Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1181
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: 580274
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.15
Warning! 311624 characters in sequence are not A, C, G, or T
File 2 of 2
Found at i:486577 original size:34 final size:32
Alignment explanation
Indices: 486534--487206 Score: 461
Period size: 34 Copynumber: 21.0 Consensus size: 32
486524 TGTCCCAAAA
*
486534 TCCACAACTCCGTGGCATTCTTGTTCTTTTTAAG
1 TCCACAACTCCGTGGCA-CCTT-TTCTTTTTAAG
* *
486568 TCCACAACTCTGTGGCACCTTTTTCTTTTTAAAA
1 TCCACAACTCCGTGGCACC-TTTTCTTTTT-AAG
* *
486602 CCCACAACTCCGTGGCACTCTTTTTTCTTTTAAG
1 TCCACAACTCCGTGGCAC-CTTTTCT-TTTTAAG
*
486636 TCCACAACTCCGTGGCACC----C-TTTTAAA
1 TCCACAACTCCGTGGCACCTTTTCTTTTTAAG
* * *
486663 CCCACAACTCCATGGCACTCTTTTTTCTTTTAAG
1 TCCACAACTCCGTGGCAC-CTTTTCT-TTTTAAG
486697 TCCACAACTCCGTGGCACC----C-TTTTAAG
1 TCCACAACTCCGTGGCACCTTTTCTTTTTAAG
* *
486724 TCCACAACTCCATGGCATCCTTGTTCCTTTTAAAG
1 TCCACAACTCCGTGGCA-CCTT-TT-CTTTTTAAG
* * **
486759 CCCATAACTTTGTGGCACC----C-TTTTAAG
1 TCCACAACTCCGTGGCACCTTTTCTTTTTAAG
* *
486786 TCCACAACTCCATGGCACCTTTTTCTTTTTAAAA
1 TCCACAACTCCGTGGCACC-TTTTCTTTTT-AAG
* * *
486820 CCCACAACTCCGAGGCACTCTTTTTCCTTTTAAG
1 TCCACAACTCCGTGGCAC-C-TTTTCTTTTTAAG
* * * *
486854 TCCACTACTCTGTCGCA-C----CTTTTAAAG
1 TCCACAACTCCGTGGCACCTTTTCTTTTTAAG
*
486881 TCCACAACTCCGTGGCATCCTTGTTCCTTTTAAAG
1 TCCACAACTCCGTGGCA-CCTT-TT-CTTTTTAAG
* *
486916 CCCACAACTCTGTGGCACC----C-TTTTAAG
1 TCCACAACTCCGTGGCACCTTTTCTTTTTAAG
*
486943 TCCACAACTCTGTGGCACCTTTTTCTTTTTAAAG
1 TCCACAACTCCGTGGCACC-TTTTCTTTTT-AAG
* * *
486977 CCCACAACTCCGAGGCACACTTTTTCCTTTTAAG
1 TCCACAACTCCGTGGCAC-C-TTTTCTTTTTAAG
* *
487011 TCCATAACTCTGTGGCACCTTTTTCTTTTTAAAG
1 TCCACAACTCCGTGGCACC-TTTTCTTTTT-AAG
* * *
487045 CCCACAACTCCGAGGCACACTTTTTCCTTTTAAG
1 TCCACAACTCCGTGGCAC-C-TTTTCTTTTTAAG
*
487079 TCCACAACTCCGTGGCA-C----CTTTTAAAG
1 TCCACAACTCCGTGGCACCTTTTCTTTTTAAG
* **
487106 TCCACAACTCAGTGGCACCCTTTTCCCTTTCAAAG
1 TCCACAACTCCGTGGCA-CCTTTT--CTTTTTAAG
* *
487141 CCCACAACTCCGTGGCACCTTGTTCCTTTTAAG
1 TCCACAACTCCGTGGCACCTT-TTCTTTTTAAG
* *
487174 TCCACAACTCCGTGGCATCTTTCTCCTTTTAAG
1 TCCACAACTCCGTGGCACCTTT-TCTTTTTAAG
487207 CCCATAAGTT
Statistics
Matches: 507, Mismatches: 77, Indels: 111
0.73 0.11 0.16
Matches are distributed among these distances:
27 133 0.26
28 5 0.01
29 2 0.00
32 5 0.01
33 65 0.13
34 192 0.38
35 105 0.21
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.34
Consensus pattern (32 bp):
TCCACAACTCCGTGGCACCTTTTCTTTTTAAG
Found at i:486658 original size:27 final size:27
Alignment explanation
Indices: 486628--487129 Score: 162
Period size: 27 Copynumber: 16.2 Consensus size: 27
486618 ACTCTTTTTT
486628 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** *
486655 CTTTTAAACCCACAACTCCATGGCACTC
1 CTTTTAAGTCCACAACTCCGTGGCAC-C
486683 TTTTTTCTTTTAAGTCCACAACTCCGTGGCACC
1 ------CTTTTAAGTCCACAACTCCGTGGCACC
*
486716 CTTTTAAGTCCACAACTCCATGGCATCCTTGTTC
1 CTTTTAAGTCCACAACTCCGTGGCA--C-----C
* * **
486750 CTTTTAAAGCCCATAACTTTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
486778 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** *
486805 TTTTTCTTTTTAAAACCCACAACTCCGAGGCACTCTTTTTC
1 -----C-TTTT-AAGTCCACAACTCCGTGGCA--C-----C
* * *
486846 CTTTTAAGTCCACTACTCTGTCGCA-C
1 CTTTTAAGTCCACAACTCCGTGGCACC
486872 CTTTTAAAGTCCACAACTCCGTGGCATCCTTGTTC
1 CTTTT-AAGTCCACAACTCCGTGGCA--C-----C
* *
486907 CTTTTAAAGCCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
486935 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
486962 TTTTTCTTTTTAAAGCCCACAACTCCGAGGCACACTTTTTC
1 -----C-TTTT-AAGTCCACAACTCCGTGG--CAC-----C
* *
487003 CTTTTAAGTCCATAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
487030 TTTTTCTTTTTAAAGCCCACAACTCCGAGGCACACTTTTTC
1 -----C-TTTT-AAGTCCACAACTCCGTGG--CAC-----C
487071 CTTTTAAGTCCACAACTCCGTGGCA-C
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
487097 CTTTTAAAGTCCACAACTCAGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
487125 CTTTT
1 CTTTT
487130 CCCTTTCAAA
Statistics
Matches: 360, Mismatches: 47, Indels: 135
0.66 0.09 0.25
Matches are distributed among these distances:
26 12 0.03
27 122 0.34
28 19 0.05
29 1 0.00
32 8 0.02
33 15 0.04
34 118 0.33
35 52 0.14
36 10 0.03
41 3 0.01
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.33
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:486673 original size:61 final size:61
Alignment explanation
Indices: 486535--487159 Score: 352
Period size: 61 Copynumber: 9.9 Consensus size: 61
486525 GTCCCAAAAT
* * *
486535 CCACAACTCCGTGGCATTC-TTGTTCTTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTA
1 CCACAACTCCGTGGCACTCTTTTTTC-TTTTAAGTCCACAACTCCGTGGCACC-----C-TTTT-
486599 AAAC
58 AAAC
486603 CCACAACTCCGTGGCACTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAC
1 CCACAACTCCGTGGCACTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAC
* **
486664 CCACAACTCCATGGCACTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAC
* * * * * ** **
486725 CCACAACTCCATGGCA-TCCTTGTTCCTTTTAAAGCCCATAACTTTGTGGCACCCTTTTAAGT
1 CCACAACTCCGTGGCACT-CTTTTTTCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAC
* ** *
486787 CCACAACTCCATGGCAC-C-TTTTTCTTTTTAAAACCCACAACTCCGAGGCACTCTTTTTCCTTT
1 CCACAACTCCGTGGCACTCTTTTTTC-TTTT-AAGTCCACAACTCCGTGGCA--C-----CCTTT
**
486850 TAAGT
57 TAAAC
* * * *
486855 CCACTACTCTGTCGCAC-C-----T-TTTAAAGTCCACAACTCCGTGGCATCCTTGTTCCTTTTA
1 CCACAACTCCGTGGCACTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCA--C-----CCTTTTA
486913 AAGC
59 AA-C
* *
486917 CCACAACTCTGTGGCAC-C------CTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAA
1 CCACAACTCCGTGGCACTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCACC-----C-TTTTAA
486975 AGC
60 A-C
* * * * *
486978 CCACAACTCCGAGGCACACTTTTTCCTTTTAAGTCCATAACTCTGTGGCACCTTTTTCTTTTTAA
1 CCACAACTCCGTGGCACTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCACC-----C-TTTTAA
487043 AGC
60 A-C
* * * *
487046 CCACAACTCCGAGGCACACTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAAGT
1 CCACAACTCCGTGGCACTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAA-C
* * ** * *
487107 CCACAACTCAGTGGCACCCTTTTCCCTTTCAAAGCCCACAACTCCGTGGCACC
1 CCACAACTCCGTGGCACTCTTTTTTCTTT-TAAGTCCACAACTCCGTGGCACC
487160 TTGTTCCTTT
Statistics
Matches: 480, Mismatches: 48, Indels: 63
0.81 0.08 0.11
Matches are distributed among these distances:
55 1 0.00
60 7 0.01
61 196 0.41
62 109 0.23
63 3 0.01
64 1 0.00
67 1 0.00
68 157 0.33
69 5 0.01
ACGTcount: A:0.22, C:0.33, G:0.12, T:0.33
Consensus pattern (61 bp):
CCACAACTCCGTGGCACTCTTTTTTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAC
Found at i:486774 original size:157 final size:152
Alignment explanation
Indices: 486561--487190 Score: 657
Period size: 157 Copynumber: 4.0 Consensus size: 152
486551 TTCTTGTTCT
* * * * *
486561 TTTTAAGTCCACAACTCTGTGGCA-CCTTTTTCTTTTTAAAACCCACAACTCCGTGGCACTCTTT
1 TTTTAAGTCCACAACTCCGTGGCATCCTTGTTCCTTTTAAAGCCCACAACTCTGTGGCAC-C---
486625 TTTCTTTTAAGTCCACAACTCCGTGGCACC-C-TTTTAAACCCACAACTCC-ATGGCACTCTTTT
62 ---CTTTTAAGTCCACAACTCCGTGGCACCTCTTTTTAAACCCACAACTCCGA-GGCACTCTTTT
* *
486687 TTCTTTTAAGTCCACAACTCCGTGGCACCC
123 TCCTTTTAAGTCCACAACTCTGTGGCACCC
* * *
486717 TTTTAAGTCCACAACTCCATGGCATCCTTGTTCCTTTTAAAGCCCATAACTTTGTGGCACCCTTT
1 TTTTAAGTCCACAACTCCGTGGCATCCTTGTTCCTTTTAAAGCCCACAACTCTGTGGCACCCTTT
*
486782 TAAGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAACCCACAACTCCGAGGCACTCTTTTTCC
66 TAAGTCCACAACTCCGTGGCACC----TCTTTTT-AAACCCACAACTCCGAGGCACTCTTTTTCC
* *
486847 TTTTAAGTCCACTACTCTGTCGCA-CC
126 TTTTAAGTCCACAACTCTGTGGCACCC
486873 TTTTAAAGTCCACAACTCCGTGGCATCCTTGTTCCTTTTAAAGCCCACAACTCTGTGGCACCCTT
1 TTTT-AAGTCCACAACTCCGTGGCATCCTTGTTCCTTTTAAAGCCCACAACTCTGTGGCACCCTT
* *
486938 TTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGAGGCACACTTTTTC
65 TTAAGTCCACAACTCCGTGGCACC----TCTTTTTAAA-CCCACAACTCCGAGGCACTCTTTTTC
*
487003 CTTTTAAGTCCATAACTCTGTGGCACCTTTTTC
125 CTTTTAAGTCCACAACTCTGTGGCACC-----C
* * * * *
487036 TTTTTAAAGCCCACAACTCCGAGGCA-CACTTTTTCCTTTT-AAGTCCACAACTCCGTGGCA-CC
1 -TTTT-AAGTCCACAACTCCGTGGCATC-CTTGTTCCTTTTAAAGCCCACAACTCTGTGGCACCC
* * *
487098 TTTTAAAGTCCACAACTCAGTGGCACCCTTTTCCCTTTCAAAGCCCACAACTCCGTGGCAC-CTT
63 TTTT-AAGTCCACAACTCCGTGGCA-CCTCTT---TTT-AAA-CCCACAACTCCGAGGCACTCTT
* *
487162 GTTCCTTTTAAGTCCACAACTCCGTGGCA
121 TTTCCTTTTAAGTCCACAACTCTGTGGCA
487191 TCTTTCTCCT
Statistics
Matches: 416, Mismatches: 33, Indels: 43
0.85 0.07 0.09
Matches are distributed among these distances:
150 26 0.06
155 1 0.00
156 36 0.09
157 214 0.51
158 2 0.00
160 3 0.01
162 6 0.01
163 71 0.17
164 57 0.14
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.33
Consensus pattern (152 bp):
TTTTAAGTCCACAACTCCGTGGCATCCTTGTTCCTTTTAAAGCCCACAACTCTGTGGCACCCTTT
TAAGTCCACAACTCCGTGGCACCTCTTTTTAAACCCACAACTCCGAGGCACTCTTTTTCCTTTTA
AGTCCACAACTCTGTGGCACCC
Found at i:487243 original size:28 final size:31
Alignment explanation
Indices: 487204--487281 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 31
487194 TTCTCCTTTT
*
487204 AAGCC-CATAAGTTAGTGGCAA-CC-TTCAA
1 AAGCCACACAAGTTAGTGGCAACCCTTTCAA
* *
487232 AAG-CACACAAGTTGGT-ACAACCCTTTCAA
1 AAGCCACACAAGTTAGTGGCAACCCTTTCAA
487261 AAGTCCACACAAGTTAGTGGC
1 AAG-CCACACAAGTTAGTGGC
487282 GTCTTCTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
27 4 0.10
28 14 0.36
29 8 0.21
31 12 0.31
32 1 0.03
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.21
Consensus pattern (31 bp):
AAGCCACACAAGTTAGTGGCAACCCTTTCAA
Found at i:487454 original size:49 final size:49
Alignment explanation
Indices: 487307--487858 Score: 505
Period size: 49 Copynumber: 11.4 Consensus size: 49
487297 TAATTTGCTA
* * * *
487307 GCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTAAGACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTG---TCTTTAAGTCCAATGTCGCTG
*
487359 GCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGTCCAATGTCGCTG
* *
487402 GCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGTCCAATGTCGCTG
* * *
487451 GCCTTGAATCAGCACATTGACA-C-----CTTTAAGTCCAATATCGCTA
1 GCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGTCCAATGTCGCTG
* * *
487494 GCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACTAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGTCCAATGTCGCTG
**
487542 GCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGTCCAATGTCGCTG
* *
487591 GCCTTGAATCAGCACATTGGCA------TCCTTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGTCCAATGTCGCTG
* *
487634 GCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTG---TCTTTAAGTCCAATGTCGCTG
* ** * *
487686 GCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCCAATATTGCTG
1 GCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGTCCAATGTCGCTG
* * * ** *
487735 GCCTTGAATCAGCATATTGGCACATTCGTCATCTTTAAAACCCAATGTTGCTG
1 GCCTTGAATCAGCACATTGGCACCTT--T-GTCTTT-AAGTCCAATGTCGCTG
* * * * *
487788 GCCTTGAATCAGCACATTAGCATTCTTT-TCATCTTCAAGTCTAATGTTGCTA
1 GCCTTGAATCAGCACATTGGCA-CCTTTGTC-T-TT-AAGTCCAATGTCGCTG
* *
487840 ACCGTGAATCAGCACATTG
1 GCCTTGAATCAGCACATTG
487859 ACATATTTTT
Statistics
Matches: 416, Mismatches: 56, Indels: 56
0.79 0.11 0.11
Matches are distributed among these distances:
43 115 0.28
44 2 0.00
48 40 0.10
49 122 0.29
50 2 0.00
51 2 0.00
52 98 0.24
53 33 0.08
54 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
GCCTTGAATCAGCACATTGGCACCTTTGTCTTTAAGTCCAATGTCGCTG
Found at i:487467 original size:92 final size:92
Alignment explanation
Indices: 487307--487757 Score: 502
Period size: 92 Copynumber: 4.8 Consensus size: 92
487297 TAATTTGCTA
* *
487307 GCCTTGAATCAGCATATTAGCGCCTTTGTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGC
1 GCCTTGAATCAGCATATTGGCACCTTTG---TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGC
487372 ACATTGGCACCTTTAAGTCCAATATCGCTG
63 ACATTGGCACCTTTAAGTCCAATATCGCTG
487402 GCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACA
1 GCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACA
* *
487467 TTGACACCTTTAAGTCCAATATCGCTA
66 TTGGCACCTTTAAGTCCAATATCGCTG
*
487494 GCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACA
1 GCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACA
*
487558 TTGGCACCTTCATCTTTAAGTCCAATGTCGCTG
66 TTGGCA----C--CTTTAAGTCCAATATCGCTG
* * * * *
487591 GCCTTGAATCAGCACATTGGCA------TCCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
1 GCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACA
* *
487650 TTGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTG
66 TT---G-----G-CACCTTTAAGTCCAATATCGCTG
* * ** * * * *
487686 GCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATA
1 GCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACA
487751 TTGGCAC
66 TTGGCAC
487758 ATTCGTCATC
Statistics
Matches: 316, Mismatches: 19, Indels: 45
0.83 0.05 0.12
Matches are distributed among these distances:
91 44 0.14
92 122 0.39
93 1 0.00
95 69 0.22
97 39 0.12
98 1 0.00
100 1 0.00
101 39 0.12
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (92 bp):
GCCTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACA
TTGGCACCTTTAAGTCCAATATCGCTG
Found at i:487766 original size:101 final size:102
Alignment explanation
Indices: 487611--487809 Score: 319
Period size: 101 Copynumber: 2.0 Consensus size: 102
487601 AGCACATTGG
* * * **
487611 CATCCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTT-AAGTC
1 CATCCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTCGTCATCTTTAAAACC
487675 CAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTT
66 CAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTT
* *
487712 CATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACATTCGTCATCTTTAAAACC
1 CATCCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTCGTCATCTTTAAAACC
*
487777 CAATGTTGCTGGCCTTGAATCAGCACATTAGCA
66 CAATGTCGCTGGCCTTGAATCAGCACATTAGCA
487810 TTCTTTTCAT
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 54 0.61
102 35 0.39
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (102 bp):
CATCCTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTCGTCATCTTTAAAACC
CAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTT
Found at i:488564 original size:19 final size:19
Alignment explanation
Indices: 488540--488590 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
488530 TTTCAACGAT
488540 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
488559 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
488578 TTGTATCGATACA
1 TTGTATCGATACA
488591 ATGTATCGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:488732 original size:52 final size:52
Alignment explanation
Indices: 488676--488804 Score: 186
Period size: 52 Copynumber: 2.5 Consensus size: 52
488666 CACTGATCTT
* * *
488676 TGTATCGATACATGCACGCAAATTTGCCCAGATGTATCGATACAATATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCAATACAATATGAAA
** * *
488728 TGTATCGATACATATAGGCAAATTTGCCTAGATATATCAATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCAATACAATATGAAA
*
488780 TGTATCAATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
488805 TCATATTTCG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCAATACAATATGAAA
Found at i:492137 original size:55 final size:55
Alignment explanation
Indices: 492053--492162 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
492043 TTTCAAAACC
* *
492053 AGGAGGTTGTTTGATATAAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTT
1 AGGAGGTTGTTCGACATAAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTT
492108 AGGAGGTTGTTCGACATAAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTT
1 AGGAGGTTGTTCGACATAAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTT
492163 TTGACATCTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (55 bp):
AGGAGGTTGTTCGACATAAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTT
Found at i:492863 original size:55 final size:55
Alignment explanation
Indices: 492779--492888 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
492769 TTTCAAAACC
*
492779 AGGAGGTTGTTCGACATAAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTT
1 AGGAGGTTCTTCGACATAAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTT
492834 AGGAGGTTCTTCGACATAAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTT
1 AGGAGGTTCTTCGACATAAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTT
492889 TTGACATCTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (55 bp):
AGGAGGTTCTTCGACATAAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTT
Found at i:492879 original size:726 final size:728
Alignment explanation
Indices: 491483--492941 Score: 2805
Period size: 726 Copynumber: 2.0 Consensus size: 728
491473 AACTTTAAGT
491483 CAAAACATTGCTAGTAAGGTACCGATTTCGGGCGTCGCGAGAAGGTTCGTACCTTTTTGCGCGTA
1 CAAAACATTGCTAGTAAGGTACCGATTTCGGGCGTCGCGAGAAGGTTCGTACCTTTTTGCGCGTA
491548 ACCAACTCCCGAACCCAACTGGCGAATCTCTAAAGTACATAGACCACGGGATCGATGTTTTGAGT
66 ACCAACTCCCGAACCCAACTGGCGAATCTCTAAAGTACATAGACCACGGGATCGATGTTTTGAGT
*
491613 TTCGTAACTCAAGACATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGC
131 TTCATAACTCAAGACATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGC
*
491678 GACTCCAAAATTTCAGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGTGATTCATCTAC
196 GACTCCAAAATTTCAGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTAC
491743 TGATCTTCCCCCTTTAATCAACATACTTTTCATCATACCATAAAAATCCCCAATCGCGAGGGATA
261 TGA--TTCCCCCTTTAATCAACATACTTTTCATCATACCATAAAAATCCCCAATCGCGAGGGATA
491808 TTAAGTCGAGCGCGCCTTATTTGCCCTATCACCGGGGTCGAGCGCACGTTACGACATTGTATAAT
324 TTAAGTCGAGCGCGCCTTATTTGCCCTATCACCGGGGTCGAGCGCACGTTACGACATTGTATAAT
491873 TAAAATATCTTTTCCTTTTGTTTTAATAAAAAGAATTTTATCAACATTTCCTCTATTAAAACCTT
389 TAAAATATCTTTTCCTTTTGTTTTAATAAAAAGAATTTTATCAACATTTCCTCTATTAAAACCTT
491938 TTTCTATTACAAATTTTGAAAGCCTTTCATACCAAGCTCGAGGAGGTTGTTTTAAACTATATAAA
454 TTTCTATTACAAATTTTGAAAGCCTTTCATACCAAGCTCGAGGAGGTTGTTTTAAACTATATAAA
* * *
492003 GCTTTTGAAAGTTTGAAAACATGATTTGGAAATAGAGGATTTTCAAAACCAGGAGGTTGTTTGAT
519 GCTTTTAAAAGTTTGAAAACATGATTTGGAAATAGAGGATTTTCAAAACCAGGAGGTTGTTCGAC
*
492068 ATAAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTTAGGAGGTTGTTCGACATAAACCTCT
584 ATAAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTTAGGAGGTTCTTCGACATAAACCTCT
492133 TCGTTAATAAAACCATTTAAAAAAGCACTTTTGACATCTATTTGATATAATTTGAAATCATAAAA
649 TCGTTAATAAAACCATTTAAAAAAGCACTTTTGACATCTATTTGATATAATTTGAAATCATAAAA
492198 ACATGTAAAGGCTAG
714 ACATGTAAAGGCTAG
*
492213 CAAAACATTGCTAGTAAGGTACCGATTTCGGGCGTCGTGAGAAGGTTCGTACCTTTTTGCGCGTA
1 CAAAACATTGCTAGTAAGGTACCGATTTCGGGCGTCGCGAGAAGGTTCGTACCTTTTTGCGCGTA
492278 ACCAACTCCCGAACCCAACTGGCGAATCTCTAAAGTACATAGACCACGGGATCGATGTTTTGAGT
66 ACCAACTCCCGAACCCAACTGGCGAATCTCTAAAGTACATAGACCACGGGATCGATGTTTTGAGT
492343 TTCATAACTCAAGACATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGC
131 TTCATAACTCAAGACATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGC
492408 GACTCCAAAATTTCAGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTAC
196 GACTCCAAAATTTCAGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTAC
492473 TGA-T-CCCCTTTAATCAACATACTTTTCATCATACCATAAAAATCCCCAATCGCGAGGGATATT
261 TGATTCCCCCTTTAATCAACATACTTTTCATCATACCATAAAAATCCCCAATCGCGAGGGATATT
* *
492536 AAGTCGAGCGTGCCTTATTTGCCCTATCGCCGGGGTCGAGCGCACGTTACGACATTGTATAATTA
326 AAGTCGAGCGCGCCTTATTTGCCCTATCACCGGGGTCGAGCGCACGTTACGACATTGTATAATTA
492601 AAATATCTTTTCCTTTTGTTTTAATAAAAAGAATTTTATCAACATTTCCTCTATTAAAACCTTTT
391 AAATATCTTTTCCTTTTGTTTTAATAAAAAGAATTTTATCAACATTTCCTCTATTAAAACCTTTT
492666 TCTATTACAAATTTTGAAAGCCTTTCATACCAAGCTCGAGGAGGTTGTTTTAAACTATATAAAGC
456 TCTATTACAAATTTTGAAAGCCTTTCATACCAAGCTCGAGGAGGTTGTTTTAAACTATATAAAGC
492731 TTTTAAAAGTTTGAAAACATGATTTGGAAATAGAGGATTTTCAAAACCAGGAGGTTGTTCGACAT
521 TTTTAAAAGTTTGAAAACATGATTTGGAAATAGAGGATTTTCAAAACCAGGAGGTTGTTCGACAT
492796 AAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTTAGGAGGTTCTTCGACATAAACCTCTTC
586 AAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTTAGGAGGTTCTTCGACATAAACCTCTTC
492861 GTTAATAAAACCATTTAAAAAAGCACTTTTGACATCTATTTGATATAATTTGAAATCATAAAAAC
651 GTTAATAAAACCATTTAAAAAAGCACTTTTGACATCTATTTGATATAATTTGAAATCATAAAAAC
492926 ATGTAAAGGCTAG
716 ATGTAAAGGCTAG
492939 CAA
1 CAA
492942 TATTCCAATA
Statistics
Matches: 720, Mismatches: 9, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
726 459 0.64
727 1 0.00
730 260 0.36
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (728 bp):
CAAAACATTGCTAGTAAGGTACCGATTTCGGGCGTCGCGAGAAGGTTCGTACCTTTTTGCGCGTA
ACCAACTCCCGAACCCAACTGGCGAATCTCTAAAGTACATAGACCACGGGATCGATGTTTTGAGT
TTCATAACTCAAGACATAGGTTTCAATAGGCATCCGATCATGCCTAGCCCGAAATGATCGGTGGC
GACTCCAAAATTTCAGTCACTTCGTAGTGACCATTGAAGATCAATTAGATGGGCGATTCATCTAC
TGATTCCCCCTTTAATCAACATACTTTTCATCATACCATAAAAATCCCCAATCGCGAGGGATATT
AAGTCGAGCGCGCCTTATTTGCCCTATCACCGGGGTCGAGCGCACGTTACGACATTGTATAATTA
AAATATCTTTTCCTTTTGTTTTAATAAAAAGAATTTTATCAACATTTCCTCTATTAAAACCTTTT
TCTATTACAAATTTTGAAAGCCTTTCATACCAAGCTCGAGGAGGTTGTTTTAAACTATATAAAGC
TTTTAAAAGTTTGAAAACATGATTTGGAAATAGAGGATTTTCAAAACCAGGAGGTTGTTCGACAT
AAACCTCTTCGTTAATAAAACCATTTAAAAAAGCACTTAGGAGGTTCTTCGACATAAACCTCTTC
GTTAATAAAACCATTTAAAAAAGCACTTTTGACATCTATTTGATATAATTTGAAATCATAAAAAC
ATGTAAAGGCTAG
Found at i:497431 original size:20 final size:19
Alignment explanation
Indices: 497406--497499 Score: 64
Period size: 20 Copynumber: 4.8 Consensus size: 19
497396 CTGCCAGTTT
**
497406 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
497426 CATGTATCAATACAATGAA
1 CATGTATCGATACAATGAA
* *
497445 TATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
* * *
497466 -ATGTATCAATACATCTGGA
1 CATGTATCGATACA-ATGAA
*
497485 TATGTATCGATACAA
1 CATGTATCGATACAA
497500 ACAAGGGTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 9
0.73 0.15 0.11
Matches are distributed among these distances:
19 17 0.29
20 39 0.67
21 2 0.03
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:499624 original size:12 final size:11
Alignment explanation
Indices: 499602--499677 Score: 61
Period size: 12 Copynumber: 6.9 Consensus size: 11
499592 AGAGAAAGAA
*
499602 GAGAGAGGAGG
1 GAGATAGGAGG
499613 GATGATAGGAGG
1 GA-GATAGGAGG
*
499625 AGAGACAGGA--
1 -GAGATAGGAGG
*
499635 GAGATAGTA-G
1 GAGATAGGAGG
499645 G-GATAGGAGG
1 GAGATAGGAGG
499655 GATGATAGGAGG
1 GA-GATAGGAGG
499667 AGAGATAGGAG
1 -GAGATAGGAG
499678 AGATAATAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
9 13 0.25
10 3 0.06
11 2 0.04
12 31 0.58
13 4 0.08
ACGTcount: A:0.38, C:0.01, G:0.50, T:0.11
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:499654 original size:42 final size:42
Alignment explanation
Indices: 499601--499710 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
499591 AAGAGAAAGA
*
499601 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAGT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
* * *
499643 AGGGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
*
499685 AGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGAGAGGAGGGATGATAGGAGGAG
499711 GAGAGAAGAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.40, C:0.02, G:0.48, T:0.10
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAAT
Found at i:499686 original size:12 final size:12
Alignment explanation
Indices: 499646--499691 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
499636 AGATAGTAGG
*
499646 GATAGGAGGGAT
1 GATAGGAGAGAT
499658 GATAGGAGGAGA-
1 GATAGGA-GAGAT
499670 GATAGGAGAGAT
1 GATAGGAGAGAT
*
499682 AATA-GAGAGA
1 GATAGGAGAGA
499692 GGAGGGATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 10 0.33
12 17 0.57
13 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.13
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:504736 original size:14 final size:13
Alignment explanation
Indices: 504720--504744 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
504710 TTCTTTTTCT
504720 TTTTATTTTTTTA
1 TTTTATTTTTTTA
504733 TTTTATTTTTTT
1 TTTTATTTTTTT
504745 CATGATATTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:504954 original size:11 final size:11
Alignment explanation
Indices: 504938--504962 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
504928 TAAAAGTTTC
504938 AAATTAAAATA
1 AAATTAAAATA
504949 AAATTAAAATA
1 AAATTAAAATA
504960 AAA
1 AAA
504963 ATTATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATTAAAATA
Found at i:504957 original size:30 final size:30
Alignment explanation
Indices: 504914--504983 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 30
504904 AAACTAGTTA
*
504914 AAAATAAAA-TAAAATAAAAGTT-TCAAATT
1 AAAATAAAATTAAAATAAAAATTAT-AAATT
504943 AAAATAAAATTAAAATAAAAATTATAAATT
1 AAAATAAAATTAAAATAAAAATTATAAATT
504973 ATAAATAAAAT
1 A-AAATAAAAT
504984 CTTAGAAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 9 0.24
30 18 0.49
31 10 0.27
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (30 bp):
AAAATAAAATTAAAATAAAAATTATAAATT
Found at i:504973 original size:7 final size:6
Alignment explanation
Indices: 504911--504983 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
504901 ATGAAACTAG
* *
504911 TTAAAA ATAAAA -TAAAA -TAAAA GTTTCAAA TTAAAA -TAAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA --TTAAAA TTAAAA TTAAAA TTAAAA
*
504958 TAAAAA TTATAAA TTATAAA -TAAAA T
1 TTAAAA TTA-AAA TTA-AAA TTAAAA T
504984 CTTAGAAATG
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
5 18 0.32
6 24 0.43
7 10 0.18
8 4 0.07
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (6 bp):
TTAAAA
Found at i:507248 original size:475 final size:475
Alignment explanation
Indices: 506047--513326 Score: 8538
Period size: 475 Copynumber: 15.3 Consensus size: 475
506037 TATAGTGGTC
* * *
506047 AATCA-CAATATAATTTCTCCTAATGA-G-GAATGTGCTTATAGTGCCTAATCACAAAATGAATG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* ** ** * * * *
506109 AAGATCCTTACTAGAATCCACATTTGGGTCATTTGAGGCATGAACTTAGACATTACTATAATTGG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
** * * * * *
506174 TAAGAAAAATGCCTTTCTTGTGAAACTAAAGCATCAAAATCATGTATCCCAAAT-AGAAGAACAT
131 TGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTAT-CCTAATGAGAAGAACAT
* * ** *
506238 TTTTATGGTGCCTAATCCTAAAAAGAATAAGGATTAGTATGAGCATTCATGTTTGTCTTATTTAA
195 GTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAA
*** * * *
506303 GAGACAAACTTTGATTCTATCAAAAATAATGGAAAGAAAAACTTTTCATGCGACACCAATGCATC
260 GAGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATC
* ** * * *
506368 AATGTCATGTATCCTATTGAAGGGAACATGTTTTAGGTTCCCAATCCTGAAAATAATGGGGACTG
325 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGACTG
* * * * ** *
506433 TTACGAGAATTGATGCATATCTTATTTAAGGGATGAACTATGATTTTAAGGAAAATAGCCCGAAG
390 TTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGC-AAA
506498 AAAAGATTTCCATGCAAAAGAA
454 AAAAGATTTCCATGCAAAAGAA
* * * ** * ** * *
506520 AATCATCAGTATCATTTATCCTAATGAGCAGGACATGTTTGTAGTGCCTGTTCATAAAATGAAAG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* * *
506585 -A-ATCGTTACTAGAATCCATGTTTGTCTCATTTAAGTCACGAACTTAGACTTTACAAAAATTGG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
* * * * *
506648 TGGGAAAAATGCCTTTCTTGTGAAACCAAAACATAAATATCATGTATCCTAATGAGAATATA-AT
131 TGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGA-ACAT
* * * * * * *
506712 GCTTATGGTGCCTAATCTTGAAAAAAATGAGGAATAGTGTGAGTATTCATGTTTGTCTTATTTGA
195 GTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAA
* * * *
506777 GAGACAAACTTTGATTCTATCAAAAACGGTGGAAACAAAAGCTTTTCCTGCGACACTAAAGCTTC
260 GAGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATC
* * * * * * * * * * * *
506842 AATGTCATTTATCCCATTGAAGGGACTATATTTTTGGCTCCCAATCTTTAAAAGAATTGAGATTA
325 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGACTG
* *
506907 TTACTAGAATCGATGCTTGTCTTATTTAGGGGATGAACTTTGATTTTATA-GAAAATAGGGCAAA
390 TTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTA-AGGAAAATAGGGCAAA
*
506971 AAAAAATTTCCATGCAAAAGAA
454 AAAAGATTTCCATGCAAAAGAA
* * * * *
506993 AATCATAAATATCATTTATCCTAATGAGGATAATGTGCTTATAGTGCCTAATCATAAAATGAATA
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* * * ** * *
507058 AAGATCAATACTATAATCCATGTCTAACTCATTCGAGGCCCGAACTTAGACTTTACAAAAATTGG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
** * * * * *
507123 TATGAAATATGCCTTTCTTGTGAAACCAAAGCGTCAATATCATGTATCCTAATGAGAAAAACATG
131 TGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACATG
* * * *
507188 TTTATGCTACCTAATCCTGAAAAAAATGGGGATTAGTATGAGTTTTCATGTTTGTCTTATTTAAG
196 TTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAG
* * * * * * *
507253 ATATAAACTTTGATTCCATCAAAAACAGTGGAAAGAAAAGCTTTTCTTGCAACACTAAAAGTATC
261 AGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACAC-CAAAGCATC
* * * * *
507318 AATGTCATGTATCTTATTGAAGGGACTGTGTATTT-GGCTT-CTAATCTTGAAAAGAATAGAGA-
325 AATGTCATGTATCCTAATGAAGGGAATGTGT-TTTAGG-TTCCCAATCTTGAAAAGAATGGAGAC
* *
507380 TCGTTACGAGAATCGATGCTTGTCTTATTT-AGGAGACGAACTTTGATTTTAAGGAAAATAAGGC
388 T-GTTACGAGAATCGATGCTTGTCTTATTTAAGG-GATGAACTTTGATTTTAAGGAAAATAGGGC
* * *
507444 GAAGAAAAGATTTCCATACAAAACAA
451 -AAAAAAAGATTTCCATGCAAAAGAA
* * *
507470 AATCATCAATAACATTTATCCTAATGA-G-GAATGTGCTTATAGTGGCTAATCACAAAATGAATG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* * * * * *
507533 AAGATCATTACTAGAATCCATGTTTGTCTCATTTAAGGTATGCACTTAGACTTTACAATAACTGG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
* *
507598 CGGGAAAAATGCCATTT-TTGCGAAACCAAAGCATCAATATCGTGTATCCTAAAT-AGAAAAACA
131 TGGGAAAAATGCC-TTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCT-AATGAGAAGAACA
* * * ** *
507661 TTTTTATGGTGCCTAATCCTAAAAAGAATAGGGATCGGTATGAGTATTCATGTTTGTTTTATTTA
194 TGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTA
* * * *
507726 AGAGACAAACTTTGATTCTGTCAAAAACAGTGGAAAGAAAAGATTTTCATGCGACACCAAAGCAT
259 AGAGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCAT
* * *
507791 CAATGTCATGTATCTTAATGAAGGGAATGTGTTTTAGGTTCCTAATCTTGAAAATAATGGAGACT
324 CAATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGACT
* * ** *
507856 GCTATGAGAATCGATGCTCATCTTATTTAAGGGATGAACTTTGATTATAAGGAAAATAGGGCAAA
389 GTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAA
507921 TAAAAGATTTCCATGCAAAAGAA
454 -AAAAGATTTCCATGCAAAAGAA
** * * *
507944 AATCATCAATATCACATCTCCTAATGA-G-GAATGTGCTTATAGTGCCTAATCACAAAACGAATG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* * *
508007 AAGATCATTACTAGAATTCATGTTTATCTCGTTTGAGGCACGAACTTAGACTTTACAAAAATTGG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
** * * *
508072 TCAGAAAAATGCCTTTCTTGCAAAACCAAAGCATCAATATCGTGTATTCTAATGACAAGAACATG
131 TGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACATG
* * * * *
508137 TTTATAGTGCCTAATCCTGAAAAGAATGGGGATTTGTATCAGTTTTCTTGTTTGTCTTATTTAAG
196 TTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAG
* * **
508202 AGACAAACTTTTATTCTATCAAAAATGGTGGAAAGAAAAGCTTTTCTTATGACACCAAAGCATCA
261 AGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCA
* * * * * * * * * **
508267 ATTTCAAGTATCCTAATGAAAGGAATGTGTTTTGGGTTCCCAAGCCTAAAAATATTAAAGACTGT
326 ATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGACTGT
* * * * *
508332 TACCAGAATCGATGCTTATCTTATTTAAGGGATGAACATTGATTTTAAAGAAAATAGGGAAAAAA
391 TACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAAA
** *
508397 AAGATTTCCAAACAAAAAAAA
456 AAGATTTCCATGC-AAAAGAA
* * * * * * * *
508418 AATTATCAGTATCATTTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAATAACAAAATAAAAG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
** * * * *
508483 TCGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTGGACTTTACAAAAAATGG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
* * * *
508548 TAGGAAAAATGCCTTTCTTGTGAAA-CAAAGCATCAATATCGCGTATCCTAATGAGAAGAACATT
131 TGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACATG
* * *
508612 TTTATGGTGCCTAATCCT-AAAAGGAATAGGGATTAGTATGAGTATTTATGTTTGTATTATTTAA
196 TTTATGGTGCCTAATCCTGAAAA-GAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAA
* * * *
508676 GAGACAAACTTTGATTCTATCAAAAACAGTGGAAAGAAAAGCTTCTCGTGTGACACCAAAGCATC
260 GAGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATC
*
508741 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAATAATGGAGACTG
325 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGACTG
* * * * * * *
508806 CTATGAGAATCAATGCTCGTCCTATTTAAGGGATGAACTTTGATTTTAAGAAAAATAGGGCTAAG
390 TTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGC-AAA
* *
508871 AAAAGATTTCTATACAAAAGAA
454 AAAAGATTTCCATGCAAAAGAA
* * ** *
508893 AATCGTCAATATCACTTATCCTAATGAAAAGACTGTGTTTATAGTGCCTAATCACAAAATGAATG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* * *
508958 AGGATCATTACTAGAATACGTGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
509023 TGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACATG
131 TGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACATG
* * *
509088 TTTATGGTGCCTAATCTTGAAAAGAATGGGGATTTGTACGAGTATTCATGTTTGTCTTATTTAAG
196 TTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAG
* * * * *
509153 AGA-AAA-TTTGATTCCATCAAAAATGGTGGAAAGAAAAACCTTTCTTGTGACACCAAAGCATCA
261 AGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCA
* *** * *
509216 AT-TCATGTATCCTAATGAAGGGAAAGTGTTTTAGGTTCCCAATCCAAAAAATATTGGAGACTGT
326 ATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGACTGT
* * *
509280 TTCCAAAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAAA
391 TACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAAA
*
509345 AAGATTTCCAAGCAAAAGAA
456 AAGATTTCCATGCAAAAGAA
* ** * * * * *
509365 AATCATCAATATCATTTATCTTGTTTAGGAGAATTTGTTTATAGTGCCTAATAACAAAATAAAAG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* * * * * * *
509430 TCA-ATCCTTACTAGAATCCATGTTTGTCTTATTTGAGGCATGACCTTAGACATTACAAAAAATG
66 -AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTG
* * * *
509494 GTAGGAAAAATGCCTTTCTTGCAAAACCAAAGCATTAATATCGTGTATCCTAATGAGAAGACCAT
130 GTGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACAT
*
509559 GTTTATGGTGCCTAAT-CTAGAAAAGAATGGGGA-TAGGTATGAGTATTCATGTTTGTATTATTT
195 GTTTATGGTGCCTAATCCT-GAAAAGAATGGGGATTA-GTATGAGTATTCATGTTTGTCTTATTT
* * * * *
509622 AAGAGACAAACTCTGATTCTCTCAAAAACGGTGGAATGAAAAAC-TTTCTTGTGACACCAAAGCA
258 AAGAGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCA
* * * ** * *
509686 TCAATGTCATGTAACCTAATGAAGGGAATATGTTTTAGGTTCCTAATCCAGAAAAAAATGGAGAT
323 TCAATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGAC
* ** * *
509751 TGATACGAGAATCGATGCTCATCTTATTTAAAGGATGAACTTTG-TTTATAAGGAAAATAGGGTA
388 TGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTT-TAAGGAAAATAGGGCA
** *
509815 AAGAAAATTTTTTCATGCAAAAGAA
452 AA-AAAAGATTTCCATGCAAAAGAA
* * * * *
509840 AATCATCAATACCATTTATCCGAATAAGGAGAATGAGCTTATAGTGCCTAATCACAAAATGAATG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* *
509905 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGACACGAACTTAGACTTTACAATAATTGG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
* * * * * **
509970 TGGGAAAAATACCTTTCTTGCGAAACGAAAACATCAGTAACACGTATCCTAATGAGAAG-ACTAT
131 TGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAAC-AT
* ** ** *
510034 GTTTATGGTGCCTAATCTTGAAAAGAATGGGGATTAGTATGACAATTTGTGTTTGCCTTATTTAA
195 GTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAA
* * * ** * * * * * * *
510099 GAGCCAAACTTTCATTCCATCAAAAACTATAGAAAAAAAAGCGTTTCTTACGATATCGAAGCATC
260 GAGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATC
* * * * * * * * * * *
510164 GATATCATATATCCTATTGGAGGGAATGTGTTTTTGGATCCCAATCTTCAAATGAATGGGGATTG
325 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGACTG
* * * *
510229 TTACGAGAATTGATGCTTGCCTTATTTAAGGGATGCACTTTGATTTTAAGGTAAATAGGGCAAAG
390 TTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAA-
510294 AAAAGATTTCCATGCAAAAGAA
454 AAAAGATTTCCATGCAAAAGAA
* * * ** * *
510316 AATCGTCAATATCACTTATCCAAATGAAAAGAGTGTGTTTAGAGT-CCTAATCACAAAATGAATG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* ** * * *
510380 AGGATTGTTACTAGACTACATGTTTGTCTCATTTGAGGGACGAACTTAGACTTTGA-AAAAATTG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTT-ACAAAAATTG
*
510444 GTGGGAAAAATGCCTTTCTTGTGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACAT
130 GTGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACAT
* * * *
510509 GTTTATGGTGCCTAATCCTAAAAAGAACGAGGATTTGTATGAGTATTCATGTTTGTCTTATTTAA
195 GTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAA
* * *** * * * *
510574 GAGACAAAATTTGATTATATCAAAAACAAAGGAAAGAAAAGCTTTTCTAGCGACACTAAAACGTC
260 GAGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATC
* * * *
510639 AATGTCATGTACCCTAATGAAGGGAATGCGTTTTAGGTTCCCAATCTTGAAAATATTGGAGACTG
325 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGACTG
* * * * *
510704 TTTCCAGAATCAATGCTTGTCTTATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAC
390 TTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAA
*
510769 AAAGATTTCCAAGCAAAAGAA
455 AAAGATTTCCATGCAAAAGAA
* * ** * * * * *
510790 AATCGTCAATATCATTTATCTTGTTTAGGAGAATTTGTTTATAGTGCCTAATAACAAAATAAAAG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
** * * * * * *
510855 TCGATCCTTACTAGAATCCATGTTTGTCTCATATGAGGCATGCACTTAGACATTACAAAAAATGG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
* * **
510920 TAGGAAAAATGCCTTTCTTGCGAAACCAAAGAATCAATATCGTGTATCCTAATGAGAAGGCCATG
131 TGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACATG
* *
510985 TTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGGATGAGTATTCATGTTTGTCTTCTTTAAG
196 TTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAG
* *
511050 AGACAAACTTTGATTCTCTCAAAAATGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCA
261 AGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCA
* * * * *
511115 ATGTCATGTAACCTAATGAAGGGAATATGTTTTAGGCTCCCAATCTAT-AAAATAATGGAGATTG
326 ATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCT-TGAAAAGAATGGAGACTG
* * *
511179 ATACGAGAATCGATGCTCGTCTTATTTAAGGGATGAACTTTG-TTTATAAGGAAAATAGGGTAAA
390 TTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTT-TAAGGAAAATAGGGCAAA
**
511243 GAAAATTTTTCCATGCAAAAGAA
454 -AAAAGATTTCCATGCAAAAGAA
* * * * *
511266 AATCTTCAATACCACTTATCCTAATGAGGAGAATGAGCTTATAGTGCCTAATCACAAAATGAATG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* * * * *
511331 AAGATCATTACTAGAATCCATGTTTTTCTCATATAAGACACGAACTTAGACTTTACAATAATTGG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
* * * *
511396 TGCGAAAAATGCCTTTATTGCGAAACCAAAACATCAGTAAT-GTGTATCCTAATGAGAAG-ACTA
131 TGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAAT-ATCGTGTATCCTAATGAGAAGAAC-A
* * * ** *
511459 TGTTTGTGGTGCCTAATCTTGAAAAGAATGGGGATTAGTTTGACAATTCGTGTTTGTCTTATTTA
194 TGTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTA
* * * ** * * * *
511524 AGAG-CTAAGCTTTGATTCCATTAAAAACTATAGGAAA-AAAAGCATTTCTTACGATACCGAAGC
259 AGAGAC-AAACTTTGATTCTATCAAAAACGGT-GGAAAGAAAAGCTTTTCTTGCGACACCAAAGC
* * * * * * * *
511587 ATCGATATCATATATCCTATTGGAGGGAGTGTGTTTTTGGATCCCAATCTT-AAAATGAATGG-G
322 ATCAATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAA-GAATGGAG
* * * * *
511650 ATTGTTACGAGAATCGATGCTTGCCTTATTTAAAGGATGCACTTTGATTTTAAGGTAAATAGGGC
386 ACTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGC
511715 AAAGAAAAGATTTCCATGCAAAAGAA
451 AAA-AAAAGATTTCCATGCAAAAGAA
* * * ** ** ** *
511741 AATCGTCAATATCACTTATCCGAATGAAAAGGCTGTGTTTGGAGT-CCTAATCACAAAATGAACG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* * * * * * *
511805 AGGATCGTTACTAGACTACGTGTTTGCCTTATTTGAGAG-ACGAACTTAGACTTTACAAAAATTG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAG-GCACGAACTTAGACTTTACAAAAATTG
**
511869 GTGGG-AAAATGCCTTTCTTATGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACAT
130 GTGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACAT
* * * *
511933 GTTTGTGGTGCCTAATCCTAAAAAGAATGGGGATTTGTATGAGTATTCATGTTTGTCTAATTTAA
195 GTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAA
* * *
511998 GAGACAAACTTTGATTCTATCAAAAACGGAGGAAAGAAAAGCTTTTCTTGCGGCACTAAAGCATC
260 GAGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATC
* ** * *
512063 AATGTCATGTATCCTAATGAAGGGAATGCGTTTTAGGTTCCCAATCCAGAAAATATTGGAGACTG
325 AATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGACTG
* *
512128 TTACCAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAAGGCAAAA
390 TTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAA
* *
512193 AAAGATTTCGAAGCAAAAGAA
455 AAAGATTTCCATGCAAAAGAA
* * * * * *
512214 AATCATCAATATCATTTATCCTATTCAGGAGAATTTGTTTATAGTGCCTAATAACAAAATAAAAG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
** * *
512279 TCGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACATTACAGAAAA-TG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACA-AAAATTG
* * * * *
512343 GTAGGAAAAATGCCATTCTTGCAAAACCACAGCATCAATATCGTGTATCCTAATGAGAAGACCAT
130 GTGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACAT
* * * *
512408 GTTTATGGTGTCTAATCATAAAAAGAATGGGGATTAGTATGAGTATTCATGTTTATCTTATTTAA
195 GTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAA
* * *
512473 GAGACAAACTTTGATTCTCTTAAAAATGGTGGAAAG-AAAGCTTTTCTTGC-AGCACCAAAGCAT
260 GAGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGA-CACCAAAGCAT
* * * * * **
512536 CAATGCCATATATCCTAATGAAGGTAATGTGTTTTAAGTTCCCAATCCTGAAACTAATGGAGACT
324 CAATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGACT
* ** * *
512601 GCTACGAGAATCGATGCTCATCTTATTTAAAGGATGAACTTTG-TTTATAAGGAAAATAGGTCAA
389 GTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTT-TAAGGAAAATAGGGCAA
** *
512665 AGAAAATTTTTGCATGCAAAAGAA
453 A-AAAAGATTTCCATGCAAAAGAA
* * * * * *
512689 AATGATTAATACCATTTATCCTAACGAGGAGAATGAGCTTATAGTGCCTAATCACAAAATGAATG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* * *
512754 AAGATCATTACTAGAATCCATGTTTGTCACATTTGAGACACGAACTTAGACTTTACAATAATTGG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
* * * * * * *
512819 TGGG-AAAATGCCTTTCTTGCAAAACCAAAACATGAGTAACGCGTATCCTAATAAGAAG-ACTAT
131 TGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAAC-AT
* ** *
512882 GTTTATGGTGCCTAATCCTGAAAAGAATGGCGATTAGTATGACAATTCGTGTTTGTCTTATTTAA
195 GTTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAA
* * * * * * *
512947 GAGCCAAACTTTCATTCCATCAAAAACTGTGGAAA-AAAAGCATTTCTTACAACACCAAAGCATC
260 GAGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATC
* * * * * * * *
513011 AAAAATGTCATATATCCTATTAAAGGGAATGTGTTTTTGGATCCCAGTCTTGAAATGAATGGGGA
325 ---AATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGA
* * * *
513076 TTGTTATGACAATCGATGCTTGTCTTATTTAAGGGATCAACTTTGATTTTAAGGAAAATAGGGCA
387 CTGTTACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGC-
*
513141 AAAAAAAGATTTCCATACAAAAGAA
451 AAAAAAAGATTTCCATGCAAAAGAA
* * * ** * *
513166 AATCGTCAATATCACTTATCCTAGTGAAAAGACTGTGTTTATAGTGCCTAATCAGAAAATGAATG
1 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
* * * * *
513231 AGGATCATTACTAGAATACGTGTTTGTCTCATTTGAGGCACGAACATAAACTTTACAAAAATTGG
66 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
* * * * *
513296 TGGGAATATTGCTTTTCTTACAAAACCAAAG
131 TGGGAAAAATGCCTTTCTTGCGAAACCAAAG
513327 TGAAAGCTTA
Statistics
Matches: 5749, Mismatches: 975, Indels: 161
0.84 0.14 0.02
Matches are distributed among these distances:
471 2 0.00
472 255 0.04
473 499 0.09
474 1624 0.28
475 2191 0.38
476 855 0.15
477 296 0.05
478 27 0.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (475 bp):
AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
TGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAATATCGTGTATCCTAATGAGAAGAACATG
TTTATGGTGCCTAATCCTGAAAAGAATGGGGATTAGTATGAGTATTCATGTTTGTCTTATTTAAG
AGACAAACTTTGATTCTATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCA
ATGTCATGTATCCTAATGAAGGGAATGTGTTTTAGGTTCCCAATCTTGAAAAGAATGGAGACTGT
TACGAGAATCGATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAAA
AAGATTTCCATGCAAAAGAA
Found at i:509103 original size:158 final size:157
Alignment explanation
Indices: 506082--513012 Score: 1457
Period size: 158 Copynumber: 43.8 Consensus size: 157
506072 AGGAATGTGC
* * * * ** ** * *
506082 TTATAGTGCCTAATCACAAAATGAATGAAGATCCTTACTAGAATCCACATTTGGGTCATTTGAGG
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * * * * * *
506147 CATGAACTTAGACATTACTATAATTGGT--AAGAAAAATGCCTTTCTTGTGAAACTAAAGCATCA
66 CACGAACTTTGA-TTTACAAAAATTGGTGGAA-AAAAA-GCCTTTCTTGCGAAACCAAAGCATCA
* * *
506210 AAATCATGTATCCCAAAT-AGAAGAACATTT
128 ATATCATGTAT-CCTAATGAGAAGAACATGT
* * * * *
506240 TTATGGTGCCTAATC-CTAAAAAGAATAAGGATTAGTA-TGAGCATTCATGTTTGTCTTATTTAA
1 TTATGGTGCCTAATCAC-AAAATGAATGAGGATCATTACT-AGAATTCATGTTTGTCTTATTTAA
* ** * * * * *
506303 GAG-ACAAACTTTGATTCTATCAAAAA-TAATGGAAAGAAAAACTTTTCATGCGACACCAATGCA
64 G-GCACGAACTTTGATT-TA-CAAAAATTGGTGGAAA-AAAAGCCTTTCTTGCGAAACCAAAGCA
* * *
506366 TCAATGTCATGTATCCTATTGA-AGGGAACATGT
125 TCAATATCATGTATCCTAATGAGA-AGAACATGT
* * * * * * ** *
506399 TT-TAGGTTCCCAATC-CTGAAAAT-AATGGGGA-CTGTTACGAGAATTGATGCATATCTTATTT
1 TTAT-GGTGCCTAATCAC--AAAATGAATGAGGATC-ATTACTAGAATTCATGTTTGTCTTATTT
* * * * *** * * * * ** *
506460 AAGGGATGAACTATGATTTTA-AGGAAAATAGCCCGAAGAAAAG-ATTTCCATGCAAAAGAAAAT
62 AAGGCACGAACTTTGA-TTTACA--AAAATTGGTGGAAAAAAAGCCTTT-CTTGCGAAACCAAAG
* * * *
506523 CATCAGTATCATTTATCCTAATGAGCAGGACATGT
123 CATCAATATCATGTATCCTAATGAGAAGAACATGT
* * ** * * * * * *
506558 TTGTAGTGCCTGTTCATAAAATGAA--AGAATCGTTACTAGAATCCATGTTTGTCTCATTTAAGT
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * * * * *
506621 CACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCTTTCTTGTGAAACCAAAACATAAAT
66 CACGAACTTTGA-TTTACAAAAATTGGTGGAAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAAT
* *
506686 ATCATGTATCCTAATGAGAATATA-ATGC
130 ATCATGTATCCTAATGAGAAGA-ACATGT
** * * * * *
506714 TTATGGTGCCTAATCTTGAAAA-AAATGAGGAAT-AGT-GTGAGTATTCATGTTTGTCTTATTTG
1 TTATGGTGCCTAATC-ACAAAATGAATGAGG-ATCATTACT-AGAATTCATGTTTGTCTTATTTA
* * * * * *
506776 AGAG-ACAAACTTTGATTCTATCAAAAA-CGGTGGAAACAAAAGCTTTTCCTGCGACACTAAAGC
63 AG-GCACGAACTTTGATT-TA-CAAAAATTGGTGGAAA-AAAAGCCTTTCTTGCGAAACCAAAGC
* * * * * * * *
506839 TTCAATGTCATTTATCCCATTGA-AGGGACTATAT
124 ATCAATATCATGTATCCTAATGAGAAGAAC-ATGT
* * ** * *
506873 TTTTGGCT-CCCAATCTTTAAAA-GAATTGA-GATTATTACTAGAA-TCGATGCTTGTCTTATTT
1 TTATGG-TGCCTAATC-ACAAAATGAA-TGAGGATCATTACTAGAATTC-ATGTTTGTCTTATTT
* * * * * * ** * * ** *
506934 AGGGGATGAACTTTGATTTTATAGAAAATAGG-GCAAAAAAA-AATTTCCATGCAAAAGAAAATC
62 AAGGCACGAACTTTGA-TTTACA-AAAATTGGTGGAAAAAAAGCCTTT-CTTGCGAAACCAAAGC
* * * * ** *
506997 ATAAATATCATTTATCCTAATGAGGATAATGTGC
124 ATCAATATCATGTATCCTAATGAGAAGAACATGT
* * * * * * * * ** * **
507031 TTATAGTGCCTAATCATAAAATGAATAAAGATCAATACTATAATCCATGTCTAACTCATTCGAGG
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * * * * * *
507096 CCCGAACTTAGACTTTACAAAAATTGGTATG-AAATATGCCTTTCTTGTGAAACCAAAGCGTCAA
66 CACGAACTTTGA-TTTACAAAAATTGGT-GGAAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAA
*
507160 TATCATGTATCCTAATGAGAAAAACATGT
129 TATCATGTATCCTAATGAGAAGAACATGT
* * * * * * **
507189 TTATGCTACCTAATC-CTGAAAA-AAATGGGGATTAGTA-TGAGTTTTCATGTTTGTCTTATTTA
1 TTATGGTGCCTAATCAC--AAAATGAATGAGGATCATTACT-AGAATTCATGTTTGTCTTATTTA
** ** * ** * *
507251 AGATATAAACTTTGATTCCATCAAAAA-CAGTGGAAAGAAAAGCTTTTCTTGC-AACACTAAAAG
63 AGGCACGAACTTTGATT-TA-CAAAAATTGGTGGAAA-AAAAGCCTTTCTTGCGAA-AC-CAAAG
* * * * * *
507314 TATCAATGTCATGTATCTTATTGA-AGGGAC-TGT
123 CATCAATATCATGTATCCTAATGAGAAGAACATGT
* * ** * * *
507347 GTATTTGGCT-TCTAATCTTGAAAA-GAAT-AGAGATCGTTACGAGAA-TCGATGCTTGTCTTAT
1 -T-TATGG-TGCCTAATC-ACAAAATGAATGAG-GATCATTACTAGAATTC-ATGTTTGTCTTAT
* * * * * * * * *
507408 TT-AGGAGACGAACTTTGATTTTA-AGGAAAATAAGG-CGAAGAAAAG-ATTTCCATACAAAACA
60 TTAAGG-CACGAACTTTGA-TTTACA--AAAAT-TGGTGGAAAAAAAGCCTTT-CTTGCGAAACC
* * * ** *
507469 AAATCATCAATAACATTTATCCTAATGAG--GAATGTGC
119 AAAGCATCAATATCATGTATCCTAATGAGAAGAACATGT
* * * * *
507506 TTATAGTGGCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTAAGG
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * * * * * * * *
507571 TATGCACTTAGACTTTACAATAACTGGCGGGAAAAATGCCATTT-TTGCGAAACCAAAGCATCAA
66 CACGAACTTTGA-TTTACAAAAATTGGTGGAAAAAAAGCC-TTTCTTGCGAAACCAAAGCATCAA
* * *
507635 TATCGTGTATCCTAAAT-AGAAAAACATTT
129 TATCATGTATCCT-AATGAGAAGAACATGT
* ** * *
507664 TTATGGTGCCTAATC-CTAAAAAGAAT-AGGGATCGGTA-TGAGTATTCATGTTTGTTTTATTTA
1 TTATGGTGCCTAATCAC-AAAATGAATGA-GGATCATTACT-AGAATTCATGTTTGTCTTATTTA
* * ** ** * *
507726 AGAG-ACAAACTTTGATTCTGTCAAAAA-CAGTGGAAAGAAAAGATTTTCATGCGACACCAAAGC
63 AG-GCACGAACTTTGATT-T-ACAAAAATTGGTGGAAA-AAAAGCCTTTCTTGCGAAACCAAAGC
* * * *
507789 ATCAATGTCATGTATCTTAATGA-AGGGA-ATGT
124 ATCAATATCATGTATCCTAATGAGAAGAACATGT
* * ** * **
507821 GTTTTAGGTTCCTAATCTTGAAAAT-AATG-GAGA-C-TGCTA-TGAGAA-TCGATGCTCATCTT
1 -TTAT-GGTGCCTAATC-ACAAAATGAATGAG-GATCAT--TACT-AGAATTC-ATGTTTGTCTT
* * * * * * * *
507880 ATTTAAGGGATGAACTTTGATTATA-AGGAAAATAGG-GCAAATAAAAG-ATTTCCATGCAAAAG
58 ATTTAAGGCACGAACTTTGATT-TACA--AAAATTGGTGGAAA-AAAAGCCTTT-CTTGCGAAAC
* * ** * ** *
507942 AAAATCATCAATATCACATCTCCTAATGAG--GAATGTGC
118 CAAAGCATCAATATCATGTATCCTAATGAGAAGAACATGT
* * * * ** *
507980 TTATAGTGCCTAATCACAAAACGAATGAAGATCATTACTAGAATTCATGTTTATCTCGTTTGAGG
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * * *
508045 CACGAACTTAGACTTTACAAAAATTGGT-CAGAAAAATGCCTTTCTTGCAAAACCAAAGCATCAA
66 CACGAACTTTGA-TTTACAAAAATTGGTGGA-AAAAAAGCCTTTCTTGCGAAACCAAAGCATCAA
* * *
508109 TATCGTGTATTCTAATGACAAGAACATGT
129 TATCATGTATCCTAATGAGAAGAACATGT
* * * ** *
508138 TTATAGTGCCTAATC-CTGAAAA-GAATGGGGAT-TTGTA-TCAGTTTTCTTGTTTGTCTTATTT
1 TTATGGTGCCTAATCAC--AAAATGAATGAGGATCAT-TACT-AGAATTCATGTTTGTCTTATTT
* * * ** *
508199 AAGAG-ACAAACTTTTATTCTATCAAAAA-TGGTGGAAAGAAAAGCTTTTCTTATGACACCAAAG
62 AAG-GCACGAACTTTGATT-TA-CAAAAATTGGTGGAAA-AAAAGCCTTTCTTGCGAAACCAAAG
* * *
508262 CATCAATTTCAAGTATCCTAATGA-AAGGA-ATGT
123 CATCAATATCATGTATCCTAATGAGAAGAACATGT
* * * * * * * * * * *
508295 GTTTTGGGTTCCCAAGC-CTAAAAAT-ATTAAAGA-CTGTTACCAGAA-TCGATGCTTATCTTAT
1 -TTAT-GGTGCCTAATCAC--AAAATGAATGAGGATC-ATTACTAGAATTC-ATGTTTGTCTTAT
* * * * * * * *** * **
508356 TTAAGGGATGAACATTGATTTTAAAGAAAATAGG-GAAAAAAAAG-ATTTCCAAACAAAAAAAAA
60 TTAAGGCACGAACTTTGA-TTTACA-AAAATTGGTGGAAAAAAAGCCTTT-CTTGC-GAAACCAA
** * * * * * **
508419 ATTATCAGTATCATTTATCCTATTTAGGAGAATTTGT
121 AGCATCAATATCATGTATCCTAATGAGAAGAACATGT
* * * * ** * * * *
508456 TTATAGTGCCTAATAACAAAATAAAAGTCGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGG
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * * * *
508521 CATGAACTTGGACTTTACAAAAAATGGTAGG-AAAAATGCCTTTCTTGTGAAA-CAAAGCATCAA
66 CACGAACTTTGA-TTTACAAAAATTGGT-GGAAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAA
** *
508584 TATCGCGTATCCTAATGAGAAGAACATTT
129 TATCATGTATCCTAATGAGAAGAACATGT
* * * * * *
508613 TTATGGTGCCTAATC-CTAAAAGGAAT-AGGGATTAGTA-TGAGTATTTATGTTTGTATTATTTA
1 TTATGGTGCCTAATCAC-AAAATGAATGA-GGATCATTACT-AGAATTCATGTTTGTCTTATTTA
* ** * * *
508675 AGAG-ACAAACTTTGATTCTATCAAAAA-CAGTGGAAAGAAAAG-CTTCTCGTGTGACACCAAAG
63 AG-GCACGAACTTTGATT-TA-CAAAAATTGGTGGAAA-AAAAGCCTT-TCTTGCGAAACCAAAG
* * *
508737 CATCAATGTCATGTATCCTAATGA-AGGGA-ATGT
123 CATCAATATCATGTATCCTAATGAGAAGAACATGT
* * * ** * * *
508770 GTTTTAGGTTCCCAATCTTGAAAAT-AATG-GAGA-C-TGCTA-TGAGAA-TCAATGCTCGTCCT
1 -TTAT-GGTGCCTAATC-ACAAAATGAATGAG-GATCAT--TACT-AGAATTC-ATGTTTGTCTT
* * * * * * * * * **
508829 ATTTAAGGGATGAACTTTGATTTTAAGAAAAATAGG-GCTAAGAAAAG-ATTTCTATACAAAAGA
58 ATTTAAGGCACGAACTTTGA-TTT-ACAAAAATTGGTG-GAAAAAAAGCCTTTCT-TGCGAAACC
* * * *
508892 AAATCGTCAATATCACT-TATCCTAATGAAAAG-ACTGTGT
119 AAAGCATCAATATCA-TGTATCCTAATGAGAAGAAC-ATGT
* * * * *
508931 TTATAGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATACGTGTTTGTCTCATTTGAGG
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * *
508996 CACGAACTTAGACTTTACAAAAATTGGTGGGAAAAATGCCTTTCTTGCGAAACCAAAGCATCAAT
66 CACGAACTTTGA-TTTACAAAAATTGGTGGAAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAAT
*
509061 ATCGTGTATCCTAATGAGAAGAACATGT
130 ATCATGTATCCTAATGAGAAGAACATGT
** * * * *
509089 TTATGGTGCCTAATCTTGAAAA-GAATGGGGAT-TTGTACGAGTATTCATGTTTGTCTTATTTAA
1 TTATGGTGCCTAATC-ACAAAATGAATGAGGATCAT-TACTAGAATTCATGTTTGTCTTATTTAA
* * * * *
509152 -G-A-GAAAATTTGATTCCATCAAAAA-TGGTGGAAAGAAAAACCTTTCTTGTGACACCAAAGCA
64 GGCACG-AACTTTGATT-TA-CAAAAATTGGTGGAAA-AAAAGCCTTTCTTGCGAAACCAAAGCA
*
509213 TCAAT-TCATGTATCCTAATGA-AGGGAA-AGTGT
125 TCAATATCATGTATCCTAATGAGA-AGAACA-TGT
* * * * * * * * *
509245 TT-TAGGTTCCCAATCCAAAAAAT-ATTG-GAGA-CTGTTTCCA-AAATCGATGCTTGTCTTATT
1 TTAT-GGTGCCTAAT-CACAAAATGAATGAG-GATC-ATTACTAGAATTC-ATGTTTGTCTTATT
* * * * * ** * **
509305 TAAGGGATGAACTTTGATTTTA-AGGAAAATAGG-GCAAAAAAAG-ATTTCCAAGCAAAAGAAAA
61 TAAGGCACGAACTTTGA-TTTACA--AAAATTGGTGGAAAAAAAGCCTTT-CTTGCGAAACCAAA
* * * ** * * **
509367 TCATCAATATCATTTATCTTGTTTAGGAGAATTTGT
122 GCATCAATATCATGTATCCTAATGAGAAGAACATGT
* * * * *** * * *
509403 TTATAGTGCCTAATAACAAAATAAAAGTCAATCCTTACTAGAATCCATGTTTGTCTTATTTGAGG
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * * * * * * *
509468 CATGACCTTAGACATTACAAAAAATGGTAGG-AAAAATGCCTTTCTTGCAAAACCAAAGCATTAA
66 CACGAACTTTGA-TTTACAAAAATTGGT-GGAAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAA
* *
509532 TATCGTGTATCCTAATGAGAAGACCATGT
129 TATCATGTATCCTAATGAGAAGAACATGT
* * * * *
509561 TTATGGTGCCTAATCTAGAAAA-GAATGGGGAT-AGGTA-TGAGTATTCATGTTTGTATTATTTA
1 TTATGGTGCCTAATC-ACAAAATGAATGAGGATCA-TTACT-AGAATTCATGTTTGTCTTATTTA
* * * * * *
509623 AGAG-ACAAACTCTGATTCTCTCAAAAA-CGGTGGAATGAAAAA--CTTTCTTGTGACACCAAAG
63 AG-GCACGAACTTTGATT-T-ACAAAAATTGGTGGAA--AAAAAGCCTTTCTTGCGAAACCAAAG
* * * *
509684 CATCAATGTCATGTAACCTAATGA-AGGGAATATGT
123 CATCAATATCATGTATCCTAATGAGA-AGAACATGT
* ** * * * **
509719 TT-TAGGTTCCTAATC-CAGAAAAAAATG-GAGATTGA-TACGAGAA-TCGATGCTCATCTTATT
1 TTAT-GGTGCCTAATCACA-AAATGAATGAG-GA-TCATTACTAGAATTC-ATGTTTGTCTTATT
* * * * *** * * **
509779 TAAAGG-ATGAACTTTG-TTTATAAGGAAAATAGG-GTAAAGAAAATTTTTTCATGCAAAAGAAA
61 T-AAGGCACGAACTTTGATTTA-CA--AAAATTGGTGGAAA-AAAAGCCTTTCTTGCGAAACCAA
* * * * * * * *
509841 ATCATCAATACCATTTATCCGAATAAGGAGAATGA-GC
121 AGCATCAATATCATGTATCCTAATGAGAAGAA-CATGT
* * * * * *
509878 TTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGA
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * * * * *
509943 CACGAACTTAGACTTTACAATAATTGGTGGGAAAAATA-CCTTTCTTGCGAAACGAAAACATCAG
66 CACGAACTTTGA-TTTACAAAAATTGGT-GGAAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAA
* *
510007 TAACACGTATCCTAATGAGAAG-ACTATGT
129 TATCATGTATCCTAATGAGAAGAAC-ATGT
** * * * * ** *
510036 TTATGGTGCCTAATCTTGAAAA-GAATGGGGATTAGTA-TGACAATTTGTGTTTGCCTTATTTAA
1 TTATGGTGCCTAATC-ACAAAATGAATGAGGATCATTACT-AGAATTCATGTTTGTCTTATTTAA
* * * * * * * * * * *
510099 GAGC-CAAACTTTCATTCCATCAAAAACT-ATAGAAAAAAAAGCGTTTCTTACGATATCGAAGCA
64 G-GCACGAACTTTGATT-TA-CAAAAATTGGT-GGAAAAAAAGCCTTTCTTGCGAAACCAAAGCA
* * * * **
510162 TCGATATCATATATCCTATTG-GAGGGAATGTGT
125 TCAATATCATGTATCCTAATGAGA-AGAACATGT
* * * * ** * * * *
510195 TTTTGGAT-CCCAATCTTC-AAATGAATGGGGATTGTTACGAGAATTGATGCTTGCCTTATTTAA
1 TTATGG-TGCCTAATC-ACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAA
* * * * * * * * * ** *
510258 GGGATGCACTTTGATTTTA-AGGTAAATAGG-GCAAAGAAAAG-ATTTCCATGCAAAAGAAAATC
64 GGCACGAACTTTGA-TTTACA--AAAATTGGTGGAAA-AAAAGCCTTT-CTTGCGAAACCAAAGC
* * * ***
510320 GTCAATATCACT-TATCCAAATGAAAAGAGTGTGT
124 ATCAATATCA-TGTATCCTAATGAGAAGAACATGT
** * * * *
510354 TTA-GAGT-CCTAATCACAAAATGAATGAGGATTGTTACTAGACTACATGTTTGTCTCATTTGAG
1 TTATG-GTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAG
* * * * *
510417 GGACGAACTTAGACTTTGA-AAAAATTGGTGGGAAAAATGCCTTTCTTGTGAAACCAAAGCATCA
65 GCACGAACTTTGA-TTT-ACAAAAATTGGTGGAAAAAAAGCCTTTCTTGCGAAACCAAAGCATCA
*
510481 ATATCGTGTATCCTAATGAGAAGAACATGT
128 ATATCATGTATCCTAATGAGAAGAACATGT
* * * *
510511 TTATGGTGCCTAATC-CTAAAAAGAACGAGGAT-TTGTA-TGAGTATTCATGTTTGTCTTATTTA
1 TTATGGTGCCTAATCAC-AAAATGAATGAGGATCAT-TACT-AGAATTCATGTTTGTCTTATTTA
* * **** * * * * *
510573 AGAG-ACAAAATTTGATTATATCAAAAA-CAAAGGAAAGAAAAGCTTTTCTAGCGACACTAAAAC
63 AG-GCACGAACTTTGATT-TA-CAAAAATTGGTGGAAA-AAAAGCCTTTCTTGCGAAACCAAAGC
* * * * *
510636 GTCAATGTCATGTACCCTAATGA-AGGGA-ATGCGT
124 ATCAATATCATGTATCCTAATGAGAAGAACAT--GT
* * ** * * * * *
510670 TT-TAGGTTCCCAATCTTGAAAAT-ATTG-GAGA-CTGTTTCCAGAA-TCAATGCTTGTCTTATT
1 TTAT-GGTGCCTAATC-ACAAAATGAATGAG-GATC-ATTACTAGAATTC-ATGTTTGTCTTATT
* * * * * ** * **
510730 TAAAGG-ATGAACTTTGATTTTA-AGGAAAATAGG-GCAAACAAAG-ATTTCCAAGCAAAAGAAA
61 T-AAGGCACGAACTTTGA-TTTACA--AAAATTGGTGGAAAAAAAGCCTTT-CTTGCGAAACCAA
* * * * ** * * **
510791 ATCGTCAATATCATTTATCTTGTTTAGGAGAATTTGT
121 AGCATCAATATCATGTATCCTAATGAGAAGAACATGT
* * * * ** * * * * *
510828 TTATAGTGCCTAATAACAAAATAAAAGTCGATCCTTACTAGAATCCATGTTTGTCTCATATGAGG
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * * * * * *
510893 CATGCACTTAGACATTACAAAAAATGGTAGG-AAAAATGCCTTTCTTGCGAAACCAAAGAATCAA
66 CACGAACTTTGA-TTTACAAAAATTGGT-GGAAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAA
* **
510957 TATCGTGTATCCTAATGAGAAGGCCATGT
129 TATCATGTATCCTAATGAGAAGAACATGT
* * ** * *
510986 TTATGGTGCCTAATC-CTGAAAA-GAATGGGGATTAGGA-TGAGTATTCATGTTTGTCTTCTTTA
1 TTATGGTGCCTAATCAC--AAAATGAATGAGGATCATTACT-AGAATTCATGTTTGTCTTATTTA
* * * *
511048 AGAG-ACAAACTTTGATTCTCTCAAAAA-TGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGC
63 AG-GCACGAACTTTGATT-T-ACAAAAATTGGTGGAAA-AAAAGCCTTTCTTGCGAAACCAAAGC
* * * *
511111 ATCAATGTCATGTAACCTAATGA-AGGGAATATGT
124 ATCAATATCATGTATCCTAATGAGA-AGAACATGT
* * * * * *
511145 TT-TAGGCT-CCCAATCTATAAAAT-AATG-GAGATTGA-TACGAGAA-TCGATGCTCGTCTTAT
1 TTAT-GG-TGCCTAATC-ACAAAATGAATGAG-GA-TCATTACTAGAATTC-ATGTTTGTCTTAT
* * * * * ** * * **
511204 TTAAGGGATGAACTTTG-TTTATAAGGAAAATAGG-GTAAAGAAAA-TTTTTCCATGCAAAAGAA
60 TTAAGGCACGAACTTTGATTTA-CA--AAAATTGGTGGAAA-AAAAGCCTTT-CTTGCGAAACCA
* * * * * *
511266 AATCTTCAATACCACT-TATCCTAATGAGGAGAATGA-GC
120 AAGCATCAATATCA-TGTATCCTAATGAGAAGAA-CATGT
* * * * * * *
511304 TTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTTTCTCATATAAGA
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * * * * *
511369 CACGAACTTAGACTTTACAATAATTGGTGCG-AAAAATGCCTTTATTGCGAAACCAAAACATCAG
66 CACGAACTTTGA-TTTACAAAAATTGGTG-GAAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAA
*
511433 TAAT-GTGTATCCTAATGAGAAG-ACTATGT
129 T-ATCATGTATCCTAATGAGAAGAAC-ATGT
* ** * * * *
511462 TTGTGGTGCCTAATCTTGAAAA-GAATGGGGATTAGTT--TGACAATTCGTGTTTGTCTTATTTA
1 TTATGGTGCCTAATC-ACAAAATGAATGAGGATCA-TTACT-AGAATTCATGTTTGTCTTATTTA
* * * * * * * * *
511524 AGAGCTA--AGCTTTGATTCCATTAAAAACT-ATAGGAAAAAAAGCATTTCTTACGATACCGAAG
63 AG-GC-ACGAACTTTGATT-TA-CAAAAATTGGT-GGAAAAAAAGCCTTTCTTGCGAAACCAAAG
* * * * ***
511586 CATCGATATCATATATCCTATTG-GAGGGAGTGTGT
123 CATCAATATCATGTATCCTAATGAGA-AGAACATGT
* * ** ** * * *
511621 TTTTGGAT-CCCAATCTTAAAATGAATG-GGATTGTTACGAGAA-TCGATGCTTGCCTTATTTAA
1 TTATGG-TGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTC-ATGTTTGTCTTATTT-A
* * * * * * * * ** *
511683 AGG-ATGCACTTTGATTTTA-AGGTAAATAGG-GCAAAGAAAAG-ATTTCCATGCAAAAGAAAAT
63 AGGCACGAACTTTGA-TTTACA--AAAATTGGTGGAAA-AAAAGCCTTT-CTTGCGAAACCAAAG
* * * *
511744 CGTCAATATCACT-TATCCGAATGAAAAG-GC-TGT
123 CATCAATATCA-TGTATCCTAATGAGAAGAACATGT
* * * * * * * *
511777 GTT-TGGAGTCCTAATCACAAAATGAACGAGGATCGTTACTAGACTACGTGTTTGCCTTATTTGA
1 -TTATGGTG-CCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAA
* * * **
511841 GAG-ACGAACTTAGACTTTACAAAAATTGGTGG-GAAAATGCCTTTCTTATGAAACCAAAGCATC
64 G-GCACGAACTTTGA-TTTACAAAAATTGGTGGAAAAAAAGCCTTTCTTGCGAAACCAAAGCATC
*
511904 AATATCGTGTATCCTAATGAGAAGAACATGT
127 AATATCATGTATCCTAATGAGAAGAACATGT
* * * * * *
511935 TTGTGGTGCCTAATC-CTAAAAAGAATGGGGAT-TTGTA-TGAGTATTCATGTTTGTCTAATTTA
1 TTATGGTGCCTAATCAC-AAAATGAATGAGGATCAT-TACT-AGAATTCATGTTTGTCTTATTTA
* * * * ** *
511997 AGAG-ACAAACTTTGATTCTATCAAAAA-CGGAGGAAAGAAAAGCTTTTCTTGCGGCACTAAAGC
63 AG-GCACGAACTTTGATT-TA-CAAAAATTGGTGGAAA-AAAAGCCTTTCTTGCGAAACCAAAGC
* * *
512060 ATCAATGTCATGTATCCTAATGA-AGGGA-ATGCGT
124 ATCAATATCATGTATCCTAATGAGAAGAACAT--GT
* * * * * * *
512094 TT-TAGGTTCCCAATCCAGAAAAT-ATTG-GAGA-CTGTTACCAGAA-TCGATGCTTGTCTTATT
1 TTAT-GGTGCCTAAT-CACAAAATGAATGAG-GATC-ATTACTAGAATTC-ATGTTTGTCTTATT
* * ** * * ** * **
512154 TAAGGGATGAACTTTGATTTTA-AGGAAAATAAG-GCAAAAAAAG-ATTTCGAAGCAAAAGAAAA
61 TAAGGCACGAACTTTGA-TTTACA--AAAATTGGTGGAAAAAAAGCCTTTC-TTGCGAAACCAAA
* * * * * **
512216 TCATCAATATCATTTATCCTATTCAGGAGAATTTGT
122 GCATCAATATCATGTATCCTAATGAGAAGAACATGT
* * * * ** * * * *
512252 TTATAGTGCCTAATAACAAAATAAAAGTCGATCCTTACTAGAATCCATGTTTGTCTCATTTGAGG
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * * * * *
512317 CACGAACTTAGACATTACAGAAAA-TGGTAGG-AAAAATGCCATTCTTGCAAAACCACAGCATCA
66 CACGAACTTTGA-TTTACA-AAAATTGGT-GGAAAAAAAGCCTTTCTTGCGAAACCAAAGCATCA
* *
512380 ATATCGTGTATCCTAATGAGAAGACCATGT
128 ATATCATGTATCCTAATGAGAAGAACATGT
* * * * * * * *
512410 TTATGGTGTCTAATCATAAAAAGAATGGGGATTAGTA-TGAGTATTCATGTTTATCTTATTTAAG
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACT-AGAATTCATGTTTGTCTTATTTAAG
* * * *
512474 AG-ACAAACTTTGATTCT-CTTAAAAA-TGGTGGAAAGAAAGCTTTTCTTGC-AGCACCAAAGCA
65 -GCACGAACTTTGATT-TAC--AAAAATTGGTGGAAAAAAAGCCTTTCTTGCGA-AACCAAAGCA
** * * *
512535 TCAATGCCATATATCCTAATGA-AGGTA-ATGT
125 TCAATATCATGTATCCTAATGAGAAGAACATGT
* * * * * * * **
512566 GTTTTAAGTTCCCAATC-CTGAAACT-AATG-GAGA-C-TGCTACGAGAA-TCGATGCTCATCTT
1 -TTAT-GGTGCCTAATCAC--AAAATGAATGAG-GATCAT--TACTAGAATTC-ATGTTTGTCTT
* * * * ** * *
512625 ATTTAAAGG-ATGAACTTTG-TTTATAAGGAAAATAGGT-CAAAGAAAA-TTTTTGCATGCAAAA
58 ATTT-AAGGCACGAACTTTGATTTA-CA--AAAATTGGTGGAAA-AAAAGCCTTT-CTTGCGAAA
** * * * * * * *
512686 GAAAATG-ATTAATACCATTTATCCTAACGAGGAGAATGA-GC
117 CCAAA-GCATCAATATCATGTATCCTAATGAGAAGAA-CATGT
* * * ** * *
512727 TTATAGTGCCTAATCACAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCACATTTGAGA
1 TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
* * * * * * * *
512792 CACGAACTTAGACTTTACAATAATTGGTGG-GAAAATGCCTTTCTTGCAAAACCAAAACATGAGT
66 CACGAACTTTGA-TTTACAAAAATTGGTGGAAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAAT
* ** *
512856 AACGCGTATCCTAATAAGAAG-ACTATGT
130 ATCATGTATCCTAATGAGAAGAAC-ATGT
* * * *
512884 TTATGGTGCCTAATC-CTGAAAA-GAATG-GCGATTAGTA-TGACAATTCGTGTTTGTCTTATTT
1 TTATGGTGCCTAATCAC--AAAATGAATGAG-GATCATTACT-AGAATTCATGTTTGTCTTATTT
* * * * * *
512945 AAGAGC-CAAACTTTCATTCCATCAAAAACT-GTGGAAAAAAAGCATTTCTTAC-AACACCAAAG
62 AAG-GCACGAACTTTGATT-TA-CAAAAATTGGTGGAAAAAAAGCCTTTCTTGCGAA-ACCAAAG
513007 CATCAA
123 CATCAA
513013 AAATGTCATA
Statistics
Matches: 4751, Mismatches: 1510, Indels: 1024
0.65 0.21 0.14
Matches are distributed among these distances:
155 13 0.00
156 297 0.06
157 697 0.15
158 1872 0.39
159 1624 0.34
160 217 0.05
161 29 0.01
162 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (157 bp):
TTATGGTGCCTAATCACAAAATGAATGAGGATCATTACTAGAATTCATGTTTGTCTTATTTAAGG
CACGAACTTTGATTTACAAAAATTGGTGGAAAAAAAGCCTTTCTTGCGAAACCAAAGCATCAATA
TCATGTATCCTAATGAGAAGAACATGT
Found at i:514118 original size:13 final size:13
Alignment explanation
Indices: 514100--514125 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
514090 CAATTTTTTG
514100 TGTATCGATACAT
1 TGTATCGATACAT
514113 TGTATCGATACAT
1 TGTATCGATACAT
514126 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:514137 original size:32 final size:33
Alignment explanation
Indices: 514081--514143 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
514071 ACAAGCCAAC
**
514081 GTATCGATACAATTTTTTGTGTATCGATACATT
1 GTATCGATACAATACTTTGTGTATCGATACATT
514114 GTATCGATAC-ATACTTTGTGTATCGATACA
1 GTATCGATACAATACTTTGTGTATCGATACA
514144 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (33 bp):
GTATCGATACAATACTTTGTGTATCGATACATT
Found at i:514831 original size:38 final size:40
Alignment explanation
Indices: 514789--514886 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
514779 CAAGTTCGTA
* * *
514789 CATTCTCCCC-CTTAATAAGGTAATTTTAGCAAA-TTACG
1 CATTCTCCCCTCTTAATAAAGAAATCTTAGCAAATTTACG
* *
514827 CATTCTCCCCTTTTATTAAAGAAATCTTAGCAAATTTACG
1 CATTCTCCCCTCTTAATAAAGAAATCTTAGCAAATTTACG
* *
514867 CATTCTCCCCTTTTACTAAA
1 CATTCTCCCCTCTTAATAAA
514887 AAAAAAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 10 0.19
39 18 0.35
40 24 0.46
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.37
Consensus pattern (40 bp):
CATTCTCCCCTCTTAATAAAGAAATCTTAGCAAATTTACG
Found at i:516281 original size:21 final size:20
Alignment explanation
Indices: 516252--516294 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
516242 GACTAGTGTG
* *
516252 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
516273 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
516293 GG
1 GG
516295 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:516744 original size:13 final size:13
Alignment explanation
Indices: 516726--516763 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
516716 ATAATCCCCC
516726 TGTATCGATACAG
1 TGTATCGATACAG
*
516739 TGTATCGATACAT
1 TGTATCGATACAG
*
516752 TATATCGATACA
1 TGTATCGATACA
516764 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:522945 original size:20 final size:20
Alignment explanation
Indices: 522920--522971 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
522910 TACAAGCTAA
**
522920 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
522940 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
522959 TGTATCGATACAA
1 TGTATCGATACAA
522972 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:523829 original size:158 final size:158
Alignment explanation
Indices: 523666--524785 Score: 426
Period size: 158 Copynumber: 7.1 Consensus size: 158
523656 AAAAGAAAAT
*
523666 CATCAATATCATTTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAA-CAACAAAATAAAAGTC
1 CATCAATATCATGTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAATCAACAAAATAAAAG-C
523730 GATCCT-TACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTCACAAAAATTGGT
65 GAT-CTGTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTCACAAAAATTGGT
* * *
523794 GGTAAAAATGCCTTTCTTGTGAAACCAAAG
129 GGAAAAAAAGCCTTTCTTGCGAAACCAAAG
* *** * ** *** * * *
523824 CATCAATATCGTGTATCCTAACGAGAAGAACATGTTTATAGTGCCTAATCCTGAAAAGAATAGGG
1 CATCAATATCATGTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAATCAACAAAATAAAAGCG
* * * * * * * * * * * ***
523889 ATTTGTA-TGGGTATTCTTGTTTGTCTTATTT-AAG-ATAAAATTTGA-TTCTATAAAAAACAGT
66 ATCTGTACT-AGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTC-ACAAAAATTGGT
* ** *
523950 GGAAAGAAAAGCTTTTCTTATGATACCAAAG
129 GGAAA-AAAAGCCTTTCTTGCGAAACCAAAG
* * ** * * * *** **
523981 CATTAATGTCATGTATCCTAATGAAGG-GAATGTGTTT-TAGGTTCCCAATCCTGAAAATATTAG
1 CATCAATATCATGTATCCT-ATTTAGGAGAATTTGTTTATA-GTGCCTAATCAACAAAATAAAAG
* * * * * * * * * *
524044 GGA-CTGGTACCAAAATCAATGCTTGTCTTATTTAAGGGATGAACTTCA-ATTTTA-AGGAAAAT
64 CGATCT-GTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTT-AGACTTCACA--AAAAT
* * * * * ** *
524106 AGG-GAAAAAAAAG-ATTTCTAAGCAAAAGAAAAT
125 TGGTGGAAAAAAAGCCTTTCT-TGCGAAACCAAAG
* *
524139 CATCAATATCATTTATCCTATTTAGGAGAATTTGTTTATAGTGCCTCAT-AACAAAATAAAAGTC
1 CATCAATATCATGTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAATCAACAAAATAAAAG-C
* * *
524203 AATCCT-TACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTT-GACTTTACAAAAATTGGT
65 GAT-CTGTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTCACAAAAATTGGT
*
524266 -GAGAAAAATGCCTTTCTTGCGAAACCAAAAG
129 GGA-AAAAAAGCCTTTCTTGCGAAACC-AAAG
* * * * ** * * *** * ** *
524297 CATCAATATCGTGTATCCTAATGAGAAGAACATGCTTATGGTGCCTAATCCTGAAAAGAATGGGG
1 CATCAATATCATGTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAATCAACAAAATAAAAGCG
* * * * * * *
524362 ATTTGTA-TGAGTATTCATGTTTGTCTAATTTAAGAGACA--AACTTTGA-TTCTATCAAAAA-C
66 ATCTGTACT-AGAATCCATGTTTGTCTCATTT--GAGGCATGAACTTAGACTTC-A-CAAAAATT
* * * *
524422 GGAGGAAAAAAAAAGCTTTTCTTGCGACACTAAAG
126 GGTGG--AAAAAAAGCCTTTCTTGCGAAACCAAAG
* * * ** ** * * *** ***
524457 CATGAATGTCATGTATCCCAATGAAGG-GAATGCGTTT-TAGGTTCCCAATCTTGAAAATATTGG
1 CATCAATATCATGTAT-CCTATTTAGGAGAATTTGTTTATA-GTGCCTAATCAACAAAATAAAAG
* * * * * * * * * * * * * *
524520 AGA-CTGTTACCAGAATCGATGCTTGTCTTATTTAAGGGATAAACTTTGATTTTAAAAAAAATAG
64 CGATCTG-TACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTCACAAAAATTGG
* * ** *
524584 -GGAAAAAATAG-------GGCAAAAGAAAAT
128 TGGAAAAAA-AGCCTTTCTTGCGAAACCAAAG
* * *
524608 CATCAATATCATTTATCCTGTTTAGGAGAATTTGTTTATAGTGCCTAAT-AACAAAGTAAAAGTC
1 CATCAATATCATGTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAATCAACAAAATAAAAG-C
* * * *
524672 TATCCT-TACTAGAATCCATGTTTATCTCATTAGAGGCATGAACTTAGACATT-ACAAAAAATGG
65 GAT-CTGTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGAC-TTCACAAAAATTGG
* *
524735 TAGG-AAAAATGCCATTCTTGCGAAACCAAAG
128 T-GGAAAAAAAGCCTTTCTTGCGAAACCAAAG
524766 CATCAATATCGA-GTATCCTA
1 CATCAATATC-ATGTATCCTA
524786 ATGAGAAGAC
Statistics
Matches: 682, Mismatches: 217, Indels: 126
0.67 0.21 0.12
Matches are distributed among these distances:
150 12 0.02
151 78 0.11
152 9 0.01
153 4 0.01
155 3 0.00
156 31 0.05
157 131 0.19
158 248 0.36
159 46 0.07
160 93 0.14
161 26 0.04
162 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (158 bp):
CATCAATATCATGTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAATCAACAAAATAAAAGCG
ATCTGTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTCACAAAAATTGGTGG
AAAAAAAGCCTTTCTTGCGAAACCAAAG
Found at i:524231 original size:473 final size:470
Alignment explanation
Indices: 523346--524808 Score: 2226
Period size: 473 Copynumber: 3.1 Consensus size: 470
523336 GATCCTAACA
* *
523346 CAAAGCATCAATATCTTGTATCCTAATGAGAAGAACATGTTTATGGTGCCTAATCCT-AAAAGGG
1 CAAAGCATCAATATCGTGTATCCTAATGAGAAGAACATGTTTATGGTGCCTAATCCTGAAAA-GA
* * * *
523410 ATGGGGATTTGTATGAGTATTCTCGTTTGTCTTATTTAATATAAAATTTGATTCTATGAAAAATG
65 ATGGGGATTTGTATGAGTATTCTTGTTTGTCTTATTTAAGATAAAATTTGATTCTATAAAAAACG
*
523475 GTGGAAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCATGTATCCTATTGAAGGGAATG
130 GTGGAAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAATG
* *
523540 TGTTTTAGGTTCCCAATCCTGAAAATATTGGAGACTATTACCAGAATCGATGCTTGTCTTATTGA
195 TGTTTTAGGTTCCCAATCCTGAAAATATTGGAGACTGTTACCAGAATCGATGCTTGTCTTATTTA
* *
523605 AGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAAAAGGATTTCCAAGCAAAAGAAAATCATC
260 AGGGATGAACTTTGATTTTAAGGAAAATAGGGAAAAAAAAGATTT-CAAGCAAAAGAAAATCATC
* *
523670 AATATCATTTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAACAACAAAATAAAAGTCGATCC
324 AATATCATTTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAATAACAAAATAAAAGTCAATCC
523735 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTCACAAAAATTGGTGGTAAA
389 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTT-ACAAAAATTGGTGG-AAA
*
523800 AATGCCTTTCTTGTGAAAC
452 AATGCCTTTCTTGCGAAAC
* *
523819 CAAAGCATCAATATCGTGTATCCTAACGAGAAGAACATGTTTATAGTGCCTAATCCTGAAAAGAA
1 CAAAGCATCAATATCGTGTATCCTAATGAGAAGAACATGTTTATGGTGCCTAATCCTGAAAAGAA
* * *
523884 TAGGGATTTGTATGGGTATTCTTGTTTGTCTTATTTAAGATAAAATTTGATTCTATAAAAAACAG
66 TGGGGATTTGTATGAGTATTCTTGTTTGTCTTATTTAAGATAAAATTTGATTCTATAAAAAACGG
* * *
523949 TGGAAAGAAAAGCTTTTCTTATGATACCAAAGCATTAATGTCATGTATCCTAATGAAGGGAATGT
131 TGGAAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAATGT
* * *
524014 GTTTTAGGTTCCCAATCCTGAAAATATTAGG-GACTGGTACCAAAATCAATGCTTGTCTTATTTA
196 GTTTTAGGTTCCCAATCCTGAAAATATT-GGAGACTGTTACCAGAATCGATGCTTGTCTTATTTA
**
524078 AGGGATGAACTTCAATTTTAAGGAAAATAGGGAAAAAAAAGATTTCTAAGCAAAAGAAAATCATC
260 AGGGATGAACTTTGATTTTAAGGAAAATAGGGAAAAAAAAGATTTC-AAGCAAAAGAAAATCATC
*
524143 AATATCATTTATCCTATTTAGGAGAATTTGTTTATAGTGCCTCATAACAAAATAAAAGTCAATCC
324 AATATCATTTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAATAACAAAATAAAAGTCAATCC
*
524208 TTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTT-GACTTTACAAAAATTGGTGAGAAA
389 TTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGAC-TTACAAAAATTGGTG-GAAA
524272 AATGCCTTTCTTGCGAAAC
452 AATGCCTTTCTTGCGAAAC
*
524291 CAAAAGCATCAATATCGTGTATCCTAATGAGAAGAACATGCTTATGGTGCCTAATCCTGAAAAGA
1 C-AAAGCATCAATATCGTGTATCCTAATGAGAAGAACATGTTTATGGTGCCTAATCCTGAAAAGA
* * * *
524356 ATGGGGATTTGTATGAGTATTCATGTTTGTCTAATTTAAGAGACAAACTTTGATTCTATCAAAAA
65 ATGGGGATTTGTATGAGTATTCTTGTTTGTCTTATTTAAGATA-AAA-TTTGATTCTATAAAAAA
* * * * * *
524421 CGGAGGAAAAAAAAAGCTTTTCTTGCGACACTAAAGCATGAATGTCATGTATCCCAATGAAGGGA
128 CGGTGG-AAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCATGTATCCTAATGAAGGGA
* *
524486 ATGCGTTTTAGGTTCCCAATCTTGAAAATATTGGAGACTGTTACCAGAATCGATGCTTGTCTTAT
192 ATGTGTTTTAGGTTCCCAATCCTGAAAATATTGGAGACTGTTACCAGAATCGATGCTTGTCTTAT
* ** * *
524551 TTAAGGGATAAACTTTGATTTTAAAAAAAATAGGGAAAAAATAG------GGCAAAAGAAAATCA
257 TTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGAAAAAAAAGATTTCAAGCAAAAGAAAATCA
* * *
524610 TCAATATCATTTATCCTGTTTAGGAGAATTTGTTTATAGTGCCTAATAACAAAGTAAAAGTCTAT
322 TCAATATCATTTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAATAACAAAATAAAAGTCAAT
* * *
524675 CCTTACTAGAATCCATGTTTATCTCATTAGAGGCATGAACTTAGACATTACAAAAAATGGTAGGA
387 CCTTACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGAC-TTACAAAAATTGGT-GGA
*
524740 AAAATGCCATTCTTGCGAAAC
450 AAAATGCCTTTCTTGCGAAAC
*
524761 CAAAGCATCAATATCGAGTATCCTAATGAGAAG-ACTATGTTTATGGTG
1 CAAAGCATCAATATCGTGTATCCTAATGAGAAGAAC-ATGTTTATGGTG
524809 TCTGTGGACA
Statistics
Matches: 906, Mismatches: 71, Indels: 30
0.90 0.07 0.03
Matches are distributed among these distances:
468 2 0.00
469 156 0.17
470 39 0.04
471 1 0.00
472 39 0.04
473 492 0.54
474 9 0.01
475 22 0.02
476 146 0.16
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (470 bp):
CAAAGCATCAATATCGTGTATCCTAATGAGAAGAACATGTTTATGGTGCCTAATCCTGAAAAGAA
TGGGGATTTGTATGAGTATTCTTGTTTGTCTTATTTAAGATAAAATTTGATTCTATAAAAAACGG
TGGAAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAATGT
GTTTTAGGTTCCCAATCCTGAAAATATTGGAGACTGTTACCAGAATCGATGCTTGTCTTATTTAA
GGGATGAACTTTGATTTTAAGGAAAATAGGGAAAAAAAAGATTTCAAGCAAAAGAAAATCATCAA
TATCATTTATCCTATTTAGGAGAATTTGTTTATAGTGCCTAATAACAAAATAAAAGTCAATCCTT
ACTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAGACTTACAAAAATTGGTGGAAAAATG
CCTTTCTTGCGAAAC
Found at i:525263 original size:20 final size:20
Alignment explanation
Indices: 525238--525317 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
525228 TTTTACCCAG
* *
525238 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* * *
525258 ATGTATCAATGCATGTAT-A
1 ATGTATCGATACATTTATCA
**
525277 ACTGTATCGATACATTCGTCA
1 A-TGTATCGATACATTTATCA
*
525298 ATGTATTGATACATTCTATC
1 ATGTATCGATACATT-TATC
525318 TTTTTACCCA
Statistics
Matches: 44, Mismatches: 13, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.05
20 38 0.86
21 4 0.09
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:525313 original size:91 final size:91
Alignment explanation
Indices: 525158--525545 Score: 589
Period size: 91 Copynumber: 4.3 Consensus size: 91
525148 GGTAGAGGAT
* * *
525158 CATTTTTTAATGTATCGATACATGTATGGA-TGTATCGATACATTCTTCAATGTATTGATGCATT
1 CATTTTTCAATGTATCAATACATGTAT-GACTGTATCGATACATTCTTCAATGTATTGATACATT
525222 CTATCTTTTTACCCAGATGTATTGATA
65 CTATCTTTTTACCCAGATGTATTGATA
* * *
525249 CATTTTTCAATGTATCAATGCATGTATAACTGTATCGATACATTCGTCAATGTATTGATACATTC
1 CATTTTTCAATGTATCAATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTC
*
525314 TATCTTTTTACCCAGATGTATTAATA
66 TATCTTTTTACCCAGATGTATTGATA
* * *
525340 CATTTTTTAATGTATCAATACATGTATGACTGTATTGATACATTCTTCAATATATTGATACATTC
1 CATTTTTCAATGTATCAATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTC
* *
525405 TATCTTTTTGCCCAGATGTATCGATA
66 TATCTTTTTACCCAGATGTATTGATA
* * *
525431 TATTTTTCAATGTATCGATACATGTATGACTGTATCGATACATTCTTCAATGTATCGATACATTC
1 CATTTTTCAATGTATCAATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTC
*
525496 TATCTTTTTTTCCCAGATGTATTGATA
66 TATC-TTTTTACCCAGATGTATTGATA
* *
525523 TATTTTTCAATGTATCGATACAT
1 CATTTTTCAATGTATCAATACAT
525546 CTAATTAAAA
Statistics
Matches: 271, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
90 1 0.00
91 227 0.84
92 43 0.16
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (91 bp):
CATTTTTCAATGTATCAATACATGTATGACTGTATCGATACATTCTTCAATGTATTGATACATTC
TATCTTTTTACCCAGATGTATTGATA
Found at i:525354 original size:20 final size:20
Alignment explanation
Indices: 525329--525403 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
525319 TTTTACCCAG
*
525329 ATGTATTAATACATTTTTTA
1 ATGTATTAATACATTTTTCA
* * * *
525349 ATGTATCAATACATGTATGA
1 ATGTATTAATACATTTTTCA
* * *
525369 CTGTATTGATACATTCTTCA
1 ATGTATTAATACATTTTTCA
* *
525389 ATATATTGATACATT
1 ATGTATTAATACATT
525404 CTATCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (20 bp):
ATGTATTAATACATTTTTCA
Found at i:525445 original size:20 final size:20
Alignment explanation
Indices: 525420--525494 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
525410 TTTTGCCCAG
*
525420 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
525440 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
525460 CTGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
525480 ATGTATCGATACATT
1 ATGTATCGATACATT
525495 CTATCTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:529178 original size:15 final size:15
Alignment explanation
Indices: 529158--529188 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
529148 ATTTCGTTTG
*
529158 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
529173 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
529188 G
1 G
529189 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:533282 original size:13 final size:13
Alignment explanation
Indices: 533264--533289 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
533254 AATTTTTTTG
533264 TGTATCGATACAT
1 TGTATCGATACAT
533277 TGTATCGATACAT
1 TGTATCGATACAT
533290 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:535592 original size:51 final size:52
Alignment explanation
Indices: 535537--535649 Score: 133
Period size: 51 Copynumber: 2.2 Consensus size: 52
535527 ACAACGGGGC
* * * *
535537 TGGAGTATCCTTC-ATTAT-AGAAAATCGGTGTTTTGAAAATAAAATCAGGGT
1 TGGAGTATCCTTCGATTATGA-AAAATCGATGCTTTAAAAATAAAACCAGGGT
* **
535588 TGGAGTATCC-TCGATTATGAAAAATTGATGCTTTAAAAATAAGGCCAGGGT
1 TGGAGTATCCTTCGATTATGAAAAATCGATGCTTTAAAAATAAAACCAGGGT
535639 TGGAGTATCCT
1 TGGAGTATCCT
535650 CGCAAAAATA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
50 2 0.04
51 49 0.94
52 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (52 bp):
TGGAGTATCCTTCGATTATGAAAAATCGATGCTTTAAAAATAAAACCAGGGT
Found at i:535785 original size:79 final size:79
Alignment explanation
Indices: 535584--535809 Score: 236
Period size: 79 Copynumber: 2.9 Consensus size: 79
535574 AATAAAATCA
* * *
535584 GGGTTGGAGTATCCTCGATTATGAAAAATTGATGCTTTAAAAATAAGGCCAGGGTTGGAGTATCC
1 GGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCAGGGTTGGAGTATCC
*
535649 TCGCAAAAATAACG
66 CCGCAAAAATAACG
* * * * ** * ***
535663 AGGTTAGAGTATCCTCGATTGTGAGAAATCAATATTTTAGAAATAAAGTTGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCAGGGTTGGAGTATCC
* * *
535728 CCTCAGAAATAATG
66 CCGCAAAAATAACG
* * * ** * *
535742 GGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCAGAGTTAGAGTATCC
1 GGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCAGGGTTGGAGTATCC
535807 CCG
66 CCG
535810 ATTGTGGAAA
Statistics
Matches: 114, Mismatches: 33, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
79 114 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCAGGGTTGGAGTATCC
CCGCAAAAATAACG
Found at i:535799 original size:130 final size:130
Alignment explanation
Indices: 535661--535937 Score: 360
Period size: 130 Copynumber: 2.1 Consensus size: 130
535651 GCAAAAATAA
* *** *
535661 CGAGGTTAGAGTATCCTCGATTGT-GAGAAATCAATATTTTAGAAATAAAGTTGGGGTTGGAGTA
1 CGAGGTTAGAGTATCCCCGATTGTGGA-AAATCAATATTTTAGAAATAAAACCGAGGTTGGAGTA
* * * *
535725 TCCCCTCAGAAATAATGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAA
65 TCCCCTCAGAAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAA
535790 T
130 T
*** *
535791 C-AGAGTTAGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAACCGAGGTTGGAGTA
1 CGAG-GTTAGAGTATCCCCGATTGTGGAAAATCAATATTTTAGAAATAAAACCGAGGTTGGAGTA
* ** *
535855 TCCCCTCGGAAATAACGGGATTAGAGTATTTCGGATTATGAAAAATTGATGTTTTGGAAATAAAA
65 TCCCCTCAGAAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAA
535920 T
130 T
*
535921 CGAGGTTGGAGTATCCC
1 CGAGGTTAGAGTATCCC
535938 TGAAATGAAA
Statistics
Matches: 126, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
129 2 0.02
130 120 0.95
131 4 0.03
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (130 bp):
CGAGGTTAGAGTATCCCCGATTGTGGAAAATCAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
CCCCTCAGAAATAACGGGATTAGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAAT
Found at i:535806 original size:51 final size:51
Alignment explanation
Indices: 535743--535859 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
535733 GAAATAATGG
* *
535743 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCAGA
1 GGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAA-CAGA
* * *
535795 -GTTAGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAACCGA
1 GGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACAGA
*
535845 GGTTGGAGTATCCCC
1 GGTTAGAGTATCCCC
535860 TCGGAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 3 0.05
51 55 0.95
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACAGA
Found at i:535917 original size:209 final size:209
Alignment explanation
Indices: 535532--535937 Score: 480
Period size: 209 Copynumber: 1.9 Consensus size: 209
535522 GGATAACAAC
* * *
535532 GGGGCTGGAGTATCCTTCATTATAGAAAATCGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATC
1 GGGGCTGGAGTATCCTCCATTATAGAAAATCGGTGTTTTGAAAATAAAATCAGAGTTAGAGTATC
* ** *
535597 CTCGATTATGAAAAATTGATGCTTTAAAAATAAGGCCAGGGTTGGAGTATCCTCGCAAAAATAAC
66 CCCGATTATGAAAAATTGATGCTTTAAAAATAAAACCAGGGTTGGAGTATCCCCGCAAAAATAAC
* * * * *
535662 GAGGTTAGAGTATCCTCGATTGTGAGAAATCAATATTTTAGAAATAAAGTTGGGGTTGGAGTATC
131 GAGGTTAGAGTATCCTCGATTATGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATC
535727 CCCTCAGAAATAAT
196 CCCTCAGAAATAAT
* * *
535741 GGGGTTGGAGTATCC-CCGATTAT-GAAAAATTGGTGTTTTGGAAATAAAATCAGAGTTAGAGTA
1 GGGGCTGGAGTATCCTCC-ATTATAG-AAAATCGGTGTTTTGAAAATAAAATCAGAGTTAGAGTA
* * * * * * **
535804 TCCCCGATTGTGGAAAATTGGTGTTTTAGAAATAAAACC-GAGGTTGGAGTATCCCCTCGGAAAT
64 TCCCCGATTATGAAAAATTGATGCTTTAAAAATAAAACCAG-GGTTGGAGTATCCCCGCAAAAAT
* ** * *
535868 AACG-GGATTAGAGTAT-TTCGGATTATGAAAAATTGATGTTTTGGAAATAAAATCGAGGTTGGA
128 AACGAGG-TTAGAGTATCCTC-GATTATGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGA
535931 GTATCCC
191 GTATCCC
535938 TGAAATGAAA
Statistics
Matches: 164, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
208 7 0.04
209 157 0.96
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (209 bp):
GGGGCTGGAGTATCCTCCATTATAGAAAATCGGTGTTTTGAAAATAAAATCAGAGTTAGAGTATC
CCCGATTATGAAAAATTGATGCTTTAAAAATAAAACCAGGGTTGGAGTATCCCCGCAAAAATAAC
GAGGTTAGAGTATCCTCGATTATGAAAAATCAATATTTTAGAAATAAAATCGAGGTTGGAGTATC
CCCTCAGAAATAAT
Found at i:537771 original size:16 final size:16
Alignment explanation
Indices: 537747--537778 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
537737 ATGGATTAGT
*
537747 GTTTTTTTTGTTTCTG
1 GTTTCTTTTGTTTCTG
537763 GTTTCTTTTGTTTCTG
1 GTTTCTTTTGTTTCTG
537779 AAGGATTCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.19, T:0.72
Consensus pattern (16 bp):
GTTTCTTTTGTTTCTG
Found at i:538305 original size:13 final size:13
Alignment explanation
Indices: 538258--538287 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
538248 GTAAACCTAG
538258 AATGTATCGATAC
1 AATGTATCGATAC
538271 AATGTATCGATAC
1 AATGTATCGATAC
538284 AATG
1 AATG
538288 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:542558 original size:13 final size:13
Alignment explanation
Indices: 542540--542567 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
542530 ACATTATGCT
542540 TTGTATCGATACA
1 TTGTATCGATACA
542553 TTGTATCGATACA
1 TTGTATCGATACA
542566 TT
1 TT
542568 TTCATTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:542563 original size:33 final size:32
Alignment explanation
Indices: 542521--542585 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
542511 CACATCCAGA
* *
542521 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATT-TGCATTGTATCAATACAT
*
542554 TGTATCGATACATTTTCATTGTATCAATACAT
1 TGTATCGATACATTTGCATTGTATCAATACAT
542586 ACTAAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (32 bp):
TGTATCGATACATTTGCATTGTATCAATACAT
Found at i:542575 original size:19 final size:20
Alignment explanation
Indices: 542549--542604 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
542539 TTTGTATCGA
*
542549 TACATTGTATCGATACAT-T
1 TACATTGTATCGATACATAC
* *
542568 TTCATTGTATCAATACATAC
1 TACATTGTATCGATACATAC
*
542588 TAAATTGTATCGATACA
1 TACATTGTATCGATACA
542605 AGAAACTAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (20 bp):
TACATTGTATCGATACATAC
Found at i:544546 original size:19 final size:20
Alignment explanation
Indices: 544522--544572 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
544512 CACACCTAGA
* *
544522 TGTATCGATACAT-GTTCAT
1 TGTATCGATACATGGATAAT
544541 TGTATCGATACATGGATAAT
1 TGTATCGATACATGGATAAT
544561 TGTATCGATACA
1 TGTATCGATACA
544573 CGAAACTGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATGGATAAT
Found at i:546182 original size:158 final size:157
Alignment explanation
Indices: 545538--547621 Score: 691
Period size: 159 Copynumber: 13.1 Consensus size: 157
545528 ATAGGGTTCC
** * * * **
545538 CATTAGGATACGCGATATTGGTGCTTTGGTTTTTGCAAGAAAGGTTTTTTTCTCGCCAATTTTTG
1 CATTAGGATACATGATATTGATGCTTTGG-TTTTGCAAGAAAGGCTTTTTTCCCATCAATTTTTG
* * * * ** * *
545603 TAAAGTCAAAATTCGTGCCTCAAATGAGACAAACATGCATTCTAGTAAGGATCTTCTTTCATTTT
65 TAAAATCAAAGTTCGTGCCTCAAATAAGACAAACATGAATTCTA-TAATAATCTCCATTCATTTT
* *
545668 GTGATTCGGCACTATAAACATATTCTCCT
129 GTGATTAGGCACTATAAACACATTCTCCT
* ** * ** * ***
545697 CATTAGGATAAATGATGCTGATGATTTTCTTTT-CTATGAAAATATTTTCTTTGCCC-T--ATTT
1 CATTAGGATACATGATATTGATGCTTTGGTTTTGC-AAG-AAAGGCTTT-TTT-CCCATCAATTT
* * * * ** *
545758 TCCT-TAAAATCAAAGTTCAT-CACTTAAATAAGGCAAGCACCAATTCT-TGCAACAATCTCCAT
62 T--TGTAAAATCAAAGTTCGTGC-CTCAAATAAGACAAACATGAATTCTAT--AATAATCTCCAT
*** * * * *
545820 TC-TTTCCAAGATTAAGAACCAAAAACACATTC-CCTT
122 TCATTT-TGTGATTAGGCACTATAAACACATTCTCC-T
* * * * * * *
545856 CATTAAGATACATGACATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCA-CCATTTTTG
1 CATTAGGATACATGATATTGATGCTTTGGTTTTGCAAGAAAGGCTTTT-TTCCCATCAATTTTTG
* * * * *
545920 TTAGAATCAAAGTT--TGCCTCTTAAATAAGATAAACAAGTACACTC-ATACTAATC-CCTATTC
65 -TAAAATCAAAGTTCGTGCCTC--AAATAAGACAAACATG-A-ATTCTATAATAATCTCC-ATTC
* * *** *
545981 TTTTTCAG-GATTAGGCACCATAAACATGGTCTTCT
124 ATTTT--GTGATTAGGCACTATAAACACATTCTCCT
* *
546016 CATTAGGATACGTGATATTGATGCTTTGGTTTTGCAAGAAAGGCTTTTTTCCCATCAATATTTGT
1 CATTAGGATACATGATATTGATGCTTTGGTTTTGCAAGAAAGGCTTTTTTCCCATCAATTTTTGT
* * * * * * * * *
546081 AAAGTCTAGGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATTTTCATTCATTTTG
66 AAAATCAAAGTTCGTGCCTCAAATAAGACAAACATGAATTCTA-TAATAATCTCCATTCATTTTG
*
546146 TGATTAGGCACTATAAGCACATTCTCCT
130 TGATTAGGCACTATAAACACATTCTCCT
* * * ** * *
546174 CATTAGGATAAATGATTTTGATGATTTTTTTTTTTGCATGGAAA-TCTTTTCTTTTCCC-T--AT
1 CATTAGGATACATGATATTGATG--CTTTGGTTTTGCA-AGAAAGGC--TT-TTTTCCCATCAAT
* * * * * * * *
546235 TTTCCT-TAAAATCAAAGTACATCCCTTAAATAAGACAAGCATCAATTCTCATAATAAACTCCTT
60 TTT--TGTAAAATCAAAGTTCGTGCCTCAAATAAGACAAACATGAATTCT-ATAATAATCTCCAT
* * * *
546299 TAATTTTAG-AATTGGGAACCTA-AAACACATTC-CCTT
122 TCATTTT-GTGATTAGGCA-CTATAAACACATTCTCC-T
* * * * * *
546335 CATTAGGATACATGAAATTGACGCTTTGGTGTTGCAAGAAAAGCTTTTCTTTCCA-CCATTTTTG
1 CATTAGGATACATGATATTGATGCTTTGGTTTTGCAAGAAAGGCTTTT-TTCCCATCAATTTTTG
* * * * * *
546399 ATAAAATCAAAGTT--TGTCTTAAACAAGACAAACATGAATACTTATACTAATCCCCATTC-TTT
65 -TAAAATCAAAGTTCGTGCCTCAAATAAGACAAACATGAATTC-TATAATAATCTCCATTCATTT
* * * *
546461 TGAGGATTAGGCACCATAAACATAGTT-TTCT
128 TG-TGATTAGGCACTATAAACACA-TTCTCCT
* *** * * * *
546492 CATTAAGATACGCAATATTGATGTTTTGGTTTCGCAAGAAAGG-TATTTTTCTCACCAATTTTTG
1 CATTAGGATACATGATATTGATGCTTTGGTTTTGCAAGAAAGGCT-TTTTTCCCATCAATTTTTG
* * * * * * * * *
546556 TAAAGTCTAGGGTCGTGTCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTT
65 TAAAATCAAAGTTCGTGCCTCAAATAAGACAAACATGAATTCTA-TAATAATCTCCATTCATTTT
** *
546621 GTGATTAGGCACTATACGCACATTCTCCG
129 GTGATTAGGCACTATAAACACATTCTCCT
* * * ** * ***
546650 CATTAGGATAAATGATACTGATGATTTTCTTTTGCATGGAAATATTTTCTTTGCCC-T--ATTTT
1 CATTAGGATACATGATATTGATGCTTTGGTTTTGCA-AGAAAGGCTTT-TTT-CCCATCAATTTT
* * * * * **
546712 CCT-TAAAATCAAAGTACAG-CCCTTAAATAAGACAAGCATCG-ATTCTCATAACAGA-CT-GTT
63 --TGTAAAATCAAAGTTC-GTGCCTCAAATAAGACAAACAT-GAATTCT-ATAATA-ATCTCCAT
* * * * *
546772 TTATTTTGGGATTGGGAACCTAAAAACACATTC-CCTT
122 TCATTTTGTGATTAGGCA-CTATAAACACATTCTCC-T
* * * * ** * * *
546809 CATTAGGATACATGACATTGAGGCTTTGGTGTCGCGTGAAAAGCTTTTTTTTCCAT-AGTTTTTG
1 CATTAGGATACATGATATTGATGCTTTGGTTTTGCAAGAAAGGC-TTTTTTCCCATCAATTTTTG
* * * * * *
546873 TTAGAATCAAAGTT--T-CTCTTAAATAAGACAAACAAGAATACTCAGACTAAT-TCCTATTC-T
65 -TAAAATCAAAGTTCGTGC-CTCAAATAAGACAAACATGAATTCT-ATAATAATCTCC-ATTCAT
* * * *** *
546933 TTTCTGGATTAGGCACCACAAACATGGTCTTCT
126 TTTGT-GATTAGGCACTATAAACACATTCTCCT
* * * *
546966 CATTAGGATACACGATATTGATGCTTTAGTTTCT-CAAGAAAGG-TTTTTCCCCCTCAATTTTTT
1 CATTAGGATACATGATATTGATGCTTTGGTTT-TGCAAGAAAGGCTTTTTTCCCATCAA--TTTT
* * * ** * * **
547029 TGTAGAGTCTAAGTTTATGCCTCAAATGAGACAAACAT-AGATTCTAGTAATGATCTTTATTCAT
63 TGTAAAATCAAAGTTCGTGCCTCAAATAAGACAAACATGA-ATTCTA-TAATAATCTCCATTCAT
** * **
547093 TTTGTGATTAGGCACTATAAATGCTTTCTTTT
126 TTTGTGATTAGGCACTATAAACACATTCTCCT
* * ** * * *
547125 CATTAGGATA-AGTGTTATTGATGATTTTCTTTTGCATGGAAA-TCTTTTCTTTTTCC-T--ATG
1 CATTAGGATACA-TGATATTGATGCTTTGGTTTTGCA-AGAAAGGC--TT-TTTTCCCATCAAT-
* * * * * * * * * * *
547185 TTCCT-TAAAATCAAAATTCATCCCTTAAAAAAGACAAGCTTCG-ATTCTCGTAACAGTCTCCAT
60 TT-TTGTAAAATCAAAGTTCGTGCCTCAAATAAGACAAACAT-GAATTCT-ATAATAATCTCCAT
* ** * * *
547248 TCTTTTTAAGATT-GAGAACCAAAAACACATT-TCCCT
122 TCATTTTGTGATTAG-GCACTATAAACACATTCT-CCT
** ** * * * *
547284 TTTTAGGATACACAACATTGATGCTTTGGTGTTGCAAGAAAAGCTTTTCTTCCC-TCTATTTTTA
1 CATTAGGATACATGATATTGATGCTTTGGTTTTGCAAGAAAGGCTTTT-TTCCCATCAATTTTT-
* * * * * *
547348 ATAGAATTAAAGTT--TGCCTCTCAAATAAGATAAACATGAATAGT-TATACTAATCCCCAGTT-
64 GTAAAATCAAAGTTCGTG-C-CTCAAATAAGACAAACATGAAT--TCTATAATAATCTCCA-TTC
* * * * *
547409 -TTTTCGAGATTAGGCACCATAAA-AGTAGTCTTCT
124 ATTTT-GTGATTAGGCACTATAAACA-CATTCTCCT
* ** * * * * *
547443 CATAAGGATACACAATATTAATGATTTGGTTTTGCAAGAAAGGCATTCTTCCCACCAATTTTTGT
1 CATTAGGATACATGATATTGATGCTTTGGTTTTGCAAGAAAGGCTTTTTTCCCATCAATTTTTGT
* * * * * *
547508 AAATTCTAAGTTCTTGCCTCAAATGAGACAAACAT-AGATTCTAGTAATGATCTTCATTCATTTT
66 AAAATCAAAGTTCGTGCCTCAAATAAGACAAACATGA-ATTCTA-TAATAATCTCCATTCATTTT
* * *
547572 GCGATTAGGCACTATAAGCAGA-T-TCCT
129 GTGATTAGGCACTATAAACACATTCTCCT
* *
547599 CATTAGGAGAAATGATATTGATG
1 CATTAGGATACATGATATTGATG
547622 ATTTTCTTTG
Statistics
Matches: 1375, Mismatches: 406, Indels: 291
0.66 0.20 0.14
Matches are distributed among these distances:
155 9 0.01
156 50 0.04
157 213 0.15
158 277 0.20
159 578 0.42
160 124 0.09
161 100 0.07
162 12 0.01
163 12 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (157 bp):
CATTAGGATACATGATATTGATGCTTTGGTTTTGCAAGAAAGGCTTTTTTCCCATCAATTTTTGT
AAAATCAAAGTTCGTGCCTCAAATAAGACAAACATGAATTCTATAATAATCTCCATTCATTTTGT
GATTAGGCACTATAAACACATTCTCCT
Found at i:546934 original size:474 final size:471
Alignment explanation
Indices: 545396--548656 Score: 3592
Period size: 474 Copynumber: 6.9 Consensus size: 471
545386 AGCTTTCAAT
* * *
545396 ATTGATGATTT-GTGGTCACAAGAAAAGCATTTCTTT-CATTATTTTTGATAGAATCAAAGTTTG
1 ATTGATGCTTTGGT-GTCGCAAGAAAAGCTTTTCTTTCCA-TATTTTTGATAGAATCAAAG-TT-
* * * * * *
545459 TCTCTGAAATAACACAAACATGAATACCCATACCAATCCCCT-TTCTTTTCCA-AATTAGGCACC
62 TCTCTTAAATAAGACAAACATGAATACTCATACTAAT-CCCTATTCTTTT-GAGGATTAGGCACC
* ** * * *
545522 CTAAACATAGGGTTCCCATTAGGATACGCGATATTGGTGCTTTGGTTTTTGCAAGAAAGGTTTTT
125 ATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGG-TTTTGCAAGAAAGG-TTTT
* * * * * *
545587 TTCTCGCCAATTTTTGTAAAGTCAAAATTCGTGCCTCAAATGAGACAAACATGCATTCTAGTAAG
188 TTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAT
* * * **
545652 GATCTTCTTTCATTTTGTGATTCGGCACTATAAACATATTCTCCTCATTAGGATAAATGATGCTG
253 GATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTG
* * *
545717 ATGATTTTCTTTT-CTATGAAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCAC
318 ATGATTTTCTTTTGC-ATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCC
* * * * * * * **
545781 TTAAATAAGGCAAGCACCAATTCTTGCAACA-ATCTCCATTCTTTCCAAGATTAAGAACCAAAAA
382 TTAAATAAGACAAGCATCGATTCTCGTAACAGA-CTCCATTATTT-TAAGATTGGGAACCAAAAA
*
545845 CACATTCCCTTCATTAAGATACATGAC
445 CACATTCCCTTCATTAGGATACATGAC
* *
545872 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCACCATTTTTGTTAGAATCAAAGTTTGC
1 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCA-TATTTTTGATAGAATCAAAGTTT--
* * * * *
545937 CTCTTAAATAAGATAAACAAGTACACTCATACTAATCCCTATTCTTTTTCAGGATTAGGCACCAT
63 CTCTTAAATAAGACAAACATGAATACTCATACTAATCCCTATTC-TTTTGAGGATTAGGCACCAT
* **
546002 AAACATGGTCTTCTCATTAGGATACGTGATATTGATGCTTTGGTTTTGCAAGAAAGGCTTTTTTC
127 AAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAGG-TTTTTTC
* * * *
546067 CCATCAATATTTGTAAAGTCTAGGTTTGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGAT
191 CCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGAT
* * *
546132 TTTCATTCATTTTGTGATTAGGCACTATAAGCACATTCTCCTCATTAGGATAAATGATTTTGATG
256 CTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATG
* * *
546197 ATTTTTTTTTTTGCATGGAAATCTTTTCTTTTCCCTATTTTCCTTAAAATCAAAGTACATCCCTT
321 A--TTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTT
* * * * * *
546262 AAATAAGACAAGCATCAATTCTCATAATAAACTCCTTTAATTTT-AGAATTGGGAACCTAAAACA
384 AAATAAGACAAGCATCGATTCTCGTAACAGACTCCATT-ATTTTAAG-ATTGGGAACCAAAAACA
*
546326 CATTCCCTTCATTAGGATACATGAA
447 CATTCCCTTCATTAGGATACATGAC
* * * * *
546351 ATTGACGCTTTGGTGTTGCAAGAAAAGCTTTTCTTTCCACCATTTTTGATAAAATCAAAGTTTGT
1 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCA-TATTTTTGATAGAATCAAAGTTTCT
* * *
546416 CTTAAACAAGACAAACATGAATACTTATACTAATCCCCATTCTTTTGAGGATTAGGCACCATAAA
65 CTTAAATAAGACAAACATGAATACTCATACTAATCCCTATTCTTTTGAGGATTAGGCACCATAAA
* * * * * * *
546481 CATAGTTTTCTCATTAAGATACGCAATATTGATGTTTTGGTTTCGCAAGAAAGGTATTTTTCTCA
130 CATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAGGT-TTTTTCCCA
* * *
546546 CCAATTTTTGTAAAGTCTAGGGTCGTGTCTCAAATGAGACAAACATGGATTCTAGTAATGATCTT
194 CCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTT
** * *
546611 CATTCATTTTGTGATTAGGCACTATACGCACATTCTCCGCATTAGGATAAATGATACTGATGATT
259 CATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATT
* * *
546676 TTCTTTTGCATGGAAATATTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTACAGCCCTTAAATA
324 TTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATA
* *** **
546741 AGACAAGCATCGATTCTCATAACAGACTGTTTTATTTTGGGATTGGGAACCTAAAAACACATTCC
389 AGACAAGCATCGATTCTCGTAACAGACTCCATTATTTTAAGATTGGGAACC-AAAAACACATTCC
546806 CTTCATTAGGATACATGAC
453 CTTCATTAGGATACATGAC
* ** * *
546825 ATTGAGGCTTTGGTGTCGCGTGAAAAGCTTTTTTTTCCATAGTTTTTGTTAGAATCAAAGTTTCT
1 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATA-TTTTTGATAGAATCAAAGTTTCT
* * * ** *
546890 CTTAAATAAGACAAACAAGAATACTCAGACTAATTCCTATTCTTTTCTGGATTAGGCACCACAAA
65 CTTAAATAAGACAAACATGAATACTCATACTAATCCCTATTCTTTTGAGGATTAGGCACCATAAA
* * *
546955 CATGGTCTTCTCATTAGGATACACGATATTGATGCTTTAGTTTCT-CAAGAAAGG-TTTTTCCCC
130 CATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTT-TGCAAGAAAGGTTTTTTCCCA
* ** *
547018 CTCAATTTTTTTGTAGAGTCTAAGTTTATGCCTCAAATGAGACAAACATAGATTCTAGTAATGAT
194 C-CAA--TTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGAT
* ** * ** * *
547083 CTTTATTCATTTTGTGATTAGGCACTATAAATGCTTTCTTTTCATTAGGATAAGTGTTATTGATG
256 CTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATG
** * *
547148 ATTTTCTTTTGCATGGAAATCTTTTCTTTTTCCTATGTTCCTTAAAATCAAAATTCATCCCTTAA
321 ATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAA
* * * * *
547213 AAAAGACAAGCTTCGATTCTCGTAACAGTCTCCATTCTTTTTAAGATTGAGAACCAAAAACACAT
386 ATAAGACAAGCATCGATTCTCGTAACAGACTCCATT-ATTTTAAGATTGGGAACCAAAAACACA-
* **
547278 TTCCCTT-TTTAGGATACACAAC
449 TTCCCTTCATTAGGATACATGAC
* * * * *
547300 ATTGATGCTTTGGTGTTGCAAGAAAAGCTTTTCTTCCCTCTATTTTTAATAGAATTAAAGTTTGC
1 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCC-ATATTTTTGATAGAATCAAAGTTT--
* * * * *
547365 CTCTCAAATAAGATAAACATGAATAGTTATACTAATCCCCAGTT-TTTTCGA-GATTAGGCACCA
63 CTCTTAAATAAGACAAACATGAATACTCATACTAATCCCTA-TTCTTTT-GAGGATTAGGCACCA
* * * * * *
547428 TAAA-AGTAGTCTTCTCATAAGGATACACAATATTAATGATTTGGTTTTGCAAGAAAGGCATTCT
126 TAAACA-TAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAGG-TTTTT
* * *
547492 TCCCACCAATTTTTGTAAATTCTAAGTTCTTGCCTCAAATGAGACAAACATAGATTCTAGTAATG
189 TCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATG
* * * *
547557 ATCTTCATTCATTTTGCGATTAGGCACTATAAGCAGA-T-TCCTCATTAGGAGAAATGATATTGA
254 ATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGA
547620 TGATTTTC--TT---T-G----C----C--T----TATTTTCCTTAAAATCAAAGTTCATCCCTT
319 TGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTT
* * *
547665 AAATAAAACAAGCATCGATTCTCGCAACA-ATCTCCATTCTTTTCAAGATTGGGAACCAAAAACA
384 AAATAAGACAAGCATCGATTCTCGTAACAGA-CTCCATTATTTT-AAGATTGGGAACCAAAAACA
* * *
547729 CATTTCCTTCCTTAGGATACATGAT
447 CATTCCCTTCATTAGGATACATGAC
* * * *
547754 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTTTTTTCCACGATTTTTTATAAAATCAAAGTTTC
1 ATTGATGCTTTGGTGTCGCAAGAAAAGC-TTTTCTTTCCA-TATTTTTGATAGAATCAAAGTTTC
* ** *
547819 TATTATGTAAGACAAACATGAATACTCATACTAATCCCTTTTCTTTTGAGGATTAGGCACCATAA
64 TCTTAAATAAGACAAACATGAATACTCATACTAATCCCTATTCTTTTGAGGATTAGGCACCATAA
* * ** * *
547884 ACGTAGTCTTCTCATTAGGATACACGATATTAATATTTTTGTTTTGCAAGAAAGGCATTTTTCCC
129 ACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAGG-TTTTTTCCC
* **
547949 ACCAATTTTTGTAAAGTCTAGGTTCGTAACTCAAATGAGACAAACATGGATTCTAGTAATGATCT
193 ACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCT
* *
548014 TCATTCATTTTGTGATTAGGCACTATAAATACATTCTCCT-TTTAAGGATAAATGATATTGATGA
258 TCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATT-AGGATAAATGATATTGATGA
*** * * * *
548078 TTTTCTTTTGCACAAAAATCTTTTCTTTGCCCTTTTTTCCTTAAAATTATAGATCA-CCTCTTAA
322 TTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCC-CTTAA
* * * ** * *
548142 ATAAGATAAGCATCGATTCTTGTAACAGTCTCCATTATTTTTCGGATTGTGAA-CATACAACACA
386 ATAAGACAAGCATCGATTCTCGTAACAGACTCCATTA-TTTTAAGATTGGGAACCA-AAAACACA
* *
548206 TTCCTTTCATTAGGATACTTGAC
449 TTCCCTTCATTAGGATACATGAC
** * ** *
548229 ATTGATGCTTTGGTG-AACAAGAAAAG-TTTTTTTTACTC-CGTTTTTAATAGAATCAAAGTTTG
1 ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTT-C-CATATTTTTGATAGAATCAAAGTTT-
* * * * * *
548291 CCTCTTACATAAGAAAAACATAAATAGTCATACTGATAT-CC-ATTTTTTTCG-GGATTAGGCAG
63 -CTCTTAAATAAGACAAACATGAATACTCATACT-A-ATCCCTATTCTTTT-GAGGATTAGGCAC
* ** * * * * * *
548353 GATAAATGTATTCTTCTCATAAGGATACACAATATTGATGCTTTGATTTTGTAAGAAAGGCTTTC
124 CATAAACATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAGG-TTTT
* * * *
548418 TTCCCACCAATTTTTGTAAAGTCTAAATTCGTACCTCAAATGAGCCAAATATGGATTCTAGT-AT
188 TTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAAT
* ** * * * *
548482 CGATCTTCTTTCATTTTGCAATTAGGTACTATAAACACATTCTCCTCATTCGGCTAAATGATTTT
253 -GATCTTCATTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATT
548547 GATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCC
317 GATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCC
* *
548612 TTAAATAAGACAAGCATTGATTCTCGTAACA-ATCTCCATTCTTTT
382 TTAAATAAGACAAGCATCGATTCTCGTAACAGA-CTCCATTATTTT
548657 CTTTCCACCG
Statistics
Matches: 2366, Mismatches: 341, Indels: 159
0.83 0.12 0.06
Matches are distributed among these distances:
452 4 0.00
453 206 0.09
454 122 0.05
455 55 0.02
457 2 0.00
458 1 0.00
460 1 0.00
464 1 0.00
465 1 0.00
468 1 0.00
469 2 0.00
471 1 0.00
472 37 0.02
473 26 0.01
474 613 0.26
475 376 0.16
476 344 0.15
477 322 0.14
478 59 0.02
479 187 0.08
480 5 0.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (471 bp):
ATTGATGCTTTGGTGTCGCAAGAAAAGCTTTTCTTTCCATATTTTTGATAGAATCAAAGTTTCTC
TTAAATAAGACAAACATGAATACTCATACTAATCCCTATTCTTTTGAGGATTAGGCACCATAAAC
ATAGTCTTCTCATTAGGATACACGATATTGATGCTTTGGTTTTGCAAGAAAGGTTTTTTCCCACC
AATTTTTGTAAAGTCTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCA
TTCATTTTGTGATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTT
CTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAG
ACAAGCATCGATTCTCGTAACAGACTCCATTATTTTAAGATTGGGAACCAAAAACACATTCCCTT
CATTAGGATACATGAC
Found at i:549493 original size:870 final size:870
Alignment explanation
Indices: 547783--549527 Score: 2477
Period size: 870 Copynumber: 2.0 Consensus size: 870
547773 AAGAAAAGCT
* **
547783 TTTTTTTTCCACGATTTTTTATAAAATCAAAGTTTCTATTATGTAAGACAAACATGAATACTCAT
1 TTTTCTTTCCACGATTTTTTATAAAATCAAAGTTTCTATTAAATAAGACAAACATGAATACTCAT
*
547848 ACTAATCCCTTTTCTTTTGAGGATTAGGCACCATAAACGTAGTCTTCTCATTAGGATACACGATA
66 ACTAATCCCTATTCTTTTGAGGATTAGGCACCATAAACGTAGTCTTCTCATTAGGATACACGATA
* * * *
547913 TTAATATTTTTGTTTTGCAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTAGGTTCGTAA
131 TTAATATTTTGGTTTAGCAAGAAAGGCATTTTTCCCACCAATTTTTATAAAGTCTAGGCTCGTAA
* * *
547978 CTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAA
196 CTCAAATAAGACAAACATGGATTCTAGTAATGATCTTCATTCATTCTGTGATTAGGCAATATAAA
* * *
548043 TACATTCTCCTTTTAAGGATAAATGATATTGATGATTTTCTTTTGCACAAAAATCTTTTCTTTGC
261 TACATTCTCCTTTTAAGGACAAATGATATTGATGACTTTCTTTTGCACAAAAATCTTTTCTTTAC
* * * * * *
548108 CCTTTTTTCCTTAAAATTATAGATCACCTCTTAAATAAGATAAGCATCGATTCTTGTAACAGTCT
326 CCTATTTTCCTTAAAATCATAGATCACCTATTAAATAAGATAAACATCGATTCTTATAACAGCCT
* * *
548173 CCATTATTTTTCGGATTGTGAACATACAACACATTCCTTTCATTAGGATACTTGACATTGATGCT
391 CCATTATTTTTCGGATTGTGAACATAAAACACATTCCTTTCATTAGGATACTTGACATTAACGCT
* * * *
548238 TTGGTGAACAAGAAAAGTTTTTTTTACTCCGTTTTTAATAGAATCAAAGTTTGCCTCTTACATAA
456 TTGGTGAACAAGAAAAGTTTTTTTTACACCATTTTTAATAGAAACAAAGTTTGCCTCTTAAATAA
* ** * * * * **
548303 GAAAAACATAAATAGTCATACTGATATCCATTTTTTTCGGGATTAGGCAGGATAAATGTATTCTT
521 GAAAAACATAAATACTCATACAAATACCCATTCTTGTCGGGATTAGGCACGATAAACATATTCTT
* **
548368 CTCATAAGGATACACAATATTGATGCTTTGATTTTGTAAGAAAGGCTTTCTTCCCACCAATTTTT
586 CCCATAAGGATACACAATATTGATGCTTTGATTTTACAAGAAAGGCTTTCTTCCCACCAATTTTT
* * * * *
548433 GTAAAGTCTAAATTCGTACCTCAAATGAGCCAAATATGGATTCTAGTATCGATCTTCTTTCATTT
651 GTAAAGTCTAAATTCGTACCTCAAATAAGACAAACACGCATTCTAGTATCGATCTTCTTTCATTT
* * * * *
548498 TGCAATTAGGTACTATAAACACATTCTCCTCATTCGGCTAAATGATTTTGATGATTTTCTTTTGC
716 TGCAATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCATTTGC
* *
548563 ATGGAAATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCA
781 ATAGAAATCTTTTCTTTGCCCTATTTTCCTTAAAACCAAAGTTCATCCCTTAAATAAGACAAGCA
*
548628 TTGATTCTCGTAACAATCTCCATTC
846 TCGATTCTCGTAACAATCTCCATTC
* * *
548653 TTTTCTTTCCACCG-TTTTTTATAGAATCAAAGTTTCTCTTAAATAAGACAAACATGAATACTTA
1 TTTTCTTTCCA-CGATTTTTTATAAAATCAAAGTTTCTATTAAATAAGACAAACATGAATACTCA
548717 TACTAATCCAC-ATT-TTTTGAGGATTAGGCACCATAAACGTAGTCTTCTCATTAGGATACACGA
65 TACTAATCC-CTATTCTTTTGAGGATTAGGCACCATAAACGTAGTCTTCTCATTAGGATACACGA
548780 TATTAATATTTTGGTTTAGCAAGAAAGGCATTTTTCCCACCAATTTTTATAAAGTCTAGGCTCGT
129 TATTAATATTTTGGTTTAGCAAGAAAGGCATTTTTCCCACCAATTTTTATAAAGTCTAGGCTCGT
** * *
548845 GTCTCAAATAAGATAAACGTGGATTCTAGTAATGATCTTCATTCATTCTGTGATTAGGCAATATA
194 AACTCAAATAAGACAAACATGGATTCTAGTAATGATCTTCATTCATTCTGTGATTAGGCAATATA
*
548910 AATACATTCTCCTCTTT-AGGACAAATGATATTGATGACTTTCTTTTGCACGAAAATCTTTTCTT
259 AATACATTCTCCT-TTTAAGGACAAATGATATTGATGACTTTCTTTTGCACAAAAATCTTTTCTT
* * * *
548974 TACTCTATTTTCCTTATAATCATAGATCATCTATTAAA-AATGATAAACATTGATTCTTATAACA
323 TACCCTATTTTCCTTAAAATCATAGATCACCTATTAAATAA-GATAAACATCGATTCTTATAACA
*
549038 GCCTCCATTA-TTTTCAGGATTG-GAACGTAAAACACATTCCTTTCATTAGGATACTTGACATTA
387 GCCTCCATTATTTTTC-GGATTGTGAACATAAAACACATTCCTTTCATTAGGATACTTGACATTA
** * * * *
549101 ACGCTTTGGTGTCGCAAGAAAAGTTTTTCTTTTCACCATTTTTTATGGAAACAAAGTTTGTCTCT
451 ACGCTTTGGTG-AACAAGAAAAGTTTTT-TTTACACCATTTTTAATAGAAACAAAGTTTGCCTCT
* * * ** *
549166 TAAATAAGACAAACA-AGAATACTTATACAAATCCCCATTCTTGTCTTGATTAGGCACTATAAAC
514 TAAATAAGAAAAACATA-AATACTCATACAAATACCCATTCTTGTCGGGATTAGGCACGATAAAC
* * * * * *
549230 ATCA-TCTTCCCTTTAGGATACACGATATTGGTGCTTTTG-TTTTACAAGAAAGGTTTTTTTCCC
578 AT-ATTCTTCCCATAAGGATACACAATATTGATGC-TTTGATTTTACAAGAAAGGCTTTCTTCCC
* * *
549293 ACCAATTTTTGTAAAGTCTAAGTTCGTACCTCAATTAAGACAAACACGCTTTCTAGTAAT-GATC
641 ACCAATTTTTGTAAAGTCTAAATTCGTACCTCAAATAAGACAAACACGCATTCTAGT-ATCGATC
** * *
549357 TTCTTTCATTTTGGGATTATGCACTATAAACACATTCTCCTTATTAGGATAAATGATATTGATGA
705 TTCTTTCATTTTGCAATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGA
* *
549422 TTTTCATTTGCATAGAAATCTTTTCTTTGCCCTATTTTCCTTAAAACCAAAGTTTATCCCTTAAC
770 TTTTCATTTGCATAGAAATCTTTTCTTTGCCCTATTTTCCTTAAAACCAAAGTTCATCCCTTAAA
*
549487 TAAGACAAGTATCGATTCTCGTAACAATCTCCATTC
835 TAAGACAAGCATCGATTCTCGTAACAATCTCCATTC
549523 TTTTC
1 TTTTC
549528 AAGATTAGGA
Statistics
Matches: 771, Mismatches: 93, Indels: 22
0.87 0.10 0.02
Matches are distributed among these distances:
868 55 0.07
869 306 0.40
870 400 0.52
871 10 0.01
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.39
Consensus pattern (870 bp):
TTTTCTTTCCACGATTTTTTATAAAATCAAAGTTTCTATTAAATAAGACAAACATGAATACTCAT
ACTAATCCCTATTCTTTTGAGGATTAGGCACCATAAACGTAGTCTTCTCATTAGGATACACGATA
TTAATATTTTGGTTTAGCAAGAAAGGCATTTTTCCCACCAATTTTTATAAAGTCTAGGCTCGTAA
CTCAAATAAGACAAACATGGATTCTAGTAATGATCTTCATTCATTCTGTGATTAGGCAATATAAA
TACATTCTCCTTTTAAGGACAAATGATATTGATGACTTTCTTTTGCACAAAAATCTTTTCTTTAC
CCTATTTTCCTTAAAATCATAGATCACCTATTAAATAAGATAAACATCGATTCTTATAACAGCCT
CCATTATTTTTCGGATTGTGAACATAAAACACATTCCTTTCATTAGGATACTTGACATTAACGCT
TTGGTGAACAAGAAAAGTTTTTTTTACACCATTTTTAATAGAAACAAAGTTTGCCTCTTAAATAA
GAAAAACATAAATACTCATACAAATACCCATTCTTGTCGGGATTAGGCACGATAAACATATTCTT
CCCATAAGGATACACAATATTGATGCTTTGATTTTACAAGAAAGGCTTTCTTCCCACCAATTTTT
GTAAAGTCTAAATTCGTACCTCAAATAAGACAAACACGCATTCTAGTATCGATCTTCTTTCATTT
TGCAATTAGGCACTATAAACACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCATTTGC
ATAGAAATCTTTTCTTTGCCCTATTTTCCTTAAAACCAAAGTTCATCCCTTAAATAAGACAAGCA
TCGATTCTCGTAACAATCTCCATTC
Found at i:549784 original size:474 final size:472
Alignment explanation
Indices: 548652--550732 Score: 2278
Period size: 474 Copynumber: 4.4 Consensus size: 472
548642 AATCTCCATT
* *
548652 CTTTTCTTTCCACCGTTTTTTATAGAATCAAAGTTTCTCTTAAATAAGACAAACATGAATACTTA
1 CTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTCTCTTAAATAAGACAAACATGAATACTCA
* *
548717 TACTAATCCACA-TTTTTTGAGGATTAGGCACCATAAACGTAGTCTTCTCATTAGGATACACGAT
66 TACTAATCCCCATTTTTTTGAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGAT
* * * * * *
548781 ATTAATATTTTGGTTTAGCAAGAAAGGCATTTTTCCCACCAATTTTTATAAAGTCTAGGCTCGTG
131 ATTGATGTTTTGGTTTCGCAAGAAAGGC-TTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTG
* * * * *
548846 TCTCAAATAAGATAAACGTGGATTCTAGTAATGATCTTCATTCATTCTGTGATTAGGCAATATAA
195 CCTCAAATAAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTCTGTGATTAGGCACTATAA
* * *
548911 ATACATTCTCCTCT-TTAGGACAAATGATATTGATGACTTTCTTTTGCA-CGAAAATCTTTTCTT
260 ACACATTCTCCT-TATTAGGACAAATGATATTGATGATTTTCTTTTGCATAG-AAATCTTTTCTT
* * * * ** * * * * *
548974 TACTCTATTTTCCTTATAATCATAGATCATCTATTAAAAATGATAAACATTGATTCTTATAACAG
323 TACCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAA-GACAAGCATCGATTCTCATAACAA
* * ** * * * *
549039 CCTCCATTATTTTCAGGATT-GGAACGTAAAACACATTCCTTTCATTAGGATACTTGACATTAAC
387 TCTCCATTATTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGAT
* *
549103 GCTTTGGTGTCGCAAGAAAAG
452 ACTTTGGTGTCACAAGAAAAG
* * * * * * *
549124 TTTTTCTTTTCACCATTTTTTATGGAAACAAAGTTTGTCTCTTAAATAAGACAAACAAGAATACT
1 CTTTTCTTTCCACCGTTTTTGATAGAATCAAAG-TT-TCTCTTAAATAAGACAAACATGAATACT
* * * * *** * * *
549189 TATACAAATCCCCATTCTTGTCTTGATTAGGCACTATAAACATCA-TCTTCCCTTTAGGATACAC
64 CATACTAATCCCCATTTTTTTGAGGATTAGGCACCATAAACAT-AGTCTTCTCATTAGGATACAC
* ** *
549253 GATATTGGTGCTTTT-GTTTTACAAGAAAGGTTTTTTTCCCACCAATTTTTGTAAAGTCTAAGTT
128 GATATTGATG-TTTTGGTTTCGCAAGAAAGG-CTTTTTCCCACCAATTTTTGTAAAGTCTAAGTT
* * * ** * * *
549317 CGTACCTCAATTAAGACAAACACGCTTTCTAGTAATGATCTTCTTTCATTTTGGGATTATGCACT
191 CGTGCCTCAAATAAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTCTGTGATTAGGCACT
* *
549382 ATAAACACATTCTCCTTATTAGGATAAATGATATTGATGATTTTCATTTGCATAGAAATCTTTTC
256 ATAAACACATTCTCCTTATTAGGACAAATGATATTGATGATTTTCTTTTGCATAGAAATCTTTTC
* * * * * *
549447 TTTGCCCTATTTTCCTTAAAACCAAAGTTTATCCCTTAACTAAGACAAGTATCGATTCTCGTAAC
321 TTTACCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAA-AAAGACAAGCATCGATTCTCATAAC
* * *
549512 AATCTCCATTCTTTTCAAGATTAGGAACCAAAAACACATTCGCTTCATTAGGATACGTGACAATT
385 AATCTCCATTATTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGAC-ATT
* *
549577 -ATACTTTGGTGACGCAAGAAAAG
449 GATACTTTGGTGTCACAAGAAAAG
* * * *
549600 CTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTCTCTTAAATAAGACAAATAGGGATACTCA
1 CTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTCTCTTAAATAAGACAAACATGAATACTCA
* *
549665 TACTAATCCCCATTTTTTTGAGGATTAGGCACCATAAACATAGTCTTGTCATTAGGTTACACGAT
66 TACTAATCCCCATTTTTTTGAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGAT
* * ** * *
549730 ATTGATGTTTTAGTTTTGCAAGAAAGGCATTTTTCCCTGCAATTTTTATAAAGTCTAAGTTTGTG
131 ATTGATGTTTTGGTTTCGCAAGAAAGGC-TTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTG
* * * *
549795 CCTTAAATGAGACAAACATTGATTTTAGTAATGAT-TT-TTAGTCATTCTGTGATTAGGCACTAT
195 CCTCAAATAAGACAAACATGGATTCTAGTAATGATCTTCTT--TCATTCTGTGATTAGGCACTAT
* * * *
549858 TAGCACATTCT-CTTCATTAGGACAAATGATGTTGATGATTTTCTTTTGCATGGAAATCTTTTCT
258 AAACACATTCTCCTT-ATTAGGACAAATGATATTGATGATTTTCTTTTGCATAGAAATCTTTTCT
** * * * * *
549922 TTACTTTATTTTTCGTAAAATCAAAGTACATCCCTTAAATAAGACAAGCATCGATTCTTATAATA
322 TTACCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAA-AAGACAAGCATCGATTCTCATAACA
* * * *
549987 GAT-TCCTTTATTTTCAAGATTAGGAACCAAAAATACCTTCCCTTCATTAGCATACATGACATTG
386 -ATCTCCATTATTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTG
**
550051 ATTTTTTGGTGTCACAAGAAAAG
450 ATACTTTGGTGTCACAAGAAAAG
* * * * * * *
550074 CTTTTCTTTCTACCGTTTTTGATAGAGTCAAAGTTCGTCTCCTAAATAAGATAAATATTAATATT
1 CTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTT--TCTCTTAAATAAGACAAACATGAATACT
* * * * * * *
550139 CATACTATTCCCCATTCTTTTCAGGATTAGGCACTATAAACATAGTATTCTCATAAGGATACACA
64 CATACTAATCCCCATTTTTTTGAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACG
* * *
550204 ATATTGATGCTTTGGTTTCGTAAGAAAGGCTTTCTTCCCACCAATTTTTGTAATGTCTAAGTTCG
129 ATATTGATGTTTTGGTTTCGCAAGAAAGGCTTT-TTCCCACCAATTTTTGTAAAGTCTAAGTTCG
* * * * * *
550269 TGCCTCAAAT-----AAACATGGATTCTAGTATTGAACATCTTTCATTTTTTGATTAGGCACTAC
193 TGCCTCAAATAAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTCTGTGATTAGGCACTAT
* * * * *
550329 AAACACATACTCCTCATTAGGATAAATGATATTGATAATTTTCGTTTGCATAGAAATCTTTTCTT
258 AAACACATTCTCCTTATTAGGACAAATGATATTGATGATTTTCTTTTGCATAGAAATCTTTTCTT
* * **
550394 TGCCCTATTTTTCTTAAAATCAAA-TTCATCCCTTAAAAAGACAAGCATCGATTCTCGCAACAAT
323 TACCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAAGACAAGCATCGATTCTCATAACAAT
* * * * * * * *
550458 CT-CATTCTTTTCGAGATTGGGAACCAAAAGCACTTTCCCTTCATTACGATACATGACTTTGATG
388 CTCCATTATTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATA
** *
550522 CTTTGAAGTCACAAGAATAG
453 CTTTGGTGTCACAAGAAAAG
* ** * *
550542 CTTTTCGTTCTGCCGTTTTTGATAGAATCAAAGTTTGCCTCTTTAATAAGACAAACATGAATAGT
1 CTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTT--CTCTTAAATAAGACAAACATGAATACT
* *
550607 CATACTAATCCCCATTCTTTTTG-GGATTAGGCACCATAAACATAGTCTTTTCATAAGGATACAC
64 CATACTAATCCCCATT-TTTTTGAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACAC
* * * * *
550671 --TATTGATGCTTTGGTTTCGCAAGAAAAGCTTTCTTCCCAACAATTTTTGCAAAGTTTAAGTT
128 GATATTGATGTTTTGGTTTCGCAAGAAAGGCTTT-TTCCCACCAATTTTTGTAAAGTCTAAGTT
550733 TGTCATTAAA
Statistics
Matches: 1348, Mismatches: 231, Indels: 66
0.82 0.14 0.04
Matches are distributed among these distances:
466 57 0.04
468 175 0.13
469 26 0.02
470 12 0.01
471 110 0.08
472 33 0.02
473 17 0.01
474 421 0.31
475 266 0.20
476 228 0.17
477 3 0.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (472 bp):
CTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTCTCTTAAATAAGACAAACATGAATACTCA
TACTAATCCCCATTTTTTTGAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATACACGAT
ATTGATGTTTTGGTTTCGCAAGAAAGGCTTTTTCCCACCAATTTTTGTAAAGTCTAAGTTCGTGC
CTCAAATAAGACAAACATGGATTCTAGTAATGATCTTCTTTCATTCTGTGATTAGGCACTATAAA
CACATTCTCCTTATTAGGACAAATGATATTGATGATTTTCTTTTGCATAGAAATCTTTTCTTTAC
CCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAAAAGACAAGCATCGATTCTCATAACAATCTC
CATTATTTTCAAGATTAGGAACCAAAAACACATTCCCTTCATTAGGATACATGACATTGATACTT
TGGTGTCACAAGAAAAG
Found at i:551052 original size:334 final size:331
Alignment explanation
Indices: 550424--551066 Score: 814
Period size: 334 Copynumber: 1.9 Consensus size: 331
550414 CAAATTCATC
* *
550424 CCTTAAAAAGACAAGCATCGATTCTCGCAACAATCTCATTCTTTTCGAGATTGGGAACCAAAAGC
1 CCTTAAAAAGACAAGCATCGATTCTCACAACAAACTCATTCTTTTCGAGATTGGGAACCAAAAGC
* * * **
550489 ACTTTCCCTTCATTACGATACATGACTTTGATGCTTTGAAGTCACAAGAATAGCTTTTCGTTCTG
66 ACATTCCCTTCATTACGATACATGACATTGATGCTTTGAAGTCACAAGAAAAGCTTTTCGTTCCA
* * *
550554 CCGTTTTTGATAGAATCAAAGTTTGCCTCTTTAATAAGACAAACATGAATAGTCATACTAATCCC
131 CCATTTTTGATAGAATCAAAGTTT-CCTCTTAAATAAGACAAACATGAATACTCATACTAATCCC
* ** * *
550619 CATTCTTTTTGGGATTAGGCACCATAAACATAGTCTTTTCATAAGGATACACTATTGATGCTTTG
195 CATTCCTTTCAGGATTAGGCACCATAAACATAGTCTTTTCATAAGGATACACTATTAATGCTTTC
* *
550684 GTTTCGCAAGAAAAGCTTTCTTCCCAACAATTTTTGCAAAGTTTAAGTTTGTCATTAAAGTCAAA
260 GTTTCGCAAGAAAAGCTTTCTGCCCAACAATTTTTGCAAAGTCTAAGTTTGTCATTAAAGTCAAA
550749 GCACATT
325 GCACATT
* *
550756 CCTTAAATAAGACAAGCATCGATTCTCATAACAAACTCCTTTCTTTTC-AGGATTGGGAACCTAA
1 CCTTAAA-AAGACAAGCATCGATTCTCACAACAAACT-CATTCTTTTCGA-GATTGGGAACC-AA
* * * ** * * *
550820 AA-CACATTGCCTTCATTAGGATACTTGACATTGATGCTTTGGTGTCGCAAGAAAATCTTTTCTT
62 AAGCACATTCCCTTCATTACGATACATGACATTGATGCTTTGAAGTCACAAGAAAAGCTTTTCGT
* *
550884 TCCACCATTTTTGATAGAATGAAAGTTT-CTCTTAAATAAGACAAACATGGATACTCATACTAAT
127 TCCACCATTTTTGATAGAATCAAAGTTTCCTCTTAAATAAGACAAACATGAATACTCATACTAAT
* *
550948 CCCTATTCCTTTCAGGATTAGGCACCATAAACATAGT-TTTCTCATTAGGATATGCGA-TATTAA
192 CCCCATTCCTTTCAGGATTAGGCACCATAAACATAGTCTTT-TCATAAGGATA--C-ACTATTAA
* * * * *
551011 TGTTTTCGTTTCTCAAGAAAGGCATTT-TGGCC-ACTAATTTTTGTAAAGTCTAAGTT
253 TGCTTTCGTTTCGCAAGAAAAGC-TTTCTGCCCAAC-AATTTTTGCAAAGTCTAAGTT
551067 CATGCCTCAA
Statistics
Matches: 265, Mismatches: 36, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
331 3 0.01
332 83 0.31
333 29 0.11
334 142 0.54
335 8 0.03
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (331 bp):
CCTTAAAAAGACAAGCATCGATTCTCACAACAAACTCATTCTTTTCGAGATTGGGAACCAAAAGC
ACATTCCCTTCATTACGATACATGACATTGATGCTTTGAAGTCACAAGAAAAGCTTTTCGTTCCA
CCATTTTTGATAGAATCAAAGTTTCCTCTTAAATAAGACAAACATGAATACTCATACTAATCCCC
ATTCCTTTCAGGATTAGGCACCATAAACATAGTCTTTTCATAAGGATACACTATTAATGCTTTCG
TTTCGCAAGAAAAGCTTTCTGCCCAACAATTTTTGCAAAGTCTAAGTTTGTCATTAAAGTCAAAG
CACATT
Found at i:551688 original size:471 final size:473
Alignment explanation
Indices: 550738--551706 Score: 1290
Period size: 471 Copynumber: 2.1 Consensus size: 473
550728 AAGTTTGTCA
* * **
550738 TTAAAGTCAAAGCACATTCCTTAAATAAGACAAGCATCGATTCTCATAACAAACTCCTTTCTTTT
1 TTAAAATCAAAGTACATTCCTTAAATAAGACAAGCATCGATTCTCATAACAAACTCCTTAATTTT
* **
550803 CAGGATTGGGAACCTAAAACACATTGCCTTCATTAGGATACTTGACATTGATGCTTTGGTGTCGC
66 CAAGATTGGGAACCTAAAACACATTGCCTTCATTAGGATACAAGACATTGATGCTTTGGTGTCGC
* * * *
550868 AAGAAAATCTTTTCTTTCCACCATTTTTGATAGAATGAAAGTTTCTCTTAAATAAGACAAACATG
131 AAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTCTCATAAATAAGACAAACAAG
* *
550933 GATACTCATACTAATCCCTATTCCTTTCAGGATTAGGCACCATAAACATAGTTTTCTCATTAGGA
196 AATACTCATACTAATCCCTATTCCTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGA
* ** * * * * * *
550998 TATGCGATATTAATGTTTTCGTTTCTCAAGAAAGGCATTTTGGCCACTAATTTTTGTAAAGTCTA
261 CACACGATATTAATGCTTTCGGTTCTC-AGAAAGGCATTTTGCCCACCAATTTCTGTAAAGTCAA
*
551063 AGTTCATGCCTCAAATGAAACCAACACTGATTCTACTAATGATCTTCATTCATTCTGGGATTAGG
325 AGTTCATGCCTCAAATGAAACAAACACTGATTCTACTAATGATCTTCATTCATTCTGGGATTAGG
* ** * * * ***
551128 GACTATAAGCATATTCTCTTCATTAGAATAAATGATATTGATGGTTTTCTTTTGCATGGAAATCT
390 CACTATAAAAACATTCTCTTCATTAGAATAAATGATATTGATGATTTTCTTTTCCACAAAAATCT
551193 TTTCTTTGCCCTATTTTCC
455 TTTCTTTGCCCTATTTTCC
* * *
551212 TTAAAATCAAAGTACATTCCTTAAATAAGACAAGTATCGATTCTCGTAACAGACTCCTTAATTTT
1 TTAAAATCAAAGTACATTCCTTAAATAAGACAAGCATCGATTCTCATAACAAACTCCTTAATTTT
*
551277 CAAGATTGGGAACCTAAAACACATT-CTTTTCATTAGGATACAAGACATTGATGCTTTGGTGTCG
66 CAAGATTGGGAACCTAAAACACATTGC-CTTCATTAGGATACAAGACATTGATGCTTTGGTGTCG
* * *
551341 CAAGAAAAGC-TTTCTTTCCATCATTTTTGTTAGAATCAAAGTTTGTCTCATAAATAAGACAAGC
130 CAAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAG-TT-TCTCATAAATAAGACAAAC
* *
551405 AAGAATACTCATACTAATCCCTATTCTTTTCAGGATTAGGCACCATAAACATGGTCTTCTCATTA
193 AAGAATACTCATACTAATCCCTATTCCTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTA
* * * * *
551470 GGACACATGATATTGATGCTTT-GGTT-TC-GCAAGG-TTTTTTCCCTACCAATTTCTGTAAAGT
258 GGACACACGATATTAATGCTTTCGGTTCTCAGAAAGGCATTTTGCCC-ACCAATTTCTGTAAAGT
* ** * * *
551531 CAAAGTTCGTGCCTCAAATGGGACAAACA-TAGATTCTAGTAATGATCTTCATTCATTTTGTGAT
322 CAAAGTTCATGCCTCAAATGAAACAAACACT-GATTCTACTAATGATCTTCATTCATTCTGGGAT
* *
551595 TAGGCACTATAAAAACATTCT-TAT-ATTTAGGATAAGTGATATTGATGATTTTCTTTTCCACAA
386 TAGGCACTATAAAAACATTCTCT-TCA-TTAGAATAAATGATATTGATGATTTTCTTTTCCACAA
* *
551658 AAATCTTTTCTTTGCCTTATTTTTC
449 AAATCTTTTCTTTGCCCTATTTTCC
*
551683 TTAAAATCAAAGTACATCCCTTAA
1 TTAAAATCAAAGTACATTCCTTAA
551707 GTAATGTTAG
Statistics
Matches: 431, Mismatches: 57, Indels: 17
0.85 0.11 0.03
Matches are distributed among these distances:
470 9 0.02
471 168 0.39
473 31 0.07
474 130 0.30
475 93 0.22
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.36
Consensus pattern (473 bp):
TTAAAATCAAAGTACATTCCTTAAATAAGACAAGCATCGATTCTCATAACAAACTCCTTAATTTT
CAAGATTGGGAACCTAAAACACATTGCCTTCATTAGGATACAAGACATTGATGCTTTGGTGTCGC
AAGAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTCTCATAAATAAGACAAACAAG
AATACTCATACTAATCCCTATTCCTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGA
CACACGATATTAATGCTTTCGGTTCTCAGAAAGGCATTTTGCCCACCAATTTCTGTAAAGTCAAA
GTTCATGCCTCAAATGAAACAAACACTGATTCTACTAATGATCTTCATTCATTCTGGGATTAGGC
ACTATAAAAACATTCTCTTCATTAGAATAAATGATATTGATGATTTTCTTTTCCACAAAAATCTT
TTCTTTGCCCTATTTTCC
Found at i:552121 original size:13 final size:13
Alignment explanation
Indices: 552103--552128 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
552093 TACACACAGT
552103 ATGTATCGATACA
1 ATGTATCGATACA
552116 ATGTATCGATACA
1 ATGTATCGATACA
552129 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:554382 original size:21 final size:21
Alignment explanation
Indices: 554349--554398 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
554339 TTGCAAGTTG
*
554349 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
554371 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
554392 AAATAAA
1 AAATAAA
554399 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:555852 original size:159 final size:159
Alignment explanation
Indices: 555688--556312 Score: 432
Period size: 159 Copynumber: 3.9 Consensus size: 159
555678 TTCCCTTCAA
* * *
555688 TAGGATACATGACATTGATGCTTTGGTGTCACATGAAAAGCTTTTCTTTCCACCA-TTTTTGATG
1 TAGGATACATGATATTGATGCTTTGGTGTCACATAAAAAGCTTTTCTTTCCACCACTTTTTGATA
* *
555752 GAATCAAAGTTTGTCTCTTAAATAAGACAAACAT-GAATAGTCATACTAATCCCCATTCTTTTCA
66 AAATCAAAGTTTGTCTCTTAAATAAGACAAACATCG-ATACTCATACTAATCCCCATTCTTTTCA
*
555816 AGATTAGGCACCATAAACATAGTCTTCTTAT
130 AGATTAGGCACCATAAACATA-TCTCCTTAT
* * * * *
555847 TAGGATACATGATATTGGTGTTTTGGTTTCACA-AAAAAGGCATTT-TTCCCACCACTTTTTG-T
1 TAGGATACATGATATTGATGCTTTGGTGTCACATAAAAA-GCTTTTCTTTCCACCACTTTTTGAT
* * * ** * ** * * * ** * *
555909 AAAGTCTAAGTTCGTGCT-TCGAATGAGACAAGTATCGATTCT-ACTAATGATCTTCTTTAATTT
65 AAAATCAAAGTTTGT-CTCTTAAATAAGACAAACATCGATACTCA-TACTAATCCCCATT-CTTT
** * * *
555972 T-GTGATTAGGTACTATAAACATATTCTCCTCAT
127 TCAAGATTAGGCACCATAAACATA-TCTCCTTAT
* * ** * ** * * * **
556005 TAGGATAAATGATATTGATGATTTTCTTTTGCATGAAAATCTTTTCTTTGCC-CTA-TTTTTCTT
1 TAGGATACATGATATTGATGCTTTGGTGTCACATAAAAAGCTTTTCTTT-CCACCACTTTTTGAT
* * * * * **
556068 AAAATCAAAGTTTATCCCTTAAATAAGACAAGCATCGATTCTCGTAAC-AATCTACATTCTTTTC
65 AAAATCAAAGTTTGTCTCTTAAATAAGACAAACATCGATACTCAT-ACTAATCCCCATTCTTTTC
* * * *
556132 AAGAATGGGAACCAATAGCACAT-TC-CCTTCAT
129 AAGATTAGGCACC-ATA-AACATATCTCCTT-AT
* * * * * *
556164 TAAGATACATGAAATTGATGCTCTGGTGTCACAAAAAAAGCTTTTATTTCCACCATTTTTTGATA
1 TAGGATACATGATATTGATGCTTTGGTGTCACATAAAAAGCTTTTCTTTCCACCACTTTTTGATA
* * * *
556229 GAATTAAAGTTTGTCTTTTAAATAAGACAAATAT-GATTACTCATACTAATCCCCATTCTTTTCA
66 AAATCAAAGTTTGTCTCTTAAATAAGACAAACATCGA-TACTCATACTAATCCCCATTCTTTTCA
* * *
556293 TGATTAAGCACCATACACAT
130 AGATTAGGCACCATAAACAT
556313 GATATTGTTG
Statistics
Matches: 344, Mismatches: 101, Indels: 43
0.70 0.21 0.09
Matches are distributed among these distances:
157 1 0.00
158 122 0.35
159 150 0.44
160 67 0.19
161 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (159 bp):
TAGGATACATGATATTGATGCTTTGGTGTCACATAAAAAGCTTTTCTTTCCACCACTTTTTGATA
AAATCAAAGTTTGTCTCTTAAATAAGACAAACATCGATACTCATACTAATCCCCATTCTTTTCAA
GATTAGGCACCATAAACATATCTCCTTAT
Found at i:560858 original size:159 final size:158
Alignment explanation
Indices: 560695--562784 Score: 435
Period size: 159 Copynumber: 13.2 Consensus size: 158
560685 TTCTCATAGC
* * *
560695 AATCTCCATTATTTTCAAGATTAGGAACCTAAAA-CGCATTCCCTTCTTTAGGATACATGACATT
1 AATCTCCATTCTTTTCAAGATTAGGCACCTAAAAGCACATTCCC-TCTTTAGGATACATGACATT
*
560759 GATGCTTTGGTGTCACAAGAAAACCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTC
65 GATGCTTTGGTGTCACAAGAAAACCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTCGTC-C
560824 TTAAATAAGACAAACATGAATAGTCATACT
129 TTAAATAAGACAAACATGAATAGTCATACT
* * * * * * * * *
560854 AATCTCCATTCTTTTCAGGCTTAGGCACC-ATAAA-TATAGTCTTCTCTGTAGGATACACGATAT
1 AATCTCCATTCTTTTCAAGATTAGGCACCTA-AAAGCACATTC-CCTCTTTAGGATACATGACAT
* * * ** ** *
560917 TGAAGCTTTGGTTTCGCAAGAAAGGCTTTT-TCCCCACCAATTTTTG-TA-AAGTCTAAGTTCGT
64 TGATGCTTTGGTGTCACAAGAAAACCTTTTCTTTCCACC-ATTTTTGATAGAA-TCAAAGTTCGT
* * * * *
560979 GCCTCAAATGAGACACACATGGAT--TCTAGTATT
127 -CCTTAAATAAGACAAACATGAATAGTC-A-TACT
* ** * * * * * *
561012 GATCTTTATTAATTTTC-TGATTAGGCA-CTATAAA-CACATTCTCCTCATTGGGATAAATGATA
1 AATCTCCATT-CTTTTCAAGATTAGGCACCTA-AAAGCACATTC-CCTCTTTAGGATACATGACA
* ** * ** * * * * ** * *
561074 TTGATGATTTTTTTTTGCATG-AAATCTTTTATTTGCC-CTATTTTCCATAAAATCAAAGTTCAT
63 TTGATGCTTTGGTGTCACAAGAAAACCTTTTCTTT-CCACCATTTTTGATAGAATCAAAGTTCGT
* ** * * ** *
561137 CCACTATGTTAGACAAGCATCG-ATTCTCGTAAC-
127 CC-TTAAATAAGACAAACAT-GAATAGTCAT-ACT
*
561170 AATCTCCATTCTTTTCAAGATT--GCAAACC-AAAAGCACATTCCCT-TTAATTGGATACATGAC
1 AATCTCCATTCTTTTCAAGATTAGGC--ACCTAAAAGCACATTCCCTCTT--TAGGATACATGAC
* * * *
561231 ATTGTTGCTTTGGTGTCACAAGAACACCTTTTCTTTCCACCATTTTTGATGGAATCAAAGTTTGT
62 ATTGATGCTTTGGTGTCACAAGAAAACCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTCGT
*
561296 CTCTTAAATAAGACAAACATGAATAGTCAGACT
127 C-CTTAAATAAGACAAACATGAATAGTCATACT
* * * * * * *
561329 AATCCCCATTCTTTTCAGGATTAGGCACC-ATAAA-CACAATCTTCTCATTA-GATACGTGATAT
1 AATCTCCATTCTTTTCAAGATTAGGCACCTA-AAAGCACATTC-CCTCTTTAGGATACATGACAT
* * * ** * * * **
561391 TAATGTTTTGGTTTTGCAAGAAAGGCACTTTTC---GCACCAATTTTTG-TA-ATGTTTAAGTTC
64 TGATGCTTTGGTGTCACAAGAAA-AC-CTTTTCTTTCCACC-ATTTTTGATAGA-ATCAAAGTTC
* * * *
561451 GTGCGTTAAATGAGACAAACATGGAT--TCTAGTAAT
125 GT-CCTTAAATAAGACAAACATGAATAGTC-A-TACT
* * ** * * * *
561486 GATCTTCATTCATTTT-GTGATTAGGCA-CTACAAGCACATTCTCCTCATTAGGATAAATGATAT
1 AATCTCCATTC-TTTTCAAGATTAGGCACCTAAAAGCACATTC-CCTCTTTAGGATACATGACAT
* ** * ** * * * * ** * **
561549 TGATGATTTTTTTTTGCATGAAAATCTTTTCTTTGGC-CTATTTTCCATAAAATCAAAGTTCAAC
64 TGATGCTTTGGTGTCACAAGAAAACCTTTTCTTT-CCACCATTTTTGATAGAATCAAAGTTC-GT
* * ** ** ** *
561613 CCTTAAAAAAAACAAGTATCG-ATTCTTGTAAT
127 CCTTAAATAAGACAAACAT-GAATAGTCATACT
* * * * **
561645 AATATCCATTATTTTCAAGATTGGGAACCTAAAA-CACATTCCCTTCAATAGGATACATGACATT
1 AATCTCCATTCTTTTCAAGATTAGGCACCTAAAAGCACATTCCC-TCTTTAGGATACATGACATT
* * * * ** * * *
561709 GATGCCTTGTTGCCGCAAGAAAAGTTTTTGTTTCCACCATTTTTGATAGAATCAAATTTTGTCTC
65 GATGCTTTGGTGTCACAAGAAAACCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTCGTC-C
* * * * *
561774 CTAAATAAGAGAAACATCAATA-ACCTAACT
129 TTAAATAAGACAAACATGAATAGTCAT-ACT
* ** * * * * * ** *
561804 AATCCCCATTCCATTCAGGATTAGGCACC-ATAAA-CATAGTCTTCTCATTA-GATACGCGATAT
1 AATCTCCATTCTTTTCAAGATTAGGCACCTA-AAAGCACATTC-CCTCTTTAGGATACATGACAT
* * *** * * * *
561866 TGATGTTTTGGTTTTGTAA-AAAAGGCATTTTC---CCACTAATTTTTG-TA-AAGTCTAAGTTT
64 TGATGCTTTGGTGTCACAAGAAAA--CCTTTTCTTTCCAC-CATTTTTGATAGAA-TCAAAGTTC
* * *
561925 GTGCCTCAAATAAGACAAACATGGAT--TC-TAGT
125 GT-CCTTAAATAAGACAAACATGAATAGTCATACT
* *** * * * * * *
561957 AA-CGACCTTTATTCTTTTTGTGATTAGGCA-CTATAAGCACTTTATCCTCATTAGGATAAATCA
1 AATC-TCC---ATTCTTTTCAAGATTAGGCACCTAAAAGCACATT-CCCTCTTTAGGATACATGA
* * ** * ** * * * *** * *
562020 TATTGATGATTTTCTTTTGC-ATAAAATCTTTTATTTCCTA--ATTTTCCTTAAAATCATAGTT-
61 CATTGATGCTTTGGTGTCACAAGAAAACCTTTTCTTTCC-ACCATTTTTGATAGAATCAAAGTTC
* * *
562081 GATCCCTTAAATAAGACAAGCATCGATTCTTGT-A-AC-
125 G-T-CCTTAAATAAGACAAACAT-GA--ATAGTCATACT
* * * * * * ** * *
562117 AGTCTCCAATATTTTCAGGATTGGGAACCTAAAA-CACATTTCTTTCTTTATGATACTTGACATT
1 AATCTCCATTCTTTTCAAGATTAGGCACCTAAAAGCACA-TTCCCTCTTTAGGATACATGACATT
* * * * ** ** *
562181 CATACATTGGTGCCGTAAGAAAAGCC-TTTCTTTCCACTGTTTTTGATAGAATCAAAGTTTGTCT
65 GATGCTTTGGTGTCACAAGAAAA-CCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTCGTC-
* * *
562245 CTTAAGTAAGACAAACATGAGTACTCATACT
128 CTTAAATAAGACAAACATGAATAGTCATACT
** * * * * * *
562276 AATC-CCAATTCTTTTCGGGATTAGGCACC-ATAAA-CATAGTCTTCTCATTAGGATATATGATA
1 AATCTCC-ATTCTTTTCAAGATTAGGCACCTA-AAAGCACATTC-CCTCTTTAGGATACATGACA
* * ** ** * * *
562338 TTGGTGCTTTGGTTTTGCAAGAAAGGCTTTT-TTCCCCACCAAATTTTG-TA-AATTAGAAGTTC
63 TTGATGCTTTGGTGTCACAAGAAAACCTTTTCTT-TCCACC-ATTTTTGATAGAATCA-AAGTTC
* * *
562400 GTGCCTCAAATGAGACAAACAT-AGAT--TCTAGTAAT
125 GT-CCTTAAATAAGACAAACATGA-ATAGTC-A-TACT
* * * * * * ** * *
562435 GATGTTCTTTCATTTT-ATGATTAGGCA-CTACAAGCACATTCTCCTAATTAGGATAAATGATAT
1 AATCTCCATTC-TTTTCAAGATTAGGCACCTAAAAGCACATTC-CCTCTTTAGGATACATGACAT
* * * ** * * * * * * **
562498 TGATGATTT-CTATTGCATG-AAATCTTTTCTTTGCC-CTATTTTCT-TTAAAATCAAAATTTAT
64 TGATGCTTTGGTGTCACAAGAAAACCTTTTCTTT-CCACCATTTT-TGATAGAATCAAAGTTCGT
** * *
562559 CCCTTAAATAAGACAAACATCG-ATTCTCGTAAT
127 -CCTTAAATAAGACAAACAT-GAATAGTCATACT
* * * * *
562592 AGTCTCCATTATTTTCAAGATGAGGAACCTAAAA-CACGTTCCCT-TTAATAGGATACATGACAT
1 AATCTCCATTCTTTTCAAGATTAGGCACCTAAAAGCACATTCCCTCTT--TAGGATACATGACAT
* * * * * * ** * * * *
562655 TGATGCCTTGCTGCCACAAGAAAAGCTTTTGTTTTCGTCGTTTTTGATGGAATCAAATTTTGTCT
64 TGATGCTTTGGTGTCACAAGAAAACCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTCGTC-
* **
562720 CTTAAATAAGACAAACATGAATAGCCATTTT
128 CTTAAATAAGACAAACATGAATAGTCATACT
* *
562751 AATCCCCATTCTTTTCAGGATTAGGCACCATAAA
1 AATCTCCATTCTTTTCAAGATTAGGCACC-TAAA
562785 CATAGTCTTA
Statistics
Matches: 1367, Mismatches: 425, Indels: 277
0.66 0.21 0.13
Matches are distributed among these distances:
152 1 0.00
153 6 0.00
154 1 0.00
155 13 0.01
156 94 0.07
157 276 0.20
158 346 0.25
159 578 0.42
160 45 0.03
161 6 0.00
162 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (158 bp):
AATCTCCATTCTTTTCAAGATTAGGCACCTAAAAGCACATTCCCTCTTTAGGATACATGACATTG
ATGCTTTGGTGTCACAAGAAAACCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTCGTCCTT
AAATAAGACAAACATGAATAGTCATACT
Found at i:561262 original size:475 final size:474
Alignment explanation
Indices: 560302--564677 Score: 5003
Period size: 475 Copynumber: 9.3 Consensus size: 474
560292 ATACATGCAG
** *
560302 GAAAAGCTTTTCTTTCCA-CAGTTTTTGAGGGAATCAAAATTTGTCTCTTAAATAAGACAAACAT
1 GAAAAGCTTTTCTTTCCACCA-TTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACAT
* * *
560366 GAAGTA-TCATACTAAT-CCTATTCTTTTCAGGATTAGGCGCCATAAACATAGTCTTCTAATTAG
65 GAA-TAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAG
* * *
560429 GATACGCGATATTGATGTCTTGGTTTCACAAGAAAGGCATTTTT-CCATCCAATTTTTGTAAAGT
129 GATACACGATATTGATGTTTTGGTTTCGCAAGAAAGGCATTTTTCCCA-CCAATTTTTGTAAAGT
* * *
560493 TTAAGTTCATGCCTCAAATGAGACAAACATTGATTCTAGTAATGATCTTCATTCATTTTGTGATT
193 CTAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATT
* * * ** * *
560558 AGGCAATCTAACCGTATTCTCCTCTTTAGGATAAATGATATTGATGAATTTCTTTTGCATGAAAA
258 AGGCACTATAAGCACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATG-AAA
* * * * ** *
560623 TCTTTTCTTGGCCTTATTTTCCTTATAAT-AAAGGTCCATCCCTTAAATAAGAGGAGCATGGATT
322 TCTTTTCTTTGCCCTATTTTCCTTAAAATCAAA-GTTCATCCCTTAAATAAGACAAGCATCGATT
* * * *
560687 CTCATAGCAATCTCCATTATTTTCAAGATTAGGAACCTAAAACGCATTCCCTTCT--TTAGGATA
386 CTCGTAACAGTCTCCATTATTTTCAAGATT-GGAACCTAAAACACATTCCCTT-TAATT-GGATA
*
560750 CATGACATTGATGCTTTGGTGTCACAA
448 CATGACATTGATGCTTTGGTGTCGCAA
*
560777 GAAAACCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
1 GAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
* * *
560842 AATAGTCATACTAATCTCCATTCTTTTCAGGCTTAGGCACCATAAATATAGTCTTCTC-TGTAGG
66 AATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCAT-TAGG
* *
560906 ATACACGATATTGAAGCTTTGGTTTCGCAAGAAAGGC-TTTTTCCCCACCAATTTTTGTAAAGTC
130 ATACACGATATTGATGTTTTGGTTTCGCAAGAAAGGCATTTTT-CCCACCAATTTTTGTAAAGTC
* * * * *
560970 TAAGTTCGTGCCTCAAATGAGACACACATGGATTCTAGTATTGATCTTTATTAATTTTCTGATTA
194 TAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTA
* * *
561035 GGCACTATAAACACATTCTCCTCATTGGGATAAATGATATTGATGATTTTTTTTTGCATGAAATC
259 GGCACTATAAGCACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAATC
* * ** *
561100 TTTTATTTGCCCTATTTTCCATAAAATCAAAGTTCATCCAC-TATGTTAGACAAGCATCGATTCT
324 TTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCC-CTTAAATAAGACAAGCATCGATTCT
* * *
561164 CGTAACAATCTCCATTCTTTTCAAGATTGCAAACC-AAAAGCACATTCCCTTTAATTGGATACAT
388 CGTAACAGTCTCCATTATTTTCAAGATTG-GAACCTAAAA-CACATTCCCTTTAATTGGATACAT
* *
561228 GACATTGTTGCTTTGGTGTCACAA
451 GACATTGATGCTTTGGTGTCGCAA
* * *
561252 GAACACCTTTTCTTTCCACCATTTTTGATGGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
1 GAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
* * *
561317 AATAGTCAGACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACACAATCTTCTCATTA-GA
66 AATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGA
** * * * * * *
561381 TACGTGATATTAATGTTTTGGTTTTGCAAGAAAGGCACTTTTCGCACCAATTTTTGTAATGTTTA
131 TACACGATATTGATGTTTTGGTTTCGCAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTA
* *
561446 AGTTCGTGCGTTAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
196 AGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* *
561511 CACTACAAGCACATTCTCCTCATTAGGATAAATGATATTGATGATTTTTTTTTGCATGAAAATCT
261 CACTATAAGCACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATG-AAATCT
* * * * * * *
561576 TTTCTTTGGCCTATTTTCCATAAAATCAAAGTTCAACCCTTAAAAAAAACAAGTATCGATTCTTG
325 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCG
* * * * *
561641 TAATAATATCCATTATTTTCAAGATTGGGAACCTAAAACACATTCCCTTCAATAGGATACATGAC
390 TAACAGTCTCCATTATTTTCAAGATT-GGAACCTAAAACACATTCCCTTTAATTGGATACATGAC
* * *
561706 ATTGATGCCTTGTTGCCGCAA
454 ATTGATGCTTTGGTGTCGCAA
* * * * * *
561727 GAAAAGTTTTTGTTTCCACCATTTTTGATAGAATCAAATTTTGTCTCCTAAATAAGAGAAACATC
1 GAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
* * **
561792 AATA-ACCTAACTAATCCCCATTCCATTCAGGATTAGGCACCATAAACATAGTCTTCTCATTA-G
66 AATAGTCAT-ACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGG
* * * * *
561855 ATACGCGATATTGATGTTTTGGTTTTGTAAAAAAGGCA-TTTTCCCACTAATTTTTGTAAAGTCT
130 ATACACGATATTGATGTTTTGGTTTCGCAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCT
* * * * * *
561919 AAGTTTGTGCCTCAAATAAGACAAACATGGATTCTAGTAACGACCTTTATTCTTTTTGTGATTAG
195 AAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAG
* * * *
561984 GCACTATAAGCACTTTATCCTCATTAGGATAAATCATATTGATGATTTTCTTTTGCATAAAATCT
260 GCACTATAAGCACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAATCT
* * * *
562049 TTTATTT--CCTAATTTTCCTTAAAATCATAGTTGATCCCTTAAATAAGACAAGCATCGATTCTT
325 TTTCTTTGCCCT-ATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTC
* * * ** * *
562112 GTAACAGTCTCCAATATTTTCAGGATTGGGAACCTAAAACACATT-TCTTTCTTTATGATACTTG
389 GTAACAGTCTCCATTATTTTCAAGATT-GGAACCTAAAACACATTCCCTTTAATT-GGATACATG
* * * * *
562176 ACATTCATACATTGGTGCCGTAA
452 ACATTGATGCTTTGGTGTCGCAA
* ** *
562199 GAAAAGCCTTTCTTTCCACTGTTTTTGATAGAATCAAAGTTTGTCTCTTAAGTAAGACAAACATG
1 GAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
* * * *
562264 AGTACTCATACTAATCCCAATTCTTTTCGGGATTAGGCACCATAAACATAGTCTTCTCATTAGGA
66 AATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGA
* * * * * * * * **
562329 TATATGATATTGGTGCTTTGGTTTTGCAAGAAAGGCTTTTTTCCCCACCAAATTTTGTAAATTAG
131 TACACGATATTGATGTTTTGGTTTCGCAAGAAAGGCATTTTT-CCCACCAATTTTTGTAAAGTCT
* * * *
562394 AAGTTCGTGCCTCAAATGAGACAAACATAGATTCTAGTAATGATGTTCTTTCATTTTATGATTAG
195 AAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAG
* * *
562459 GCACTACAAGCACATTCTCCTAATTAGGATAAATGATATTGATGA-TTTCTATTGCATGAAATCT
260 GCACTATAAGCACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAATCT
* * * *
562523 TTTCTTTGCCCTATTTTCTTTAAAATCAAAATTTATCCCTTAAATAAGACAAACATCGATTCTCG
325 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCG
* * * *
562588 TAATAGTCTCCATTATTTTCAAGATGAGGAACCTAAAACACGTTCCCTTTAATAGGATACATGAC
390 TAACAGTCTCCATTATTTTCAAGAT-TGGAACCTAAAACACATTCCCTTTAATTGGATACATGAC
* * * *
562653 ATTGATGCCTTGCTGCCACAA
454 ATTGATGCTTTGGTGTCGCAA
* * ** * * *
562674 GAAAAGCTTTTGTTTTCGTCGTTTTTGATGGAATCAAATTTTGTCTCTTAAATAAGACAAACATG
1 GAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
* **
562739 AATAGCCATTTTAATCCCCATTCTTTTCAGGATTAGGCACCAT--A-A-A-------CA-TA-G-
66 AATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGA
*
562790 T---C----TT-A-------GTTTCGCAAGAAAGGCAATTTTCCCACCAATTTTTGTAAAGTCTA
131 TACACGATATTGATGTTTTGGTTTCGCAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTA
* * *
562840 AGTTTGTGCCTCAAATGAGAAAAAAATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
196 AGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
* * *
562905 TACTATAAGCACATTCTTCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATCGAAATAA
261 CACTATAAGCACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCAT-GAAAT-C
* * * * * *
562970 ATTT-TTTGCCCTATTTTCCTTAAAACCAATA-TTCAACCCTTAAATAAAACAATCATCAATTCT
324 TTTTCTTTGCCCTATTTTCCTTAAAATCAA-AGTTCATCCCTTAAATAAGACAAGCATCGATTCT
* * * * * * *
563033 TGTAATAGTTTCCATTATTTTCAGGATTGGGAACCTAAAACACATTCTCTTCAATAGGATACATG
388 CGTAACAGTCTCCATTATTTTCAAGATT-GGAACCTAAAACACATTCCCTTTAATTGGATACATG
*
563098 ACATTGATGCCTTGGTGTCGCAA
452 ACATTGATGCTTTGGTGTCGCAA
* * * * * *
563121 GAAAAGGTTTTCTTTCCACCGTTTTTGATTGAATCAAATTTTGCCTCTTAAATAATACAAACATG
1 GAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
* * * * *
563186 AATTGTCATACTAATCTCCATTCTTTTCAGTACTAGGCACCATAAACATAGTCTTCTCTTTAGGA
66 AATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGA
* * ** * * *
563251 TACGCGATATTGATG-TTTGGTTTCACAAGAAAGGCATTTTTTTCATCAGTTTTTGAAAAGTCTA
131 TACACGATATTGATGTTTTGGTTTCGCAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTA
** * * * *
563315 AGTTTATGCCTCAAATGAGATAAACATAGATTTTAGTATTGATCTTCATTCATTTTGTGATTA-G
196 AGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
** ** *
563379 --------GCACATTCTCCTTGTTAGGATAAATCTTATTGATGACTTTCTTTTGCATGGAAATCT
261 CACTATAAGCACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCAT-GAAATCT
* * * * *
563436 TTTATTTGCCCTATTTTTCTTAAAATCATAGTTCATCCCTTAAATAAGACAAGCATCGATTTTCA
325 TTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCG
* * * * ** *
563501 TAACAGTCTCCAAATATTTTTATGATTAGGAACCTAAAACACA-TGCCTTTCTTTAGGATACTTG
390 TAACAGTCTCC-ATTATTTTCAAGATT-GGAACCTAAAACACATTCCCTTTAATT-GGATACATG
* *
563565 ACATTGATACTTTGGTGTCGTAA
452 ACATTGATGCTTTGGTGTCGCAA
* *
563588 GAAAAGCTTTTCTTCCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGAGACAAACA
1 GAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAAT-A-AGACAAACA
* * * * *
563653 TGAATAGTCATACTAATCCCCAATCTTTTTAGGATTAGGCACCATAAACATGGTCTTCTTATAAG
64 TGAATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAG
* * * *
563718 GATACACAATATTGATATTTTGGTTTCACAACAAAGGCATTTTTCCCACCAATTTTTGTAAAGTC
129 GATACACGATATTGATGTTTTGGTTTCGCAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTC
* * * *
563783 TAAGTTTGTGCCTCAAATAAGACAAGCCCAT--ATTCTAGTAATGATCCTCATTCATTTTGTGAT
194 TAAGTTCGTGCCTCAAATGAGACAA--ACATGGATTCTAGTAATGATCTTCATTCATTTTGTGAT
* * * * * * * *
563846 TAGGCACAATAAACATAATCTCTTCATTAGGATAAGTGATATTGATAATTTT-TTTTGCTTGGAA
257 TAGGCACTATAAGCACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCAT-GAA
* * *
563910 ATCTTTTCTTTGCCCTATTTTCCTTGAAATCAAAGATCATCCCTTGAAA-AAGATAAGCATCGAT
321 ATCTTTTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTT-AAATAAGACAAGCATCGAT
* * ** * * *
563974 TCTCGTAACACTCTCTATTCCTTCCAGGATTGGGAA-CTAAAAACACATTCCCTTTAATAGGATA
385 TCTCGTAACAGTCTCCATTATTTTCAAGATT-GGAACCT-AAAACACATTCCCTTTAATTGGATA
* *
564038 CAAGACATTGTTGCTTTGGTGTCGCAA
448 CATGACATTGATGCTTTGGTGTCGCAA
*
564065 GAAAAGCTTTTCTTTCCA-CAGTTTTTGATGGAATCAAAGTTTGTCTCTTAAATAAGACAAACAT
1 GAAAAGCTTTTCTTTCCACCA-TTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACAT
* * * *
564129 GAATTA-TCATACTAATCCCTATTCATTTCAGGATTAGACACCATAAACATAGTCTTCTCATTTG
65 GAA-TAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAG
*
564193 GATACATGATATTGATGTTTTGGTTTCGCAAGAAAGGCA-TTTTCCCACCAATTTTTGTAAAGTC
129 GATACACGATATTGATGTTTTGGTTTCGCAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTC
* * * * * * *
564257 TAAGTCCGTGCCTCAAATAAGACAAGCATAGATTCTAGTAATGATTTTCTTTCATTTTGGGATTA
194 TAAGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTA
* *
564322 GGCACTATAAGCAC-TTCTCCTCATTAGGGTAAATAATATTGATGATTTTCTTTTGCATGGAAAT
259 GGCACTATAAGCACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCAT-GAAAT
* * * *
564386 CTTTTCTTTGCCCTATTTTCCTTAAAATCCAAA-TTCAACCCTTAAATCAGATAATCATCGATTC
323 CTTTTCTTTGCCCTATTTTCCTTAAAAT-CAAAGTTCATCCCTTAAATAAGACAAGCATCGATTC
* ** * * **
564450 TCGTAACAGTCTCTATTATTTTCCGGATTAGGAACCTAAAACGCATTCCC-ATCGTTAGGATACA
387 TCGTAACAGTCTCCATTATTTTCAAGATT-GGAACCTAAAACACATTCCCTTTAATT-GGATACA
*
564514 TGACATTGATGCTTTGGTGTCACAA
450 TGACATTGATGCTTTGGTGTCGCAA
* *** *
564539 GAAAAGCTTTTCTTTGCATTGTTTTTGATAGAATAAAAGTTTGTCTCTTAAATAAGACAAACATG
1 GAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
* * * * * * * *
564604 GATACTTATATTAATTCCTATT-TTTTAAGGATTAGGCACCATAAACAT-GTTTTCTCATTAGGA
66 AATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGA
*
564667 TACATGATATT
131 TACACGATATT
564678 TGTTAGGATC
Statistics
Matches: 3317, Mismatches: 490, Indels: 191
0.83 0.12 0.05
Matches are distributed among these distances:
445 117 0.04
446 30 0.01
447 225 0.07
448 4 0.00
449 1 0.00
450 1 0.00
451 1 0.00
454 2 0.00
458 1 0.00
459 2 0.00
460 1 0.00
461 2 0.00
462 1 0.00
463 2 0.00
464 3 0.00
465 4 0.00
466 111 0.03
467 103 0.03
468 3 0.00
469 78 0.02
470 94 0.03
471 9 0.00
472 248 0.07
473 105 0.03
474 630 0.19
475 1099 0.33
476 225 0.07
477 99 0.03
478 84 0.03
479 32 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (474 bp):
GAAAAGCTTTTCTTTCCACCATTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATG
AATAGTCATACTAATCCCCATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGA
TACACGATATTGATGTTTTGGTTTCGCAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTA
AGTTCGTGCCTCAAATGAGACAAACATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGG
CACTATAAGCACATTCTCCTCATTAGGATAAATGATATTGATGATTTTCTTTTGCATGAAATCTT
TTCTTTGCCCTATTTTCCTTAAAATCAAAGTTCATCCCTTAAATAAGACAAGCATCGATTCTCGT
AACAGTCTCCATTATTTTCAAGATTGGAACCTAAAACACATTCCCTTTAATTGGATACATGACAT
TGATGCTTTGGTGTCGCAA
Found at i:564385 original size:474 final size:473
Alignment explanation
Indices: 562795--564677 Score: 2272
Period size: 474 Copynumber: 4.0 Consensus size: 473
562785 CATAGTCTTA
* * *
562795 GTTTCGCAAGAAAGGCAATTTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATGAGA
1 GTTTCACAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATAAGA
* * * * *
562860 AAAAAATGGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGTACTATAAGCACATTCTTCT
66 CAAACATAGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAG--CATTCTCCT
* **
562925 CATTAGGATAAATGATATTGATGATTTTCTTTTGCATCGAAATAAATTT-TTTGCCCTATTTTCC
129 CATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAAT-CTTTTCTTTGCCCTATTTTCC
* * * * * * * * *
562989 TTAAAACCAATATTCAACCCTTAAATAAAACAATCATCAATTCTTGTAATAGTTTCCATTATTTT
193 TTAAAATCAA-ATTCAACCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCTATTATTTC
* * *
563054 CAGGATTGGGAACCTAAAACACATTCTCTTCAATAGGATACATGACATTGATGCCTTGGTGTCGC
257 CAGGATTAGGAACCTAAAACACATTCCCTTCAATAGGATACATGACATTGATGCTTTGGTGTCGC
* * * * *
563119 AAGAAAAGGTTTTCTTTCCACCGTTTTTGATTGAATCAAATTTTGCCTCTTAAATAATACAAACA
322 AAGAAAAGCTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACA
** * * *
563184 TGAATTGTCATACTAATCTCC-ATTCTTTTCAGTACTAGGCACCATAAACATAGTCTTCTCTTTA
387 TGAATACTCATACTAATC-CCTATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTA
*
563248 GGATACGCGATATTGATG-TTTG
451 GGATACACGATATTGATGTTTTG
** * * * * *
563270 GTTTCACAAGAAAGGCATTTTTTTCATCAGTTTTTGAAAAGTCTAAGTTTATGCCTCAAATGAGA
1 GTTTCACAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATAAGA
* * * **
563335 TAAACATAGATTTTAGTATTGATCTTCATTCATTTTGTGATTAGG--C----A-CATTCTCCTTG
66 CAAACATAGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAGCATTCTCCTCA
** * * *
563393 TTAGGATAAATCTTATTGATGACTTTCTTTTGCATGGAAATCTTTTATTTGCCCTATTTTTCTTA
131 TTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTA
* * * * * * **
563458 AAATCATAGTTCATCCCTTAAATAAGACAAGCATCGATTTTCATAACAGTCTCCAAATATTTTTA
196 AAATCA-AATTCAACCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCT-CTATTATTTCCA
* * * ** * * *
563523 TGATTAGGAACCTAAAACACATGCCTTTCTTTAGGATACTTGACATTGATACTTTGGTGTCGTAA
259 GGATTAGGAACCTAAAACACATTCCCTTCAATAGGATACATGACATTGATGCTTTGGTGTCGCAA
*
563588 GAAAAGCTTTTCTTCCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGAGACAAACA
324 GAAAAGCTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAAT-A-AGACAAACA
* * * * * * *
563653 TGAATAGTCATACTAATCCCCAATCTTTTTAGGATTAGGCACCATAAACATGGTCTTCTTATAAG
387 TGAATACTCATACTAATCCCTATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAG
* *
563718 GATACACAATATTGATATTTTG
452 GATACACGATATTGATGTTTTG
*
563740 GTTTCACAACAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATAAGA
1 GTTTCACAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATAAGA
* ** * * * * *
563805 CAAGCCCATATTCTAGTAATGATCCTCATTCATTTTGTGATTAGGCACAATAAACATAATCTCTT
66 CAAACATAGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAGCAT--TCTCCT
* * *
563870 CATTAGGATAAGTGATATTGATAATTTT-TTTTGCTTGGAAATCTTTTCTTTGCCCTATTTTCCT
129 CATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCT
* * * * * **
563934 TGAAATCAAAGATCATCCCTTGAAA-AAGATAAGCATCGATTCTCGTAACACTCTCTATTCCTTC
194 TAAAATCAAA-TTCAACCCTT-AAATAAGACAAGCATCGATTCTCGTAACAGTCTCTATTATTTC
* * * *
563998 CAGGATTGGGAA-CTAAAAACACATTCCCTTTAATAGGATACAAGACATTGTTGCTTTGGTGTCG
257 CAGGATTAGGAACCT-AAAACACATTCCCTTCAATAGGATACATGACATTGATGCTTTGGTGTCG
* *
564062 CAAGAAAAGCTTTTCTTTCCACAGTTTTTGATGGAATCAAAGTTTGTCTCTTAAATAAGACAAAC
321 CAAGAAAAGCTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAAC
* *
564127 ATGAATTA-TCATACTAATCCCTATTCATTTCAGGATTAGACACCATAAACATAGTCTTCTCATT
386 ATGAA-TACTCATACTAATCCCTATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATT
* *
564191 TGGATACATGATATTGATGTTTTG
450 AGGATACACGATATTGATGTTTTG
* **
564215 GTTTCGCAAGAAAGGCA-TTTTCCCACCAATTTTTGTAAAGTCTAAGTCCGTGCCTCAAATAAGA
1 GTTTCACAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATAAGA
* * * *
564279 CAAGCATAGATTCTAGTAATGATTTTCTTTCATTTTGGGATTAGGCACTATAAGCACTTCTCCTC
66 CAAACATAGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAGCA-TTCTCCTC
* *
564344 ATTAGGGTAAATAATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTT
130 ATTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTT
* * *
564409 AAAATCCAAATTCAACCCTTAAATCAGATAATCATCGATTCTCGTAACAGTCTCTATTATTTTCC
195 AAAAT-CAAATTCAACCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCTATTA-TTTCC
* * ** *
564474 -GGATTAGGAACCTAAAACGCATTCCCATCGTTAGGATACATGACATTGATGCTTTGGTGTCACA
258 AGGATTAGGAACCTAAAACACATTCCCTTCAATAGGATACATGACATTGATGCTTTGGTGTCGCA
* ** *
564538 AGAAAAGCTTTTCTTTGCATTGTTTTTGATAGAATAAAAGTTTGTCTCTTAAATAAGACAAACAT
323 AGAAAAGCTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACAT
* * * * * *
564603 GGATACTTATATTAATTCCTATT-TTTTAAGGATTAGGCACCATAAACAT-GTTTTCTCATTAGG
388 GAATACTCATACTAATCCCTATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGG
*
564666 ATACATGATATT
453 ATACACGATATT
564678 TGTTAGGATC
Statistics
Matches: 1198, Mismatches: 183, Indels: 57
0.83 0.13 0.04
Matches are distributed among these distances:
465 3 0.00
466 101 0.08
467 112 0.09
468 3 0.00
469 76 0.06
470 98 0.08
472 25 0.02
473 58 0.05
474 299 0.25
475 204 0.17
476 6 0.01
477 110 0.09
478 74 0.06
479 29 0.02
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (473 bp):
GTTTCACAAGAAAGGCATTTTTCCCACCAATTTTTGTAAAGTCTAAGTTTGTGCCTCAAATAAGA
CAAACATAGATTCTAGTAATGATCTTCATTCATTTTGTGATTAGGCACTATAAGCATTCTCCTCA
TTAGGATAAATGATATTGATGATTTTCTTTTGCATGGAAATCTTTTCTTTGCCCTATTTTCCTTA
AAATCAAATTCAACCCTTAAATAAGACAAGCATCGATTCTCGTAACAGTCTCTATTATTTCCAGG
ATTAGGAACCTAAAACACATTCCCTTCAATAGGATACATGACATTGATGCTTTGGTGTCGCAAGA
AAAGCTTTTCTTTCCACCGTTTTTGATAGAATCAAAGTTTGTCTCTTAAATAAGACAAACATGAA
TACTCATACTAATCCCTATTCTTTTCAGGATTAGGCACCATAAACATAGTCTTCTCATTAGGATA
CACGATATTGATGTTTTG
Found at i:564971 original size:20 final size:20
Alignment explanation
Indices: 564948--565012 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 20
564938 ATATCCAGAT
564948 GTATCGATACATTATGCTTA
1 GTATCGATACATTATGCTTA
*
564968 GTATCGATGC---A---TTA
1 GTATCGATACATTATGCTTA
564982 -TATCGATACATTATGCTTA
1 GTATCGATACATTATGCTTA
*
565001 GTATCGTTACAT
1 GTATCGATACAT
565013 ACCCAATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
13 8 0.23
14 3 0.09
16 1 0.03
17 1 0.03
19 3 0.09
20 19 0.54
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
GTATCGATACATTATGCTTA
Found at i:565119 original size:33 final size:33
Alignment explanation
Indices: 565062--565128 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
565052 CTAAGTGAAA
* **
565062 TGTATCGATACATGGGACAATGTATTGATACAT
1 TGTATCGATACATGAGACAATGTATCAATACAT
*
565095 TGTATCGATACATGAAGA-ATTGTATCAATACAT
1 TGTATCGATACATG-AGACAATGTATCAATACAT
565128 T
1 T
565129 ATGCTCAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGAGACAATGTATCAATACAT
Found at i:566746 original size:15 final size:15
Alignment explanation
Indices: 566722--566753 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
566712 CATTAAAGAC
566722 GATGAAGATAATGAT
1 GATGAAGATAATGAT
*
566737 GATGATGATAATGAT
1 GATGAAGATAATGAT
566752 GA
1 GA
566754 AGTTGACTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (15 bp):
GATGAAGATAATGAT
Found at i:571156 original size:16 final size:16
Alignment explanation
Indices: 571135--571172 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
571125 TTGTATTTGT
571135 TTGATACGAATAAGGA
1 TTGATACGAATAAGGA
* *
571151 TTGATA-GGATAAGGT
1 TTGATACGAATAAGGA
571166 TTGATAC
1 TTGATAC
571173 TAACTTTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (16 bp):
TTGATACGAATAAGGA
Found at i:571233 original size:18 final size:17
Alignment explanation
Indices: 571206--571239 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
571196 TTTTTCCAGG
571206 ATTTTTTGTATCGATAC
1 ATTTTTTGTATCGATAC
571223 ATTTCTTTGTATCGATA
1 ATTT-TTTGTATCGATA
571240 TATTGTATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
ATTTTTTGTATCGATAC
Found at i:575140 original size:32 final size:32
Alignment explanation
Indices: 575099--575174 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
575089 CATTTAATAG
*
575099 TGTATCGATACATCTGGGCAAATTTGCCTGCA
1 TGTATCGATACATCTGGGCAAATTTACCTGCA
*
575131 TGTATCGATAGATCTGGGCAAATTTACCTGCA
1 TGTATCGATACATCTGGGCAAATTTACCTGCA
575163 TGTATCGATACA
1 TGTATCGATACA
575175 AAGATTAGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATCTGGGCAAATTTACCTGCA
Found at i:575201 original size:13 final size:13
Alignment explanation
Indices: 575183--575207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
575173 CAAAGATTAG
575183 TGTATCGATACAA
1 TGTATCGATACAA
575196 TGTATCGATACA
1 TGTATCGATACA
575208 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:575288 original size:13 final size:13
Alignment explanation
Indices: 575270--575294 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
575260 ACAAAAAAAA
575270 TGTATCGATACAT
1 TGTATCGATACAT
575283 TGTATCGATACA
1 TGTATCGATACA
575295 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:577789 original size:462 final size:465
Alignment explanation
Indices: 576634--577797 Score: 1382
Period size: 462 Copynumber: 2.5 Consensus size: 465
576624 CAAATGTTTT
* * *
576634 TCTTATTTAAGCG-TAAACATTGATTTTAA-GAAAATAGGGCAAAGAAAAATTTTCATGCAAAAG
1 TCTTATTTAAGGGAT-AACTTTGA-TTTAAGGAAAATAGGGC-AA-AAAAATTTTCAGGCAAAAG
* ** * * * * *
576697 AAAATCTCAATATCA-TTATTCCTAATGAGGTAATGCGCTTATAGTGTCTAATCACAAAAAGAAT
62 AAAATCACAATATCACTTA-TCCTAATGAAATATTGTGTTTATAGTGCCTAATCACAAAATGAAT
* * * * * * *
576761 AAAAGATCGTTACTAGAATCCATGTT-TGCCTCATTTGAGGCACAAACTTAGACTTTACAATATT
126 -GAGGATCATTACTAGAATACGTGTTGT-TCTCATTTGAGGCACAAACTTAGACTTTACAAAATT
* **
576825 GGTGGGAAAAATACTTTT-TT-TACGAAACCAAAACATCAATATCATGTATCCTAAAGAGAAGAC
189 GGTGGGAAAAATGCTTTTCTTGTA--AAACCAAAACATCAATATCACATATCCTAAAGAGAAGAC
* * *
576888 TATGTTGATGGTGCCTAATCCTGAAAAGAATGGGTATTAGTATGACAATTCATGTTTGTCTTTTT
252 TATGTTGATGGTGCCTAATCCTGAAAAGAATGGGTATTAGTATGACAATTCATGATTATCTATTT
* *
576953 TAAGAGACAAACTTTGATTCCATCAAAACCTATGGAAAGAAAAGCTTTTCTTGCGACACCAAAGC
317 CAAGAGACAAACTTTGATTCCATCAAAAACTATGGAAAGAAAAGCTTTTCTTGCGACACCAAAGC
* *
577018 TTAATGTCATGTATCTTATCGAAAGGAATGTGTTTTTGGTTCCCAATCTAAAAAGAATGGAGATT
382 ATAATGTCATGTATCCTATCGAAAGGAATGTGTTTTTGGTTCCCAATCTAAAAAGAATGGAGA-T
577083 GTTACGAGAATCGATGCTTG
446 GTTACGAGAATCGATGCTTG
* * * *
577103 TCTTATTTAAGGGATAGACTTTGATTTTAGAAAAATAGGGTAAAGAAAAGATTTCTAGG-AAAAG
1 TCTTATTTAAGGGATA-ACTTTGATTTAAGGAAAATAGGGCAAA-AAAA-TTTTC-AGGCAAAA-
* * *
577167 GAAAATCATTAATATCACTTATCCTATTGAAAAGATTGTGTTTATAGTGCCTAATCACAAAATGA
61 GAAAATCA-CAATATCACTTATCCTAATG-AAATATTGTGTTTATAGTGCCTAATCACAAAATGA
* *
577232 ATGAGGATCATTACTAGAATTTATGT-TTG-TCTC-TTTGAGGCACAAACATAGACTTTACAAAA
124 ATGAGGATCATTACTAGAA--TACGTGTTGTTCTCATTTGAGGCACAAACTTAGACTTTAC-AAA
* * *
577294 ATTGGTGGGAAAAATGCCTTTCTTGTGAAACCAAAACATCAAT-TCGCATATCCTAATA-AGAAG
186 ATTGGTGGGAAAAATGCTTTTCTTGTAAAACCAAAACATCAATATCACATATCCTAA-AGAGAAG
* *
577357 ACTATGCTT-ATGGTGCCTAATCTTG-AAAGAAT-GGTATT-GTCTGACAATTCATGATTATCCT
250 ACTATG-TTGATGGTGCCTAATCCTGAAAAGAATGGGTATTAGTATGACAATTCATGATTAT-CT
* *
577418 ATTTCAAG-GA-AAACTTTGATTCCATCAAAAACTGTGGAAAGAAAAGCTTTTCTTGCGATC-TC
313 ATTTCAAGAGACAAACTTTGATTCCATCAAAAACTATGGAAAGAAAAGCTTTTCTTGCGA-CACC
* * * * * *
577480 AAAGCATCATGTCATGTTTCCTCTTGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAAT-
377 AAAGCATAATGTCATGTATCCTATCGAAAGGAATGTGTTTTTGGTTCCCAATC-TAAAAAGAATG
*
577544 G-GATGTGTATGAGAATCGATGCTTG
441 GAGATGT-TACGAGAATCGATGCTTG
*
577569 TCTTATTTAAGGGATGAACTTTGATTTAAGGAAAATAGAGCAATAAAAATTTTCAGGCAAAAGAA
1 TCTTATTTAAGGGAT-AACTTTGATTTAAGGAAAATAGGGCAA-AAAAATTTTCAGGCAAAAGAA
* * *
577634 AATCACAATATCACTTATCTTAATGAAATATTGTATTTATAGTGCCGAATCACAAAATGAATGAG
64 AATCACAATATCACTTATCCTAATGAAATATTGTGTTTATAGTGCCTAATCACAAAATGAATGAG
* * *
577699 GATCATTACT-GAATACGTGTTGTTTTCATTTGAGGCACGAACTTATACTTTCACAAAATTGGTG
129 GATCATTACTAGAATACGTGTTGTTCTCATTTGAGGCACAAACTTAGACTTT-ACAAAATTGGTG
577763 GGAAAAATGCTTTTCTTGTAAAACCAAAAGCATCA
193 GGAAAAATGCTTTTCTTGTAAAACCAAAA-CATCA
577798 TATTGTAGCT
Statistics
Matches: 596, Mismatches: 69, Indels: 66
0.82 0.09 0.09
Matches are distributed among these distances:
459 4 0.01
460 3 0.01
461 6 0.01
462 104 0.17
463 24 0.04
464 11 0.02
465 11 0.02
466 60 0.10
467 96 0.16
468 30 0.05
469 37 0.06
470 31 0.05
471 69 0.12
472 71 0.12
473 36 0.06
474 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (465 bp):
TCTTATTTAAGGGATAACTTTGATTTAAGGAAAATAGGGCAAAAAAATTTTCAGGCAAAAGAAAA
TCACAATATCACTTATCCTAATGAAATATTGTGTTTATAGTGCCTAATCACAAAATGAATGAGGA
TCATTACTAGAATACGTGTTGTTCTCATTTGAGGCACAAACTTAGACTTTACAAAATTGGTGGGA
AAAATGCTTTTCTTGTAAAACCAAAACATCAATATCACATATCCTAAAGAGAAGACTATGTTGAT
GGTGCCTAATCCTGAAAAGAATGGGTATTAGTATGACAATTCATGATTATCTATTTCAAGAGACA
AACTTTGATTCCATCAAAAACTATGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATAATGTCA
TGTATCCTATCGAAAGGAATGTGTTTTTGGTTCCCAATCTAAAAAGAATGGAGATGTTACGAGAA
TCGATGCTTG
Found at i:578617 original size:20 final size:20
Alignment explanation
Indices: 578586--578640 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
578576 TACCAGTTTC
*
578586 ATGTATCGATACAATT-GGT
1 ATGTATCAATACAATTGGGT
*
578605 GTGTTATCAATACAATTGGGT
1 ATG-TATCAATACAATTGGGT
578626 ATGTATCAATACAAT
1 ATGTATCAATACAAT
578641 GTATCGATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.06
20 24 0.77
21 5 0.16
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (20 bp):
ATGTATCAATACAATTGGGT
Done.