAAAAATTG
66 GATTGTGAAAAATTG
5194734 AAAAACTTAA
Statistics
Matches: 156, Mismatches: 18, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
96 53 0.34
97 12 0.08
102 2 0.01
103 14 0.09
104 50 0.32
105 25 0.16
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (101 bp):
GTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
GATTGTGAAAAATTGGTGTTTCGAAAATAAAATTGA
Found at i:5197206 original size:19 final size:21
Alignment explanation
Indices: 5197182--5197233 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
5197172 AGCGATACAC
*
5197182 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
5197201 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
5197222 TGTATCGATACA
1 TGTATCGATACA
5197234 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:5200711 original size:23 final size:21
Alignment explanation
Indices: 5200680--5200725 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
5200670 CCATGATAAT
*
5200680 TATTTTAAAATATAATTATATTA
1 TATTATAAAATATAA--ATATTA
5200703 TATTATAAAATATAAATATTA
1 TATTATAAAATATAAATATTA
5200724 TA
1 TA
5200726 ATAAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.36
23 14 0.64
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTATAAAATATAAATATTA
Found at i:5200733 original size:21 final size:22
Alignment explanation
Indices: 5200686--5200733 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
5200676 TAATTATTTT
* *
5200686 AAAATATAATTATATTATATTAT
1 AAAATATAA-TATATTATAATAA
5200709 AAAATATAA-ATATTATAATAA
1 AAAATATAATATATTATAATAA
5200730 AAAA
1 AAAA
5200734 ACATCATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 14 0.61
23 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AAAATATAATATATTATAATAA
Found at i:5201326 original size:13 final size:12
Alignment explanation
Indices: 5201297--5201330 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
5201287 AAACAATATT
5201297 TATATTTTTTAA
1 TATATTTTTTAA
5201309 T-TATTTTTATAA
1 TATATTTTT-TAA
5201321 TATATTTTTT
1 TATATTTTTT
5201331 TAAAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 7 0.35
12 6 0.30
13 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TATATTTTTTAA
Found at i:5201419 original size:18 final size:19
Alignment explanation
Indices: 5201398--5201442 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
5201388 AAAAATATCA
*
5201398 TTTTAAAAAATCAT-ATTT
1 TTTTAAAAAATCATCATTC
* *
5201416 TTTTAGAAAATTATCATTC
1 TTTTAAAAAATCATCATTC
5201435 TTTTAAAA
1 TTTTAAAA
5201443 GCTACTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTTAAAAAATCATCATTC
Found at i:5201989 original size:21 final size:20
Alignment explanation
Indices: 5201959--5201997 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
5201949 CACATTTTTG
5201959 TTTAAATGTATCGATACATT
1 TTTAAATGTATCGATACATT
5201979 TTTAGAATGTATCGATACA
1 TTTA-AATGTATCGATACA
5201998 AGGTCCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (20 bp):
TTTAAATGTATCGATACATT
Found at i:5203080 original size:32 final size:30
Alignment explanation
Indices: 5202801--5203544 Score: 472
Period size: 30 Copynumber: 24.7 Consensus size: 30
5202791 TTCATCACCC
* ***
5202801 TTCAAAAGTCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
***
5202831 TTC-AAAGCCCACAAGTCAGTGGCATTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA-CCCTT
*
5202861 TTCAAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5202889 TTC-AAAGCCCACAAATCAGTGGCACCCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCC-TT
* * *
5202919 TTC-GAAGCCCACAAGTCGGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
5202947 TTCCAAAGCTCACAACTCTA-TAGCACTCTTT
1 TTCAAAAGCCCACAAGTC-AGTGGCAC-CCTT
** *
5202978 TTCTTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 TTC---AAAAGCCCACAAGTCAGTGGCACCCTT
*
5203011 TTCAAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* ***
5203041 TTC-AAAGCCCACAAGTCAGTGGTATTTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCA--CCCTT
*
5203072 TTCAAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5203100 TTC-AAAGCCCACAAATCAGTGGCACCCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCC-TT
* * * *
5203130 TTC-GAAGCCTACAAGTCGGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
5203158 TTCCAAAGCTCACAACTCTA-TAGCACTCTTT
1 TTCAAAAGCCCACAAGTC-AGTGGCAC-CCTT
*** *
5203189 TTCTTTTTCAGCCCACAAGTTAGTGGCACCCTT
1 TTC---AAAAGCCCACAAGTCAGTGGCACCCTT
***
5203222 TTCAAAAGCCCACAAGTCAGTGGCATATTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5203252 TTCAAAAGCCCACAAGTCAGTGGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5203281 TT-AAAAGCCCACAAGTCAGTGGCAACC--
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
*
5203308 TTC-AAAGCCCACAAATCAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
** * * *
5203337 TTCCGAAGCCCATAAGTCGGTGGCA-TCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* * * * *
5203366 TTCCAAAGTCCACAACTCCGTGGCACTCTTTTTTT
1 TTCAAAAGCCCACAAGTCAGTGGCAC-C----CTT
*** * * *
5203401 TTTGTAAGCTCACAACTCTA-TGGCACTCTTT
1 TTCAAAAGCCCACAAGTC-AGTGGCAC-CCTT
** *
5203432 TTCTTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 TTC---AAAAGCCCACAAGTCAGTGGCACCCTT
*
5203465 TTCAAAAGCCCACAAGTTAGTGGCACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
* * * *
5203495 TTCATAAGCCCACAAGTTAGTAGCAACC-T
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTT
5203524 TT-AAAAGCCCACAAGTCAGTG
1 TTCAAAAGCCCACAAGTCAGTG
5203545 ATGCAAACCT
Statistics
Matches: 569, Mismatches: 103, Indels: 86
0.75 0.14 0.11
Matches are distributed among these distances:
27 68 0.12
28 57 0.10
29 102 0.18
30 191 0.34
31 41 0.07
32 20 0.04
33 21 0.04
34 46 0.08
35 23 0.04
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:5203104 original size:59 final size:59
Alignment explanation
Indices: 5202805--5203544 Score: 295
Period size: 59 Copynumber: 12.3 Consensus size: 59
5202795 TCACCCTTCA
* * ***
5202805 AAAGTCCACAAGTCAGTGGCA-TATTTTTC-AAAGCCCACAAGTCAGTGGCATTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCA--ACCTTTC
*** * *
5202864 AAAAGCCCACAAGTCAGTGGCA---ACCTTC-AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACC--TTTC
* * * * * * *
5202922 GAAGCCCACAAGTCGGTGGCA--TCTTTTCCAAAGCTCACAACTCTA-TAGC-ACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTC-AGTGGCAAC-C--TTTC
* * *** * *
5202981 TTTTTAAGCCCACAAGTTAGTGGCA-CCCTTTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTC
1 ----AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTTC
*
5203044 AAAGCCCACAAGTCAGTGGTATTTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTC
1 AAAGCCCACAAGTCAGTGGCA-TTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTC
* *** * * * * *
5203103 AAAGCCCACAAATCAGTGGCACCCTTTTTC-GAAGCCTACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTT-C
* * * **** * *
5203162 AAAGCTCACAACTCTA-TAGCACTCTTTTTCTTTTTCAGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTC-AGTGGCA-T-TTTTT-TTCAAAAGCCCACAAGTCAGTGGCAACC-TTTC
* *
5203225 AAAAGCCCACAAGTCAGTGGCA-TATTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTA
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTC
*** * *
5203284 AAAGCCCACAAGTCAGTGGCA---ACCTTC-AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACC-TTT-C
* * * * * * * *
5203341 GAAGCCCATAAGTCGGTGGCA--TCTTTTCCAAAGTCCACAACTCCGTGGC-ACTCTTTTTTTTT
1 AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAAC-C-------TT
*
5203403 TG
58 TC
* * * *** * *
5203405 TAAGCTCACAACTCTA-TGGCACTCTTTTTCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTC-AGTGGCA-T-TTTTT-TTCAAAAGCCCACAAGTCAGTGGCAACC-TTTC
* *** * * * *
5203468 AAAAGCCCACAAGTTAGTGGCA-CCCTTTTCATAAGCCCACAAGTTAGTAGCAACCTTTA
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTC
5203527 AAAGCCCACAAGTCAGTG
1 AAAGCCCACAAGTCAGTG
5203545 ATGCAAACCT
Statistics
Matches: 520, Mismatches: 115, Indels: 92
0.72 0.16 0.13
Matches are distributed among these distances:
55 22 0.04
56 6 0.01
57 56 0.11
58 81 0.16
59 103 0.20
60 68 0.13
61 37 0.07
62 2 0.00
63 48 0.09
64 70 0.13
65 5 0.01
68 3 0.01
69 18 0.03
70 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (59 bp):
AAAGCCCACAAGTCAGTGGCATTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTC
Found at i:5203164 original size:211 final size:210
Alignment explanation
Indices: 5202801--5203544 Score: 1032
Period size: 211 Copynumber: 3.5 Consensus size: 210
5202791 TTCATCACCC
* * * *
5202801 TTCAAAAGTCCACAAGTCAGTGGCATATTTTTC-AAAGCCCACAAGTCAGTGGCATTTTTTTTCA
1 TTCAAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCA-TTCTTTTCA
5202865 AAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCGAAGCCCA
65 AAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCGAAGCCCA
5202930 CAAGTCGGTGGCATCTTTTCCAAAGCTCACAACTCTATAGCACTCTTTTTCTTTTTAAGCCCACA
130 CAAGTCGGTGGCATCTTTTCCAAAGCTCACAACTCTATAGCACTCTTTTTCTTTTTAAGCCCACA
5202995 AGTTAGTGGCACCCTT
195 AGTTAGTGGCACCCTT
* * * *
5203011 TTCAAAAGCCCACAAGTTAGTGGCACCCTTTTC-AAAGCCCACAAGTCAGTGGTATTTTTTTTTC
1 TTCAAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCA--TTCTTTTC
*
5203075 AAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCGAAGCCT
64 AAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCGAAGCCC
*
5203140 ACAAGTCGGTGGCATCTTTTCCAAAGCTCACAACTCTATAGCACTCTTTTTCTTTTTCAGCCCAC
129 ACAAGTCGGTGGCATCTTTTCCAAAGCTCACAACTCTATAGCACTCTTTTTCTTTTTAAGCCCAC
5203205 AAGTTAGTGGCACCCTT
194 AAGTTAGTGGCACCCTT
* * * *
5203222 TTCAAAAGCCCACAAGTCAGTGGCATATTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCTTT-AA
1 TTCAAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCATTCTTTTCAA
* *
5203285 AAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCAT
66 AAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCGAAGCCCAC
** * * *
5203350 AAGTCGGTGGCATCTTTTCCAAAG-TCCACAACTCCGTGGCACTCTTTTTTTTTTGTAAGCTCAC
131 AAGTCGGTGGCATCTTTTCCAAAGCT-CACAACTCTATAGCACTCTTTTTCTTTT-TAAGCCCAC
* *
5203414 AACTCTA-TGGCACTCTTT
194 AAGT-TAGTGGCAC-CCTT
** * * * **
5203432 TTCTTTTTAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTTAGTGGCACCCTTTT
1 TTC---AAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCATTCTTTT
* * * * *
5203497 CATAAGCCCACAAGTTAGTAGCAACCTTTAAAAGCCCACAAGTCAGTG
63 CAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAGCCCACAAATCAGTG
5203545 ATGCAAACCT
Statistics
Matches: 481, Mismatches: 41, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
207 1 0.00
208 112 0.23
209 19 0.04
210 56 0.12
211 183 0.38
212 20 0.04
213 45 0.09
214 4 0.01
215 22 0.05
216 19 0.04
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (210 bp):
TTCAAAAGCCCACAAGTCAGTGGCACACTTTTCAAAAGCCCACAAGTCAGTGGCATTCTTTTCAA
AAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCGAAGCCCAC
AAGTCGGTGGCATCTTTTCCAAAGCTCACAACTCTATAGCACTCTTTTTCTTTTTAAGCCCACAA
GTTAGTGGCACCCTT
Found at i:5203443 original size:34 final size:35
Alignment explanation
Indices: 5203375--5203466 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 35
5203365 TTTCCAAAGT
** *
5203375 CCACAACTCCGTGGCACTCTTTTTTTTTTGTAAGC
1 CCACAACTCTATGGCACTCTTTTTCTTTTGTAAGC
*
5203410 TCACAACTCTATGGCACTCTTTTTCTTTT-TAAGC
1 CCACAACTCTATGGCACTCTTTTTCTTTTGTAAGC
* *
5203444 CCACAAGT-TAGTGGCACCCTTTT
1 CCACAACTCTA-TGGCACTCTTTT
5203467 CAAAAGCCCA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 2 0.04
34 22 0.45
35 25 0.51
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (35 bp):
CCACAACTCTATGGCACTCTTTTTCTTTTGTAAGC
Found at i:5203746 original size:43 final size:43
Alignment explanation
Indices: 5203685--5203773 Score: 142
Period size: 43 Copynumber: 2.1 Consensus size: 43
5203675 CACCTTCATA
*
5203685 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACAATGGCACC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAGCACAATGGCACC
* * *
5203728 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAGCACAATGGCACC
5203771 TTT
1 TTT
5203774 TCCATCTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGACCTTGAATCAGCACAATGGCACC
Found at i:5203763 original size:92 final size:94
Alignment explanation
Indices: 5203634--5203814 Score: 294
Period size: 92 Copynumber: 1.9 Consensus size: 94
5203624 TGGCACCTTG
*
5203634 CCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACC-TT-CATATTTAAGTCCAAT
1 CCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTTCCATATTTAAGTCCAAT
5203697 GTAGCTGACCTTGAATCAGCACAATGGCA
66 GTAGCTGACCTTGAATCAGCACAATGGCA
* * *
5203726 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACC-TTTCCATATTTAAGTCCAA
*
5203791 TGTAGCTGGCCTTGAATCAGCACA
65 TGTAGCTGACCTTGAATCAGCACA
5203815 TTGACATCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
92 43 0.53
94 2 0.02
95 36 0.44
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (94 bp):
CCTTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTTCCATATTTAAGTCCAAT
GTAGCTGACCTTGAATCAGCACAATGGCA
Found at i:5203805 original size:52 final size:53
Alignment explanation
Indices: 5203727--5203880 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
5203717 ACAATGGCAC
*
5203727 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAG
* * * *
5203779 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAG
* * * * * *
5203834 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
5203881 ATCACTTTTC
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 38 0.45
53 5 0.06
54 6 0.07
55 35 0.42
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAG
Found at i:5204733 original size:13 final size:13
Alignment explanation
Indices: 5204715--5204739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5204705 CATAAAGTGT
5204715 TGTATCGATACAA
1 TGTATCGATACAA
5204728 TGTATCGATACA
1 TGTATCGATACA
5204740 TATTTTTTTG
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:5204751 original size:33 final size:33
Alignment explanation
Indices: 5204695--5204761 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
5204685 TTCAACGATT
*
5204695 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
*** *
5204728 TGTATCGATACATATTTTTTTGTATCAATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
5204761 T
1 T
5204762 TCAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCAATACAA
Found at i:5204820 original size:13 final size:13
Alignment explanation
Indices: 5204802--5204826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5204792 ATCACTTAAA
5204802 TGTATCGATACAT
1 TGTATCGATACAT
5204815 TGTATCGATACA
1 TGTATCGATACA
5204827 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:5204891 original size:52 final size:52
Alignment explanation
Indices: 5204835--5205015 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
5204825 CACTGATCTT
* *
5204835 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
5204887 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
5204939 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
5204991 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
5205016 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:5217395 original size:21 final size:20
Alignment explanation
Indices: 5217369--5217411 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
5217359 TTTAATTTTA
5217369 AAATT-ATTTTTAATTACAGTT
1 AAATTAATTTTT-ATTA-AGTT
5217390 AAATTAAATTTTTATTAAGTT
1 AAATT-AATTTTTATTAAGTT
5217411 A
1 A
5217412 TATTTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.50
22 4 0.20
23 6 0.30
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (20 bp):
AAATTAATTTTTATTAAGTT
Found at i:5218696 original size:17 final size:17
Alignment explanation
Indices: 5218645--5218697 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
5218635 AAAAGATAAG
5218645 ATACAACACTTATTAGC
1 ATACAACACTTATTAGC
* **
5218662 ATAC-ACA-TAAAAAG-
1 ATACAACACTTATTAGC
5218676 ATACAACACTTATTAGC
1 ATACAACACTTATTAGC
5218693 ATACA
1 ATACA
5218698 CAGGTACATG
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 4 0.15
15 7 0.26
16 7 0.26
17 9 0.33
ACGTcount: A:0.49, C:0.21, G:0.06, T:0.25
Consensus pattern (17 bp):
ATACAACACTTATTAGC
Done.