Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold313
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: 790584
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 4 of 6
Found at i:371007 original size:228 final size:227
Alignment explanation
Indices: 370439--371379 Score: 1138
Period size: 228 Copynumber: 4.2 Consensus size: 227
370429 CATGACTCTA
* * * * *
370439 TGGCACTC-TTTTCTCTTTAAAGCCCCACAACTCCGTGGCACCCCTGTT-AGCCCACACCTCTGT
1 TGGCACTCTTTTTC-CTTTTAAG-TCCACAACTCCGTGGCA-CCCTTTTAAGCCCACAACTCCGT
* * * *
370502 GGCATCCCTTTTTCTTTTTAAGTCCACAACTCTGTGGCACCTTATTACTTTTAAGTCCACAACTC
63 GGCA-CTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTC
* * *
370567 TGTGGCACCTTATTACTTTTAAGTCCACAACTCCG-GGCA-C-----CCTTTTAAGCCCACAACT
127 TGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACT
* *
370625 CCGTGGCACTCTTTTTCATTTTAAGTCCACAACTCCG
192 CCGTGGCAC-CTTTTTCTTTTTAAGCCCACAACTCCG
* * *
370662 TGGCA--C-----CCTTTTAAGTCCATAACACCGTGGCACCCTTTTAAGCCCACAACACCGTGGC
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGC
* *
370720 ACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTTCACAACTCTATG
66 ACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTG
*
370785 GCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGTACCTTGTTCCTTTTAAGTCCACAACTCCGT
131 GCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGT
* *
370850 GGCACTTTTTTCTTTTTAAAGCCCACAACTTCG
196 GGCACCTTTTTCTTTTT-AAGCCCACAACTCCG
**
370883 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCCTTTTAAGCCCACAACTCCGTGGC
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGC
* ** *
370948 ACTCTTTTTCCTTTTAAGTCCACAACTCTATATCACCTTTTTCCTTTTAGGTCCACAACTCTGTG
66 ACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTG
* * * *
371013 CCACCTTTTTCCTTTTAAGTCCATAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTTCGT
131 GCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGT
**
371078 GGCACCTTTTTCTTTTTAAAGCCCACAACTTTG
196 GGCACCTTTTTCTTTTT-AAGCCCACAACTCCG
* * * *
371111 TGGCACTCTTTTTCTTTTTGAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGC
1 TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGC
* * * *
371176 A-TATTTTTCCTTTTAAATCCACAACTCCGTGGCACTCTTTTTCTTTTTAAGTCCACAACTCTGT
66 ACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC-CTTTTTCCTTTTAAGTCCACAACTCTGT
* * * * *
371240 GGCA-C-----CCTTTTAAGTGCACAACTCCGTGGCATCTTTTTCCTTTTAAATCCACAACTCTG
130 GGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCG
* **
371299 TGGCACCTTTTTCCTTTTAAGTTCACAACTCCG
195 TGGCACCTTTTTCTTTTTAAGCCCACAACTCCG
** *
371332 TGGCAC-CTTGATCCTTTTAAGTCCACAACGACTCCGTGGCACCTTTTT
1 TGGCACTCTTTTTCCTTTTAAGTCCAC-A--ACTCCGTGGCACCCTTTT
371380 CCTTTTTAAG
Statistics
Matches: 626, Mismatches: 72, Indels: 40
0.85 0.10 0.05
Matches are distributed among these distances:
214 93 0.15
215 33 0.05
216 8 0.01
217 1 0.00
220 26 0.04
221 63 0.10
222 63 0.10
223 22 0.04
227 29 0.05
228 288 0.46
ACGTcount: A:0.20, C:0.31, G:0.12, T:0.36
Consensus pattern (227 bp):
TGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGC
ACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTG
GCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGT
GGCACCTTTTTCTTTTTAAGCCCACAACTCCG
Found at i:371645 original size:21 final size:21
Alignment explanation
Indices: 371578--371645 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
371568 AATGTCACTG
*
371578 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCATATTGGCA
* * **
371599 CCTTTAAGTCCAACATCGCTGG--
1 CCTTGAA-T-CAGCAT-ATTGGCA
371621 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
371642 CCTT
1 CCTT
371646 TACCATCTTG
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 3 0.09
20 5 0.15
21 11 0.33
22 7 0.21
23 4 0.12
24 3 0.09
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:371730 original size:48 final size:47
Alignment explanation
Indices: 371540--372094 Score: 414
Period size: 48 Copynumber: 12.2 Consensus size: 47
371530 GCCTTAGATT
* * * *
371540 AGCATATTGGCACCTTGTATTTAAGACCAATGTCACT-GCCTTGAATC
1 AGCACATTGGCACCTT-TCTTTAAGACCAATATCGCTGGCCTTGAATC
* *
371587 AGCACATTGGCA-C---CTTTAAGTCCAACATCGCTGGCCTTGAATC
1 AGCACATTGGCACCTTTCTTTAAGACCAATATCGCTGGCCTTGAATC
* * * *
371630 AGCATATTGGCACCTTTACCATCTTGAGTCCAATATCGCTAGCCTTGAATC
1 AGCACATTGGCACCTTT--C-T-TTAAGACCAATATCGCTGGCCTTGAATC
* * *
371681 AGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCGTTGAATC
1 AGCACATTGGCACCTT-TCTTTAAGACCAATATCGCTGGCCTTGAATC
*
371729 AGCACATTGGCA-----C---AAGTCCAATATCGCTGGCCTTGAATC
1 AGCACATTGGCACCTTTCTTTAAGACCAATATCGCTGGCCTTGAATC
* *
371768 AGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATC
1 AGCACATTGGCACCTT-TCTTTAAGACCAATATCGCTGGCCTTGAATC
* *
371816 AGCACATTGGCA-----C---AAGTCCAATATCGCTGGCCTTGAATT
1 AGCACATTGGCACCTTTCTTTAAGACCAATATCGCTGGCCTTGAATC
* *
371855 AGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATC
1 AGCACATTGGCACCTT-TCTTTAAGACCAATATCGCTGGCCTTGAATC
* * * * *
371903 AGCACATTGGCA--------TAAGCCCAATATCGTTAGCTTTGAATT
1 AGCACATTGGCACCTTTCTTTAAGACCAATATCGCTGGCCTTGAATC
* * * *
371942 AGCATATTGGCACCTTGCCTTTAAGACCAATGTCGCTAGCCTTGAATC
1 AGCACATTGGCACCTT-TCTTTAAGACCAATATCGCTGGCCTTGAATC
* * * **
371990 AGCACATTGGCACCATCATCTTTAAGCCCAACATCGCTGGCCTTGTCTC
1 AGCACATTGGCACC-T-TTCTTTAAGACCAATATCGCTGGCCTTGAATC
* * * * ** * *
372039 AGCACATTGGCATTCTTT-TTCAAGTCTAAGGTCACTGGCCATGAATC
1 AGCACATTGGCA-CCTTTCTTTAAGACCAATATCGCTGGCCTTGAATC
372086 AGCACATTG
1 AGCACATTG
372095 TCATTCTTCA
Statistics
Matches: 405, Mismatches: 63, Indels: 80
0.74 0.11 0.15
Matches are distributed among these distances:
39 100 0.25
42 16 0.04
43 21 0.05
44 1 0.00
45 2 0.00
46 1 0.00
47 40 0.10
48 139 0.34
49 40 0.10
50 3 0.01
51 41 0.10
52 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (47 bp):
AGCACATTGGCACCTTTCTTTAAGACCAATATCGCTGGCCTTGAATC
Found at i:371765 original size:39 final size:39
Alignment explanation
Indices: 371703--371954 Score: 198
Period size: 39 Copynumber: 6.0 Consensus size: 39
371693 CCTTGTCTTT
* *
371703 AAGACCAATGTCGCTGGCGTTGAATCAGCACATTGGCAC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
371742 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA------C
*
371787 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
371829 AAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTGTC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA------C
* *
371874 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAT
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * * * * *
371916 AAGCCCAATATCGTTAGCTTTGAATTAGCATATTGGCAC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
371955 CTTGCCTTTA
Statistics
Matches: 171, Mismatches: 24, Indels: 36
0.74 0.10 0.16
Matches are distributed among these distances:
39 99 0.58
42 1 0.01
45 2 0.01
48 69 0.40
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (39 bp):
AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:371802 original size:87 final size:87
Alignment explanation
Indices: 371656--372002 Score: 595
Period size: 87 Copynumber: 4.0 Consensus size: 87
371646 TACCATCTTG
371656 AGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGC
1 AGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGC
*
371721 GTTGAATCAGCACATTGGCACA
66 CTTGAATCAGCACATTGGCACA
*
371743 AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGC
1 AGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGC
371808 CTTGAATCAGCACATTGGCACA
66 CTTGAATCAGCACATTGGCACA
* *
371830 AGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGC
1 AGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGC
*
371895 CTTGAATCAGCACATTGGCATA
66 CTTGAATCAGCACATTGGCACA
* * * * * *
371917 AGCCCAATATCGTTAGCTTTGAATTAGCATATTGGCACCTTGCCTTTAAGACCAATGTCGCTAGC
1 AGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGC
371982 CTTGAATCAGCACATTGGCAC
66 CTTGAATCAGCACATTGGCAC
372003 CATCATCTTT
Statistics
Matches: 249, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 249 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (87 bp):
AGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGC
CTTGAATCAGCACATTGGCACA
Found at i:372477 original size:20 final size:20
Alignment explanation
Indices: 372449--372523 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
372439 TTTTACCCAG
372449 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
372469 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
372489 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
372509 ATGTATCGATACATT
1 ATGTATCGATACATT
372524 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:372509 original size:40 final size:39
Alignment explanation
Indices: 372449--372526 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
372439 TTTTACCCAG
*
372449 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
372489 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
372527 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:379588 original size:16 final size:17
Alignment explanation
Indices: 379559--379606 Score: 64
Period size: 15 Copynumber: 2.8 Consensus size: 17
379549 AGTCGAAAGA
379559 AAAAGCACAAAAAAATG-
1 AAAAGCA-AAAAAAATGC
379576 AAAAG-AAAAAAAATGC
1 AAAAGCAAAAAAAATGC
379592 AAAAGCAAAATAAAA
1 AAAAGCAAAA-AAAA
379607 AGGGAACAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.32
16 6 0.21
17 9 0.32
18 4 0.14
ACGTcount: A:0.75, C:0.08, G:0.10, T:0.06
Consensus pattern (17 bp):
AAAAGCAAAAAAAATGC
Found at i:383987 original size:52 final size:52
Alignment explanation
Indices: 383909--384026 Score: 202
Period size: 52 Copynumber: 2.3 Consensus size: 52
383899 AAGTTGCTTG
*
383909 CATGTATCGATACATTTATTAGTGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATTTATTAATGTATCGATACATCTGGGCAAATTTGCCTA
*
383961 CATGTATCGATACATTT-TATAATGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTAT-TAATGTATCGATACATCTGGGCAAATTTGCCTA
384013 CATGTATCGATACA
1 CATGTATCGATACA
384027 AAGATCAGTA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 1 0.02
52 62 0.98
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
CATGTATCGATACATTTATTAATGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:384998 original size:107 final size:107
Alignment explanation
Indices: 384856--385091 Score: 318
Period size: 107 Copynumber: 2.2 Consensus size: 107
384846 ATGAAGGTGC
* **
384856 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-GACAAAGACGCCAATATGCTGAT
1 CAATGTGCTGATTCAAGGCCAGCGACACTAAACTTAAAGATGGA-AAAGACGCCAATATGCTGAT
384920 TCAAGGCCAGCGATATTGGACTTAAAGATGACAAAAAGGATGT
65 TCAAGGCCAGCGATATTGGACTTAAAGATGACAAAAAGGATGT
* * **
384963 CAATGTGTTGATTCAAGGCCAGCTACACTAAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACACTAAACTTAAAGATGGAAAAGACGCCAATATGCTGATT
* * * *
385028 CAAGGCCAGCTATATTGGACTTAAAGGTG--GAAAAGG-TGC
66 CAAGGCCAGCGATATTGGACTTAAAGATGACAAAAAGGATGT
* *
385067 CAATATGCTGATTCAAGGCTAGCGA
1 CAATGTGCTGATTCAAGGCCAGCGA
385092 TATTGGACTT
Statistics
Matches: 113, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
104 23 0.20
105 6 0.05
107 82 0.73
108 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (107 bp):
CAATGTGCTGATTCAAGGCCAGCGACACTAAACTTAAAGATGGAAAAGACGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAAGATGACAAAAAGGATGT
Found at i:384999 original size:55 final size:54
Alignment explanation
Indices: 384849--385329 Score: 342
Period size: 52 Copynumber: 9.8 Consensus size: 54
384839 GTTAAAGATG
*
384849 AAGG-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC-A
1 AAGGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
* *
384901 AA-GACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAA
1 AAGGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC-AA
* * * * * ** *
384955 AAGGATGTCAATGTGTTGATTCAAGGCCAGCTACACTAAACTTAAAGATG-GAA
1 AAGGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
* * * *
385008 AAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTG-GAA
1 AAGGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
* *
385060 AAGG-TGCCAATATGCTGATTCAAGGCTAGCGATATTGGAC-T-----T----A
1 AAGGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
* *
385103 AAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG----
1 AAGGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
* * *
385152 AAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT----A-G----
1 AAGGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
* *
385196 -AGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC-T-----T----A
1 AAGGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
* * *
385238 AA-GATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-GA-AG
1 AAGGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
* *
385287 AAGG-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 AAGGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
385330 GAAGGGTTGC
Statistics
Matches: 367, Mismatches: 38, Indels: 50
0.81 0.08 0.11
Matches are distributed among these distances:
42 2 0.01
43 110 0.30
44 3 0.01
45 1 0.00
46 1 0.00
49 76 0.21
50 1 0.00
51 2 0.01
52 124 0.34
53 6 0.02
54 3 0.01
55 38 0.10
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (54 bp):
AAGGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAA
Found at i:385120 original size:43 final size:43
Alignment explanation
Indices: 385059--385334 Score: 318
Period size: 43 Copynumber: 6.1 Consensus size: 43
385049 TAAAGGTGGA
* * *
385059 AAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
385102 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
385145 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
385194 AGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
385237 AAAGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
385280 AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
385329 AGAAGG
1 A-AAGG
385335 GTTGCCACCG
Statistics
Matches: 203, Mismatches: 18, Indels: 23
0.83 0.07 0.09
Matches are distributed among these distances:
43 118 0.58
44 6 0.03
45 1 0.00
47 1 0.00
48 1 0.00
49 76 0.37
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:385127 original size:21 final size:20
Alignment explanation
Indices: 385060--385127 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
385050 AAAGGTGGAA
385060 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
385081 AAGGCTAGCGATATTG--GACTTA
1 AAGG-T-GCCA-ATTGCTGA-TTC
385103 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
385124 AAGG
1 AAGG
385128 CCAGCTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Found at i:385207 original size:92 final size:92
Alignment explanation
Indices: 385009--385316 Score: 403
Period size: 92 Copynumber: 3.3 Consensus size: 92
384999 AAGATGGAAA
* *
385009 AGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGGAAAAGGTGCCAATATG
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATG
* * *
385074 CTGATTCAAGGCTAGCGATATTGGACTTAA
63 CTGATTCAAGGCCAGCTATATTGGACTTAG
*
385104 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTG
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTG
*
385169 ATTCAAGGCCAGCTATATTGGGCTTAG
66 ATTCAAGGCCAGCTATATTGGACTTAG
* *
385196 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-G-A--TGCCAATGTGCTG
1 AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTG
*
385255 ATTCAAGGCCAGCTACATTGGACTTAAAGAAG
66 ATTCAAGGCCAGCTATATTGGACTT-----AG
385287 AAGGTGCCAATATGCTGATTCAAGGCCAGC
1 -AGGTGCCAATATGCTGATTCAAGGCCAGC
385317 GATATTGGGC
Statistics
Matches: 196, Mismatches: 11, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
86 35 0.18
88 1 0.01
89 1 0.01
90 1 0.01
91 4 0.02
92 109 0.56
94 1 0.01
95 44 0.22
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (92 bp):
AGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTG
ATTCAAGGCCAGCTATATTGGACTTAG
Found at i:385303 original size:135 final size:135
Alignment explanation
Indices: 385061--385331 Score: 479
Period size: 135 Copynumber: 2.0 Consensus size: 135
385051 AAGGTGGAAA
* * *
385061 AGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGCCAATGTGCTGATTCAA
* *
385126 GGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGG
66 GGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGG
385191 CTTAG
131 CTTAG
* *
385196 AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGCCAATGTGCTGATTCAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGCCAATGTGCTGATTCAA
385261 GGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGG
66 GGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGG
385326 CTTAG
131 CTTAG
385331 A
1 A
385332 AGGGTTGCCA
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
135 129 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (135 bp):
AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGCCAATGTGCTGATTCAA
GGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGG
CTTAG
Found at i:385373 original size:33 final size:33
Alignment explanation
Indices: 385329--385561 Score: 384
Period size: 33 Copynumber: 7.2 Consensus size: 33
385319 TATTGGGCTT
*
385329 AGAAGGGTTGCCACCGACTTGCGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
385362 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
385395 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
385428 AAGAA-GGTTGCCACCGACTTGTGTGGGCTTT-G
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
385460 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
385493 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
385524 AGAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
385557 AGAAG
1 AGAAG
385562 CGTGAAAGAT
Statistics
Matches: 188, Mismatches: 7, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
31 7 0.04
32 82 0.44
33 95 0.51
34 4 0.02
ACGTcount: A:0.19, C:0.18, G:0.36, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:385533 original size:64 final size:64
Alignment explanation
Indices: 385322--385561 Score: 394
Period size: 64 Copynumber: 3.7 Consensus size: 64
385312 CCAGCGATAT
* *
385322 TGGGC-TT-AGAAGGGTTGCCACCGACTTGCGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTG
385385 TGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGT
1 TGGGCTTT-GAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGTTGCCACCGACTTGT
385450 G
64 G
* *
385451 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
*
385515 TGGGCTTTGAGAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAG
385562 CGTGAAAGAT
Statistics
Matches: 166, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
63 5 0.03
64 67 0.40
65 33 0.20
66 57 0.34
67 4 0.02
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (64 bp):
TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTG
Found at i:385705 original size:34 final size:32
Alignment explanation
Indices: 385566--386087 Score: 307
Period size: 34 Copynumber: 16.6 Consensus size: 32
385556 GAGAAGCGTG
*
385566 AAAGA-TGCCACGAAGTTGTGGACTTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGACTT-AAAGGA
*
385598 ACAAG-GTGCCACGGGGTTGTGGACTTTAAAAGGGGA
1 A-AAGAGTGCCACGGAGTTGTGGAC-TT-AAA--GGA
* * *
385634 AAAGAGTGCCACAGAGTTGTGGGCTT----TA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAGGA
* *
385662 AAAGGGTGCCACAGAGTTGTGGACTTAGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGACTTA-AAGGA
*
385695 AAACGAGTGCCACGGAGTTGTGGGCTT-----A
1 AAA-GAGTGCCACGGAGTTGTGGACTTAAAGGA
* * *
385723 AAAGTGTGCCACAGAGTTGTGGACTTAGAAAAGA
1 AAAGAGTGCCACGGAGTTGTGGACTT--AAAGGA
* *
385757 AAA-AGGTGCCACGGAGTCGTGGGCTTAAAAGGAA
1 AAAGA-GTGCCACGGAGTTGTGGACTT-AAAGG-A
* * * * *
385791 AAAGAGTGCCACAGAATTATGGGCTT----TA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAGGA
* *
385819 AAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTA-AAGG-A
* *
385853 AAAGAGTGCCATGGAGTTGTGGGCTT-----A
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAGGA
* *
385880 AAAGGGTGCCACGGAGTTGTGGACTTAGAAAAGA
1 AAAGAGTGCCACGGAGTTGTGGACTT--AAAGGA
* *
385914 AAA-AGGTGCCACGGAGTCGTGGGCTTAAAAGGAA
1 AAAGA-GTGCCACGGAGTTGTGGACTT-AAAGG-A
* * * *
385948 AAAGAGTGCCACGAAATTGTGGGCTT----TA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAGGA
* *
385976 AAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTA-AAGG-A
386010 AAAGAGTGCCACGGAGTTGTAGG-CTT-----A
1 AAAGAGTGCCACGGAGTTGT-GGACTTAAAGGA
*
386037 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAGAGTGCCACGGAGTTGTGGACTT-AAAGGA
386070 AAAGAGTGCCACGGAGTT
1 AAAGAGTGCCACGGAGTT
386088 ATGGGCTTTG
Statistics
Matches: 381, Mismatches: 57, Indels: 103
0.70 0.11 0.19
Matches are distributed among these distances:
26 2 0.01
27 67 0.18
28 74 0.19
32 1 0.00
33 49 0.13
34 159 0.42
35 9 0.02
36 20 0.05
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (32 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAAAGGA
Found at i:385734 original size:61 final size:60
Alignment explanation
Indices: 385602--386095 Score: 375
Period size: 61 Copynumber: 7.9 Consensus size: 60
385592 AAAGGAACAA
* * *
385602 GGTGCCACGGGGTTGTGGACTTTAAAAGGGGAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAG
1 GGTGCCACAGAGTTGTGGAC-TTAAAA--GGAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAG
*
385666 GGTGCCACAGAGTTGTGGACTTAGAAGGAAAACGAGTGCCACGGAGTTGTGGGCTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAA-GAGTGCCACGGAGTTGTGGGCTTAAAAG
* * *
385727 TGTGCCACAGAGTTGTGGACTTAGAAAAGAAAA-AGGTGCCACGGAGTCGTGGGCTTAAAAGG
1 GGTGCCACAGAGTTGTGGACTTA-AAAGGAAAAGA-GTGCCACGGAGTTGTGGGCTTAAAA-G
* * * * *
385789 AAAAAGAGTGCCACAGAATTATGGGCTTTAAAA-G----G-GTGCCACAGAGTTGTGGACTTAGA
1 -----G-GTGCCACAGAGTTGTGGAC-TTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTT---
385848 AGGAAAAAG
56 ----AAAAG
* ** * *
385857 AGTGCCATGGAGTTGTGGGCTTAAAA-G----G-GTGCCACGGAGTTGTGGACTTAGAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTT--AAAAG
* * * * *
385913 AAAAAGGTGCCACGGAGTCGTGGGCTTAAAAGGAAAAAGAGTGCCACGAAATTGTGGGCTTTAAA
1 -----GGTGCCACAGAGTTGTGGACTTAAAAGG-AAAAGAGTGCCACGGAGTTGTGGGC-TTAAA
385978 AG
59 AG
* *
385980 GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTAGGCTTAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
* *
386041 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTATGGGCTT
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTT
386096 TGCAGAAAAG
Statistics
Matches: 358, Mismatches: 40, Indels: 68
0.77 0.09 0.15
Matches are distributed among these distances:
56 5 0.01
60 26 0.07
61 143 0.40
62 109 0.30
63 5 0.01
64 18 0.05
67 7 0.02
68 36 0.10
69 9 0.03
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (60 bp):
GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
Found at i:386068 original size:27 final size:27
Alignment explanation
Indices: 386009--386068 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 27
385999 CTTAGAAGGA
*
386009 AAAAGAGTGCCACGGAGTTGTAGGCTT
1 AAAAGGGTGCCACGGAGTTGTAGGCTT
386036 AAAAGGGTGCCACGGAGTTGT-GGACTT
1 AAAAGGGTGCCACGGAGTTGTAGG-CTT
386063 AAAAGG
1 AAAAGG
386069 AAAAGAGTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTAGGCTT
Found at i:386129 original size:32 final size:31
Alignment explanation
Indices: 386050--386164 Score: 88
Period size: 31 Copynumber: 3.6 Consensus size: 31
386040 GGGTGCCACG
** * **
386050 GAGTTGTGGACTTAAAAGGAAAAGAGTGCCACG
1 GAGTTGTGGACTT-TGA-GAAAAGATTGCCAAT
* *
386083 GAGTTATGGGCTTTGCAGAAAAGGA-TGCCAAT
1 GAGTTGTGGACTTTG-AGAAAA-GATTGCCAAT
* *
386115 GAGTTGTGGACTTTGAGAAGAGATTGCCACT
1 GAGTTGTGGACTTTGAGAAAAGATTGCCAAT
* *
386146 GAGTCGTGGACTTTAAGAA
1 GAGTTGTGGACTTTGAGAA
386165 GGTATTTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
30 2 0.03
31 28 0.42
32 23 0.34
33 14 0.21
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.24
Consensus pattern (31 bp):
GAGTTGTGGACTTTGAGAAAAGATTGCCAAT
Found at i:386149 original size:31 final size:30
Alignment explanation
Indices: 385566--386164 Score: 195
Period size: 34 Copynumber: 19.0 Consensus size: 30
385556 GAGAAGCGTG
* *
385566 AAAGATGCCACGAAGTTGTGGACTTAAAAGGA
1 AAAGATGCCACGGAGTTGTGGACTT-TAA-GA
* *
385598 ACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGGA
1 A-AAGATGCCACGGAGTTGTGGACTTT--AA---GA
* *
385634 AAAGAGTGCCACAGAGTTGTGGGCTTT-A-A
1 AAAGA-TGCCACGGAGTTGTGGACTTTAAGA
* * * *
385663 AAGGGTGCCACAGAGTTGTGGACTTAGAAGGA
1 AAAGATGCCACGGAGTTGTGGACTT-TAA-GA
*
385695 AAACGAGTGCCACGGAGTTGTGGGC-TTAA-A
1 AAA-GA-TGCCACGGAGTTGTGGACTTTAAGA
** * *
385725 AGTG-TGCCACAGAGTTGTGGACTTAGAAAAGAA
1 AAAGATGCCACGGAGTTGTGGACTT---TAAG-A
* * * *
385758 AAAGGTGCCACGGAGTCGTGGGCTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTT-TAA-G-A
* * * *
385791 AAAGAGTGCCACAGAATTATGGGCTTT-A-A
1 AAAGA-TGCCACGGAGTTGTGGACTTTAAGA
* * * *
385820 AAGGGTGCCACAGAGTTGTGGACTTAGAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTT-TAA-G-A
* *
385853 AAAGAGTGCCATGGAGTTGTGGGC-TT-A-A
1 AAAGA-TGCCACGGAGTTGTGGACTTTAAGA
* * *
385881 AAGGGTGCCACGGAGTTGTGGACTTAGAAAAGAA
1 AAAGATGCCACGGAGTTGTGGACTT---TAAG-A
* * * *
385915 AAAGGTGCCACGGAGTCGTGGGCTTAAAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTT-TAA-G-A
* * *
385948 AAAGAGTGCCACGAAATTGTGGGCTTT-A-A
1 AAAGA-TGCCACGGAGTTGTGGACTTTAAGA
* * * *
385977 AAGGGTGCCACAGAGTTGTGGACTTAGAAGGAA
1 AAAGATGCCACGGAGTTGTGGACTT-TAA-G-A
386010 AAAGAGTGCCACGGAGTTGTAGG-C-TT-A-A
1 AAAGA-TGCCACGGAGTTGT-GGACTTTAAGA
* * *
386038 AAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAGATGCCACGGAGTTGTGGACTT-TAA-GA
* * *
386070 AAAGAGTGCCACGGAGTTATGGGCTTTGCAGA
1 AAAGA-TGCCACGGAGTTGTGGACTTT-AAGA
** *
386102 AAAGGATGCCAATGAGTTGTGGACTTTGAGA
1 AAA-GATGCCACGGAGTTGTGGACTTTAAGA
* * *
386133 AGAGATTGCCACTGAGTCGTGGACTTTAAGA
1 AAAGA-TGCCACGGAGTTGTGGACTTTAAGA
386164 A
1 A
386165 GGTATTTGAA
Statistics
Matches: 427, Mismatches: 87, Indels: 107
0.69 0.14 0.17
Matches are distributed among these distances:
26 2 0.00
27 47 0.11
28 63 0.15
29 13 0.03
30 8 0.02
31 32 0.07
32 43 0.10
33 72 0.17
34 120 0.28
35 5 0.01
36 22 0.05
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (30 bp):
AAAGATGCCACGGAGTTGTGGACTTTAAGA
Found at i:386158 original size:157 final size:157
Alignment explanation
Indices: 385571--386095 Score: 833
Period size: 157 Copynumber: 3.3 Consensus size: 157
385561 GCGTGAAAGA
* * * * * * *
385571 TGCCACGAAGTTGTGGACTTA-AAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGGAA
1 TGCCACGGAGTTGTGGACTTAGAAAAGAAAAAGGTGCCACGGAGTCGTGGGC-TTAAAA-GGAAA
* *
385635 AAGAGTGCCACAGAGTTGTGGGCTTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAACG
64 AAGAGTGCCACAGAATTGTGGGCTTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAG
*
385700 AGTGCCACGGAGTTGTGGGCTTAAAAGTG
129 AGTGCCACGGAGTTGTGGGCTTAAAAGGG
*
385729 TGCCACAGAGTTGTGGACTTAGAAAAGAAAAAGGTGCCACGGAGTCGTGGGCTTAAAAGGAAAAA
1 TGCCACGGAGTTGTGGACTTAGAAAAGAAAAAGGTGCCACGGAGTCGTGGGCTTAAAAGGAAAAA
*
385794 GAGTGCCACAGAATTATGGGCTTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAG
66 GAGTGCCACAGAATTGTGGGCTTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAG
*
385859 TGCCATGGAGTTGTGGGCTTAAAAGGG
131 TGCCACGGAGTTGTGGGCTTAAAAGGG
385886 TGCCACGGAGTTGTGGACTTAGAAAAGAAAAAGGTGCCACGGAGTCGTGGGCTTAAAAGGAAAAA
1 TGCCACGGAGTTGTGGACTTAGAAAAGAAAAAGGTGCCACGGAGTCGTGGGCTTAAAAGGAAAAA
385951 GAGTGCCAC-GAAATTGTGGGCTTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGA
66 GAGTGCCACAG-AATTGTGGGCTTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGA
*
386015 GTGCCACGGAGTTGTAGGCTTAAAAGGG
130 GTGCCACGGAGTTGTGGGCTTAAAAGGG
* **
386043 TGCCACGGAGTTGTGGACTT--AAAAGGAAAAGAGTGCCACGGAGTTATGGGCTT
1 TGCCACGGAGTTGTGGACTTAGAAAAGAAAAAG-GTGCCACGGAGTCGTGGGCTT
386096 TGCAGAAAAG
Statistics
Matches: 344, Mismatches: 20, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
155 10 0.03
156 20 0.06
157 264 0.77
158 25 0.07
159 25 0.07
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.20
Consensus pattern (157 bp):
TGCCACGGAGTTGTGGACTTAGAAAAGAAAAAGGTGCCACGGAGTCGTGGGCTTAAAAGGAAAAA
GAGTGCCACAGAATTGTGGGCTTTAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAG
TGCCACGGAGTTGTGGGCTTAAAAGGG
Found at i:386287 original size:8 final size:8
Alignment explanation
Indices: 386264--386309 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
386254 GATGCAAATA
*
386264 ATGATGTT
1 ATGATGTC
*
386272 ATTGATGTT
1 A-TGATGTC
386281 ATGATGTC
1 ATGATGTC
386289 ATGATGTC
1 ATGATGTC
386297 ATGATGTC
1 ATGATGTC
386305 ATGAT
1 ATGAT
386310 TACAGCACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
8 28 0.78
9 8 0.22
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (8 bp):
ATGATGTC
Found at i:394415 original size:52 final size:52
Alignment explanation
Indices: 394330--394454 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
394320 ATATGAAAAG
* *
394330 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
394382 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
394434 TTGGCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
394455 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:394467 original size:52 final size:51
Alignment explanation
Indices: 394330--394473 Score: 200
Period size: 52 Copynumber: 2.8 Consensus size: 51
394320 ATATGAAAAG
*
394330 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
394382 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
394434 TTGGCTGCATGTATCGATACA-AAGATCAGTGTATCGATAC
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATAC
394474 CATGTATCGA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:394549 original size:18 final size:18
Alignment explanation
Indices: 394526--394560 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
394516 GAAGTAGCTT
394526 AAAATGTATCGATACAAA
1 AAAATGTATCGATACAAA
394544 AAAATGTATCGATACAA
1 AAAATGTATCGATACAA
394561 CACTTTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (18 bp):
AAAATGTATCGATACAAA
Found at i:394959 original size:27 final size:27
Alignment explanation
Indices: 394895--395244 Score: 405
Period size: 27 Copynumber: 12.8 Consensus size: 27
394885 TTTCTTTTCA
* * *
394895 AAGTCCAGAACTCCGTGGCATCTTTTTT
1 AAGTCCACAACTCCGTGGCAAC-CTTTT
* *
394923 AAGTCCACAACTTCGTGGCAACCTTCT
1 AAGTCCACAACTCCGTGGCAACCTTTT
*
394950 AAGTCCACAACTCCGTGGCAACCATTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
*
394977 AAGTCCACAACTCCGTGGTAACCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
*
395004 AAGTCCACAACTCTGTGGC-ACCTTTTT
1 AAGTCCACAACTCCGTGGCAACC-TTTT
* * * *
395031 AAGTCCATAACTTCATGGCAACCTTCT
1 AAGTCCACAACTCCGTGGCAACCTTTT
*
395058 AAGTCCACAACTCCGTGGCAACCATTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
*
395085 AAGTCCACAACTCCGTGGCAACATTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* * * *
395112 AAAGTCCACCACTTCATGGCAGCCCTTTTT
1 -AAGTCCACAACTCCGTGGCA-ACC-TTTT
* * *
395142 AAGTCCACAACTCCATAGCACCCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
** *
395169 AAGTCCACAACTCTATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
* *
395196 AAGTCCACAACTCCGTGGTATCCTTTT
1 AAGTCCACAACTCCGTGGCAACCTTTT
*
395223 AAGTCCACAACTCTGTGGCAAC
1 AAGTCCACAACTCCGTGGCAAC
395245 ACCTTTTTAA
Statistics
Matches: 276, Mismatches: 41, Indels: 11
0.84 0.12 0.03
Matches are distributed among these distances:
26 3 0.01
27 209 0.76
28 42 0.15
29 18 0.07
30 4 0.01
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCAACCTTTT
Found at i:395602 original size:30 final size:28
Alignment explanation
Indices: 395244--396518 Score: 1164
Period size: 28 Copynumber: 44.3 Consensus size: 28
395234 TCTGTGGCAA
* * *
395244 CACCTTTTTAAAGCCCACAAGTTAATGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* * *
395272 CATCATTTCAAAGCCCACAAGTTAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* * * *
395300 CATC-ATACGAAGCCCACAAGTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* *
395327 CATTCTTTTCAAAGCCCACAAGTTAGTGG
1 CA-CCTTTTCAAAGCCCACAAGTCAGTGG
* *
395356 CATCTTTTCAAAGCCCAC-A--CGGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* * * *
395381 CAAGTCTTTTTAAAGCCCATAAGTCAATGG
1 C-A-CCTTTTCAAAGCCCACAAGTCAGTGG
* * * *
395411 CATCC-TTTCGAAGCTCATAAGTTAGTGG
1 CA-CCTTTTCAAAGCCCACAAGTCAGTGG
*
395439 CACCCTTTCAAAGCCCACAAGTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* *
395467 CACCCTTTCAAAGCCCAGAAGTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* *
395495 CATTCTTTTCAAAGCCCACAAGTTAGTGG
1 CA-CCTTTTCAAAGCCCACAAGTCAGTGG
* * *
395524 CATCCTTCTCAAAGACGACAAGTCAGTGG
1 CA-CCTTTTCAAAGCCCACAAGTCAGTGG
* *
395553 CATCCTTCTCAAAGTCCACACAAATCAGTGG
1 CA-CCTTTTCAAAG-CC-CACAAGTCAGTGG
* *
395584 CACATTTTCAAAGCCCACAAGTCAATGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
*
395612 CATCCTTTTCAAAGCCCACACAAGTCGGTGG
1 CA-CCTTTTCAAAG-CC-CACAAGTCAGTGG
* * *
395643 CATCATTTCAAAGCCCACACGAGTCGGTGG
1 CACCTTTTCAAAGCCCACA--AGTCAGTGG
*
395673 CAACTCTTTTTAAAGCCCACAAGTCAGTGG
1 C-AC-CTTTTCAAAGCCCACAAGTCAGTGG
* *
395703 CACCCTTTCGAAGCCCACAAGTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* * *
395731 CACCCTTTCGAAGCCCACAATTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
395759 CA-CTCTTTCAAAGCCCACAAGTCAGTGG
1 CACCT-TTTCAAAGCCCACAAGTCAGTGG
* *
395787 CATCC-TTTCAAATCCCACACAAGTCGGTGG
1 CA-CCTTTTCAAA-GCC-CACAAGTCAGTGG
*
395817 CAACTCCTTTCAAAGCCCACGCAAGTCAGTGG
1 C-AC-CTTTTCAAAGCCCA--CAAGTCAGTGG
395849 CACCCTTTT-AAAGCCCACACAAGTCAGTGG
1 CA-CCTTTTCAAAG-CC-CACAAGTCAGTGG
* * *
395879 CACTTTTTCAAAGCCCACGAGTTAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* * *
395907 CACCTTTTTCAAATCCCACGAGTTAGTGG
1 CACC-TTTTCAAAGCCCACAAGTCAGTGG
395936 CA-CTCTTTCAAAGCCCATGCAAGTCAGTGG
1 CACCT-TTTCAAAGCCCA--CAAGTCAGTGG
*
395966 CACCTTTTTAAAGCCCACGCAAGTCAGTGG
1 CACCTTTTCAAAGCCCA--CAAGTCAGTGG
* ** *
395996 CACCTTTTTAAAGCCCATGAGTCAGCGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* *
396024 CA-CTCTTTCAAAGCCCATAAGTTAGTGG
1 CACCT-TTTCAAAGCCCACAAGTCAGTGG
396052 CATCC-TTTCAAAGCCCACGCAAGTCAGTGG
1 CA-CCTTTTCAAAGCCCA--CAAGTCAGTGG
396082 CACCCTTTT-AAAGCCCACGCAAGTCAGTGG
1 CA-CCTTTTCAAAGCCCA--CAAGTCAGTGG
* * * *
396112 CACATTTTC-AAGCCCATAAATCAATGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
396139 CA-CTCTTTCAAAGCCCACAAGTCAGTGG
1 CACCT-TTTCAAAGCCCACAAGTCAGTGG
*
396167 CATCTTTTCAAAGCCCACGCAAGTCAGTGG
1 CACCTTTTCAAAGCCCA--CAAGTCAGTGG
* * *
396197 CCCCTTTTTAAAGCCCACGCAAGTCAGTAG
1 CACCTTTTCAAAGCCCA--CAAGTCAGTGG
*
396227 CACTCTTTTCAAAGCCTACGCAAGTCAGTGG
1 CAC-CTTTTCAAAGCC--CACAAGTCAGTGG
*
396258 CACTCCTTTCAAAGCCCACAAGTCAGTGG
1 CAC-CTTTTCAAAGCCCACAAGTCAGTGG
* *
396287 CACTTTTTCAAAGCCCACAAGTTAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* *
396315 CATCC-TTTCAAAGCCCATAAGTTAGTGG
1 CA-CCTTTTCAAAGCCCACAAGTCAGTGG
*
396343 CACCTTTTC-AAGCCCAAAAGTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* *
396370 CACTTTTTCAAAGCCCACAAGTTAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
**
396398 CA-CTTTTTTAAGCCCACAAGTCAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
* ** * *
396425 CACTTTTTCAAATTCCACAGGTTAGTGG
1 CACCTTTTCAAAGCCCACAAGTCAGTGG
396453 CATCC-TTTCAAAGCCCACAAGTCAGTGG
1 CA-CCTTTTCAAAGCCCACAAGTCAGTGG
* * *
396481 CACATTTTCAAAACCCACAAAAGTTAGTGG
1 CACCTTTTCAAAGCCCAC--AAGTCAGTGG
396511 CACCTTTT
1 CACCTTTT
396519 TTTTTAAAAA
Statistics
Matches: 1052, Mismatches: 135, Indels: 118
0.81 0.10 0.09
Matches are distributed among these distances:
25 5 0.00
26 2 0.00
27 106 0.10
28 434 0.41
29 164 0.16
30 226 0.21
31 79 0.08
32 35 0.03
33 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (28 bp):
CACCTTTTCAAAGCCCACAAGTCAGTGG
Found at i:396653 original size:45 final size:47
Alignment explanation
Indices: 396595--396703 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 47
396585 AAATCTGACA
* *
396595 TCGCTAGCATTGAATCAGCATATTGG-CACCTTT-ATTAGCCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGCCACCTTTCATTAGCCCAATG
* * * *
396640 TCGCTGGCCTTGAATCAGCATATTGGTCCACTTTTCCCTTAGTCCACTG
1 TCGCTGGCCTTGAATCAGCATATTGG-CCACCTTT-CATTAGCCCAATG
396689 TCGCTGGCCTTGAAT
1 TCGCTGGCCTTGAAT
396704 TGGCACATTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
45 24 0.44
47 6 0.11
49 24 0.44
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (47 bp):
TCGCTGGCCTTGAATCAGCATATTGGCCACCTTTCATTAGCCCAATG
Found at i:397138 original size:20 final size:19
Alignment explanation
Indices: 397091--397167 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
397081 TTTTACCCAG
* *
397091 ATGTATCGAT-CATTTTTCA
1 ATGTATCGATACA-TTATGA
*
397110 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TATGA
* * *
397130 ATGTATCGATATATTCTTTA
1 ATGTATCGATACATT-ATGA
397150 ATGTATCGATACATTATG
1 ATGTATCGATACATTATG
397168 TCTTTTTACC
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
19 12 0.27
20 33 0.73
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (19 bp):
ATGTATCGATACATTATGA
Found at i:397162 original size:40 final size:38
Alignment explanation
Indices: 397091--397167 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
397081 TTTTACCCAG
397091 ATGTATCGATCATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATCATTTTTCAATATATCGATACAT-TATGA
* *
397130 ATGTATCGAT-ATATTCTTTAATGTATCGATACATTATG
1 ATGTATCGATCAT-TT-TTCAATATATCGATACATTATG
397168 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 2 0.06
39 16 0.47
40 16 0.47
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (38 bp):
ATGTATCGATCATTTTTCAATATATCGATACATTATGA
Found at i:401006 original size:21 final size:19
Alignment explanation
Indices: 400982--401034 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
400972 TTCAACAATT
400982 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAA-AGT-AA
* * *
401003 TGTATCAATACATAAGTAT
1 TGTATCGATACAAAAGTAA
401022 TGTATCGATACAA
1 TGTATCGATACAA
401035 TGTATCGCGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.44
20 3 0.11
21 12 0.44
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (19 bp):
TGTATCGATACAAAAGTAA
Found at i:410171 original size:7 final size:7
Alignment explanation
Indices: 410159--410239 Score: 60
Period size: 7 Copynumber: 11.7 Consensus size: 7
410149 CTTCGTCCAA
410159 AAAAAAC
1 AAAAAAC
410166 AAAAAA-
1 AAAAAAC
*
410172 AAATAA-
1 AAAAAAC
** *
410178 AACCAAG
1 AAAAAAC
410185 AAAAAAC
1 AAAAAAC
410192 AAAAAAAC
1 -AAAAAAC
*
410200 CAAAAAC
1 AAAAAAC
*
410207 -AAAAAG
1 AAAAAAC
*
410213 GAAAAAC
1 AAAAAAC
410220 AAAAAAC
1 AAAAAAC
410227 AAACAAAC
1 AAA-AAAC
410235 AAAAA
1 AAAAA
410240 GGGGTCCAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
6 14 0.23
7 32 0.53
8 14 0.23
ACGTcount: A:0.81, C:0.14, G:0.04, T:0.01
Consensus pattern (7 bp):
AAAAAAC
Found at i:410188 original size:16 final size:14
Alignment explanation
Indices: 410157--410239 Score: 57
Period size: 15 Copynumber: 6.0 Consensus size: 14
410147 TCCTTCGTCC
410157 AAAAAAAACAAAAA
1 AAAAAAAACAAAAA
*
410171 AAAATAAAAC---CA
1 AAAA-AAAACAAAAA
*
410183 AGAAAAAACAAAAA
1 AAAAAAAACAAAAA
*
410197 AACCAAAAAC-AAAA
1 AA-AAAAAACAAAAA
**
410211 AGGAAAAACAAAAA
1 AAAAAAAACAAAAA
*
410225 ACAAACAAACAAAAA
1 A-AAAAAAACAAAAA
410240 GGGGTCCAGA
Statistics
Matches: 52, Mismatches: 10, Indels: 13
0.69 0.13 0.17
Matches are distributed among these distances:
11 5 0.10
12 4 0.08
13 6 0.12
14 16 0.31
15 21 0.40
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.01
Consensus pattern (14 bp):
AAAAAAAACAAAAA
Found at i:410204 original size:25 final size:25
Alignment explanation
Indices: 410155--410229 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 25
410145 CATCCTTCGT
*
410155 CCAAAAAAAACAAAAAAAAATAAAA
1 CCAAAAAAAACAAAAAAAAACAAAA
*
410180 CCAAGAAAAAAC-AAAAAAACCAAAA
1 CCAA-AAAAAACAAAAAAAAACAAAA
* *
410205 ACAAAAAGGAAA-AACAAAAAACAAA
1 CCAAAAA--AAACAAAAAAAAACAAA
410230 CAAACAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
24 3 0.07
25 18 0.44
26 20 0.49
ACGTcount: A:0.80, C:0.15, G:0.04, T:0.01
Consensus pattern (25 bp):
CCAAAAAAAACAAAAAAAAACAAAA
Found at i:410217 original size:28 final size:28
Alignment explanation
Indices: 410160--410241 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
410150 TTCGTCCAAA
* ** *
410160 AAAAACAAAAAA-AAATAAA-ACCAAGA
1 AAAAACAAAAAACAAACAAACAAAAAGG
*
410186 AAAAACAAAAAAACCAA-AAACAAAAAGG
1 AAAAAC-AAAAAACAAACAAACAAAAAGG
410214 AAAAACAAAAAACAAACAAACAAAAAGG
1 AAAAACAAAAAACAAACAAACAAAAAGG
410242 GGTCCAGATG
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
26 6 0.13
27 18 0.38
28 23 0.49
ACGTcount: A:0.79, C:0.13, G:0.06, T:0.01
Consensus pattern (28 bp):
AAAAACAAAAAACAAACAAACAAAAAGG
Found at i:411410 original size:28 final size:28
Alignment explanation
Indices: 411378--411673 Score: 317
Period size: 28 Copynumber: 10.2 Consensus size: 28
411368 TGCATCATTC
* *
411378 AGCCCACAAGTTAGTGGCA-TCTTTCCAA
1 AGCCCACAAGTCAGTGGCACCCTTT-CAA
* * *
411406 AGCCCGCACAAATTAGTGGCACCCTTCCAA
1 AG-CC-CACAAGTCAGTGGCACCCTTTCAA
*
411436 AGCCCACAAGTCAGTGGCACCTTTTCAA
1 AGCCCACAAGTCAGTGGCACCCTTTCAA
*
411464 AGCCCACAAGTTAGTGGCACCCTTTCAA
1 AGCCCACAAGTCAGTGGCACCCTTTCAA
** *
411492 AGCCTGCAAGTTAGTGGCGTACCCTTTCAA
1 AGCCCACAAGTCAGTGGC--ACCCTTTCAA
* *
411522 AGCCCACACAAATCAGT-GCACCCTTCCAA
1 AG-CC-CACAAGTCAGTGGCACCCTTTCAA
* *
411551 AGCTCACAAGTAAGTGGCACCCTTTCAA
1 AGCCCACAAGTCAGTGGCACCCTTTCAA
*
411579 AGCCCACAAGTCAGTGGCACCCTTTTAA
1 AGCCCACAAGTCAGTGGCACCCTTTCAA
*
411607 AGCCCACAAGTCAGTGGCTTACCCTTTTAA
1 AGCCCACAAGTCAGTGGC--ACCCTTTCAA
* *
411637 AGCCCACATAAATCAGTGGCACCCTTCCAA
1 AGCCCAC--AAGTCAGTGGCACCCTTTCAA
411667 AGCCCAC
1 AGCCCAC
411674 TCCAAAGCCC
Statistics
Matches: 230, Mismatches: 26, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
27 9 0.04
28 119 0.52
29 15 0.07
30 63 0.27
31 7 0.03
32 17 0.07
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
AGCCCACAAGTCAGTGGCACCCTTTCAA
Found at i:411568 original size:87 final size:86
Alignment explanation
Indices: 411378--411888 Score: 369
Period size: 86 Copynumber: 5.7 Consensus size: 86
411368 TGCATCATTC
* * *
411378 AGCCCACAAGTTAGTGGCA-TCTTTCCAAAGCCCGCACAAATTAGTGGCACCCTTCCAAAG-CC-
1 AGCCCACAAGTTAGTGGCACCCTTT-CAAAGCCCG--CAAGTTAGTGGCACCCTTTCAAAGCCCA
* * *
411440 CACAAGTCAGTGGCACCTTTTCAA
63 CACAAATCAGTGGCACCCTTCCAA
*
411464 AGCCCACAAGTTAGTGGCACCCTTTCAAAGCCTGCAAGTTAGTGGCGTACCCTTTCAAAGCCCAC
1 AGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCGCAAGTTAGTGGC--ACCCTTTCAAAGCCCAC
411529 ACAAATCAGT-GCACCCTTCCAA
64 ACAAATCAGTGGCACCCTTCCAA
* * * * *
411551 AGCTCACAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAG-CC-CAC
1 AGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCGCAAGTTAGTGGCACCCTTTCAAAGCCCACAC
* **
411614 AAGTCAGTGGCTTACCCTTTTAA
66 AAATCAGTGGC--ACCCTTCCAA
* * *
411637 AGCCCACATAAATCAGTGGCACCCTTCCAAAGCCCACTCCAAAGCCCACAAGTTAGTGGCACCCT
1 AGCCCAC--AAGTTAGTGGCACCCTT-----------T-CAAAGCCCGCAAGTTAGTGGCACCCT
* * *
411702 TTCAAAG-CC-CATAAGTCAGTGGCATACCCTTTCAA
52 TTCAAAGCCCACACAAATCAGTGGC--ACCCTTCCAA
* * * * * * * *
411737 AGCCCACACAAATCAGTGGCACTCTTCCAAAGCCCATACAAATCAGTGGCACCCTTCCAAAG-CC
1 AG-CC-CACAAGTTAGTGGCACCCTTTCAAAGCCC--GCAAGTTAGTGGCACCCTTTCAAAGCCC
* *
411801 -CACAAGTCAGTGGCACCCTTTCAA
62 ACACAAATCAGTGGCACCCTTCCAA
* * * * *
411825 AGCCCACAAGTCAGTGGCATCTTTTCACAGCCCACAAGTTAGTGGCACTCC-TTCAAAGCCCACA
1 AGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCGCAAGTTAGTGGCAC-CCTTTCAAAGCCCACA
411889 AGTTAGTGGT
Statistics
Matches: 357, Mismatches: 39, Indels: 58
0.79 0.09 0.13
Matches are distributed among these distances:
83 10 0.03
84 34 0.10
85 15 0.04
86 77 0.22
87 59 0.17
88 45 0.13
90 37 0.10
99 1 0.00
100 74 0.21
101 2 0.01
102 3 0.01
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (86 bp):
AGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCGCAAGTTAGTGGCACCCTTTCAAAGCCCACAC
AAATCAGTGGCACCCTTCCAA
Found at i:411609 original size:115 final size:114
Alignment explanation
Indices: 411378--411888 Score: 587
Period size: 115 Copynumber: 4.3 Consensus size: 114
411368 TGCATCATTC
* * * *
411378 AGCCCACAAGTTAGTGGCA-TCTTTCCAAAGCCCGCACAAATTAGTGGCACCCTTCCAAAGCCCA
1 AGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACACAAATCAGTGGCACCCTTCCAAAGCCCA
* *
411442 CAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAA
65 CAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
** * *
411492 AGCCTGCAAGTTAGTGGCGTACCCTTTCAAAGCCCACACAAATCAGT-GCACCCTTCCAAAGCTC
1 AGCCCACAAGTCAGTGGC--ACCCTTTCAAAGCCCACACAAATCAGTGGCACCCTTCCAAAGCCC
* *
411556 ACAAGTAAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAA
64 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* *
411607 AGCCCACAAGTCAGTGGCTTACCCTTTTAAAGCCCACATAAATCAGTGGCACCCTTCCAAAGCCC
1 AGCCCACAAGTCAGTGGC--ACCCTTTCAAAGCCCACACAAATCAGTGGCACCC-T---------
* *
411672 ACTCCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCATACCCTTTCAA
54 --TCCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC--ACCCTTTCAA
* * * *
411737 AGCCCACACAAATCAGTGGCACTCTTCCAAAGCCCATACAAATCAGTGGCACCCTTCCAAAGCCC
1 AG-CC-CACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAATCAGTGGCACCCTTCCAAAGCCC
* * *
411802 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAC
64 ACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
*
411853 AGCCCACAAGTTAGTGGCACTCC-TTCAAAGCCCACA
1 AGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACA
411889 AGTTAGTGGT
Statistics
Matches: 340, Mismatches: 36, Indels: 42
0.81 0.09 0.10
Matches are distributed among these distances:
114 41 0.12
115 107 0.31
116 34 0.10
117 5 0.01
118 49 0.14
128 48 0.14
129 1 0.00
130 40 0.12
131 2 0.01
132 13 0.04
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (114 bp):
AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACACAAATCAGTGGCACCCTTCCAAAGCCCAC
AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
Found at i:411731 original size:70 final size:71
Alignment explanation
Indices: 411605--411803 Score: 201
Period size: 60 Copynumber: 3.0 Consensus size: 71
411595 GCACCCTTTT
*
411605 AAAGCCCACAAGTCAGTGGCTTACCCTTTTAAAGCCCACATAAATCAGTGGCACCCTTCCAAAGC
1 AAAGCCCACAAGTCAGTGGC-TACCCTTTCAAAGCCCACATAAATCAGTGGCACCCTTCCAAAGC
411670 CCACTCC
65 CCACTCC
* * *
411677 AAAGCCCACAAGTTAGTGGC-ACCCTTTCAAAG-CC-CATAAGTCAGTGGCATACCCTTTCAAAG
1 AAAGCCCACAAGTCAGTGGCTACCCTTTCAAAGCCCACATAAATCAGTGGC--ACCCTTCCAAAG
411739 CCCA---C
64 CCCACTCC
* * * *
411744 --A---CA-AA-TCAGTGGC-ACTCTTCCAAAGCCCATACAAATCAGTGGCACCCTTCCAAAGCC
1 AAAGCCCACAAGTCAGTGGCTACCCTTTCAAAGCCCACATAAATCAGTGGCACCCTTCCAAAGCC
411801 CAC
66 CAC
411804 AAGTCAGTGG
Statistics
Matches: 111, Mismatches: 11, Indels: 21
0.78 0.08 0.15
Matches are distributed among these distances:
60 32 0.29
61 4 0.04
62 13 0.12
65 1 0.01
67 1 0.01
68 13 0.12
69 2 0.02
70 26 0.23
72 19 0.17
ACGTcount: A:0.32, C:0.35, G:0.15, T:0.19
Consensus pattern (71 bp):
AAAGCCCACAAGTCAGTGGCTACCCTTTCAAAGCCCACATAAATCAGTGGCACCCTTCCAAAGCC
CACTCC
Found at i:411733 original size:30 final size:28
Alignment explanation
Indices: 411676--411918 Score: 281
Period size: 28 Copynumber: 8.4 Consensus size: 28
411666 AAGCCCACTC
*
411676 CAAAGCCCACAAGTTAGTGGCACCCTTT
1 CAAAGCCCACAAGTCAGTGGCACCCTTT
*
411704 CAAAGCCCATAAGTCAGTGGCATACCCTTT
1 CAAAGCCCACAAGTCAGTGGC--ACCCTTT
* * *
411734 CAAAGCCCACACAAATCAGTGGCACTCTTC
1 CAAAG-CC-CACAAGTCAGTGGCACCCTTT
* *
411764 CAAAGCCCATACAAATCAGTGGCACCCTTC
1 CAAAGCCC--ACAAGTCAGTGGCACCCTTT
411794 CAAAGCCCACAAGTCAGTGGCACCCTTT
1 CAAAGCCCACAAGTCAGTGGCACCCTTT
* *
411822 CAAAGCCCACAAGTCAGTGGCATCTTTT
1 CAAAGCCCACAAGTCAGTGGCACCCTTT
* *
411850 CACAGCCCACAAGTTAGTGGCACTCC-TT
1 CAAAGCCCACAAGTCAGTGGCAC-CCTTT
* *
411878 CAAAGCCCACAAGTTAGTGGTATCCCCTTT
1 CAAAGCCCACAAGTCAGTGGCA--CCCTTT
411908 CAAAGCCCACA
1 CAAAGCCCACA
411919 CAAGTTGGTG
Statistics
Matches: 188, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
28 106 0.56
29 5 0.03
30 63 0.34
31 2 0.01
32 12 0.06
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (28 bp):
CAAAGCCCACAAGTCAGTGGCACCCTTT
Found at i:411750 original size:100 final size:97
Alignment explanation
Indices: 411575--411832 Score: 354
Period size: 100 Copynumber: 2.7 Consensus size: 97
411565 TGGCACCCTT
* *
411575 TCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCTTACCCTTTTAAAGC
1 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-TACCCTTTCAAAGC
*
411640 CCACATAAATCAGTGGCACCCTTCCAAAGCCCA
65 CCACACAAATCAGTGGCACCCTTCCAAAGCCCA
* *
411673 CTCCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCATACCCTTTCAAA
1 -T-CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGC-TACCCTTTCAAA
*
411738 GCCCACACAAATCAGTGGCACTCTTCCAAAGCCCA
63 GCCCACACAAATCAGTGGCACCCTTCCAAAGCCCA
*
411773 T---A---CA-AA-TCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGC-ACCCTTTCAAAGCC
1 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCTACCCTTTCAAAGCC
411829 CACA
66 CACA
411833 AGTCAGTGGC
Statistics
Matches: 148, Mismatches: 10, Indels: 13
0.87 0.06 0.08
Matches are distributed among these distances:
88 18 0.12
90 33 0.22
91 2 0.01
92 2 0.01
95 1 0.01
99 2 0.01
100 90 0.61
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.19
Consensus pattern (97 bp):
TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCTACCCTTTCAAAGCC
CACACAAATCAGTGGCACCCTTCCAAAGCCCA
Found at i:411947 original size:24 final size:25
Alignment explanation
Indices: 411906--411954 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
411896 GGTATCCCCT
*
411906 TTCAAAGCCCACACAAGTTGGTGGC
1 TTCAAAGCCCACACAAGTTAGTGGC
*
411931 TTCAAAG-CCACATAAGTTAGTGGC
1 TTCAAAGCCCACACAAGTTAGTGGC
411955 ACCTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (25 bp):
TTCAAAGCCCACACAAGTTAGTGGC
Found at i:412124 original size:48 final size:48
Alignment explanation
Indices: 412066--412235 Score: 295
Period size: 48 Copynumber: 3.5 Consensus size: 48
412056 GGCATATTTA
412066 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
412114 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * * *
412162 TTAGCTCAATGTCGCTGGCCTTGAAACAGCATATTGTCCATTTTTCCC
1 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
*
412210 TTAGCTCAATGCCGTTGGCCTTGAAT
1 TTAGCTCAATGTCGTTGGCCTTGAAT
412236 TGGCAAATTG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (48 bp):
TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:413227 original size:154 final size:153
Alignment explanation
Indices: 412852--413235 Score: 379
Period size: 154 Copynumber: 2.5 Consensus size: 153
412842 ACTATATGGG
* * * *
412852 ACTCGATTCTAAGG-AGAATTACT-AAAATGCCTATAGGTATC-CATTCGACATAAAAGTATCCC
1 ACTCGATTCT-AGGAAAAATTA-TGAAAATGCCTAGAGGTA-CACCTTCGACATGAAAGTAT-CC
* * * * *
412914 GATAACCCTAAAGGACACAAAAGGATATGAAAAGATGAACCTATTCTAAAGTGCACACTTTTAGC
62 GGTAACCCTAAAGGACACAAAAGGATATGAAAAGATGAACCTATCCTAAAGTACAAACTTTGAGC
*
412979 ATAAAAGCATCTCGGTGACAACCTAAG
127 ATAAAAGCATCTCGGTGACAACCTAAA
* * * * * * *
413006 ACTCGGTTTTAGGAAAAATTATGAAAATGCCTTGAGGTATACCTTCGATATGATAGTATCCTTGT
1 ACTCGATTCTAGGAAAAATTATGAAAATGCCTAGAGGTACACCTTCGACATGAAAGTATCC-GGT
* ** * * *
413071 AACCTTAAAGGAGGCTAAAGGATATGAAAGGAAT-AACTTATCCTAAA-TACAAACCTTTGA-CA
65 AACCCTAAAGGACACAAAAGGATATGAAAAG-ATGAACCTATCCTAAAGTACAAA-CTTTGAGCA
413133 TAAAAGCATC-CTGGTGACAACCTAAA
128 TAAAAGCATCTC-GGTGACAACCTAAA
* * *
413159 ACTTGATTCTAGGGAAAATTATGAAAATGCCCCTAG-GGTACACCTTTGACATGAAAGTATCTCG
1 ACTCGATTCTAGGAAAAATTATGAAAATG--CCTAGAGGTACACCTTCGACATGAAAGTATC-CG
413223 GTAACCCTAAAGG
63 GTAACCCTAAAGG
413236 TCATGAAAAT
Statistics
Matches: 186, Mismatches: 34, Indels: 20
0.77 0.14 0.08
Matches are distributed among these distances:
152 1 0.01
153 60 0.32
154 118 0.63
155 7 0.04
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (153 bp):
ACTCGATTCTAGGAAAAATTATGAAAATGCCTAGAGGTACACCTTCGACATGAAAGTATCCGGTA
ACCCTAAAGGACACAAAAGGATATGAAAAGATGAACCTATCCTAAAGTACAAACTTTGAGCATAA
AAGCATCTCGGTGACAACCTAAA
Found at i:413571 original size:13 final size:13
Alignment explanation
Indices: 413553--413577 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
413543 AGAATGCACA
413553 GTATCGATACATT
1 GTATCGATACATT
413566 GTATCGATACAT
1 GTATCGATACAT
413578 GACCAAATGT
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):
GTATCGATACATT
Found at i:415944 original size:13 final size:13
Alignment explanation
Indices: 415926--415950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
415916 AGAATGCACA
415926 GTATCGATACATT
1 GTATCGATACATT
415939 GTATCGATACAT
1 GTATCGATACAT
415951 GACCAAATGT
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):
GTATCGATACATT
Found at i:418307 original size:13 final size:13
Alignment explanation
Indices: 418289--418313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
418279 AGAATGCACA
418289 GTATCGATACATT
1 GTATCGATACATT
418302 GTATCGATACAT
1 GTATCGATACAT
418314 GACCAAATGT
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):
GTATCGATACATT
Found at i:418326 original size:20 final size:21
Alignment explanation
Indices: 418301--418353 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
418291 ATCGATACAT
*
418301 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
418321 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
418342 TGTATCGATACA
1 TGTATCGATACA
418354 GGTGATTGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:425054 original size:20 final size:22
Alignment explanation
Indices: 425029--425073 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
425019 GCAGCACTCA
*
425029 CCAGGTCGCGACC-GGCA-CCC
1 CCAGGTCGCAACCGGGCAGCCC
425049 CCAGGTCGCAACCGGGCAGCCC
1 CCAGGTCGCAACCGGGCAGCCC
425071 CCA
1 CCA
425074 CACTCATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 4 0.18
22 6 0.27
ACGTcount: A:0.18, C:0.49, G:0.29, T:0.04
Consensus pattern (22 bp):
CCAGGTCGCAACCGGGCAGCCC
Found at i:426032 original size:13 final size:13
Alignment explanation
Indices: 426014--426039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
426004 CAATTTTTGG
426014 TGTATCGATACAT
1 TGTATCGATACAT
426027 TGTATCGATACAT
1 TGTATCGATACAT
426040 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:426051 original size:32 final size:33
Alignment explanation
Indices: 425994--426057 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
425984 TACACGCCAA
**
425994 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
426027 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
426058 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:426064 original size:19 final size:18
Alignment explanation
Indices: 425994--426064 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
425984 TACACGCCAA
425994 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
426014 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
426027 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
426046 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
426065 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:426855 original size:29 final size:29
Alignment explanation
Indices: 426813--426870 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
426803 ACACACATAT
426813 CAAAAATTTATTTGCACACATATCTATTC
1 CAAAAATTTATTTGCACACATATCTATTC
426842 CAAAAATTTATTTGCACACATATCTATTC
1 CAAAAATTTATTTGCACACATATCTATTC
426871 TCTCCCCCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (29 bp):
CAAAAATTTATTTGCACACATATCTATTC
Found at i:428186 original size:21 final size:20
Alignment explanation
Indices: 428157--428199 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
428147 GGCTAGTGTG
*
428157 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
428178 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
428198 GG
1 GG
428200 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:428659 original size:13 final size:13
Alignment explanation
Indices: 428641--428679 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
428631 ATAATCCCCC
*
428641 TGTATCGATACAG
1 TGTATCGATACAA
428654 TGTATCGATACAA
1 TGTATCGATACAA
428667 TGTATCGATACAA
1 TGTATCGATACAA
428680 ACAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:434770 original size:13 final size:13
Alignment explanation
Indices: 434752--434777 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
434742 CATTTTTTGG
434752 TGTATCGATACAT
1 TGTATCGATACAT
434765 TGTATCGATACAT
1 TGTATCGATACAT
434778 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:434795 original size:32 final size:33
Alignment explanation
Indices: 434732--434795 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
434722 TACACGCCAA
** *
434732 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATTACTTGGTGTATCAATACAT
*
434765 TGTATCGATACA-TACTTGGTGTATTAATACA
1 TGTATCGATACATTACTTGGTGTATCAATACA
434796 AGTTTGGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTACTTGGTGTATCAATACAT
Found at i:435263 original size:19 final size:19
Alignment explanation
Indices: 435239--435299 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
435229 TAACTGTTTA
435239 TATCGATACACACAAGATG
1 TATCGATACACACAAGATG
435258 TATCGAT----AC-A-ATG
1 TATCGATACACACAAGATG
435271 TATCGATACACACAAGATG
1 TATCGATACACACAAGATG
435290 TATCGATACA
1 TATCGATACA
435300 ATGTATCGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.28
14 1 0.03
15 2 0.06
17 2 0.06
18 1 0.03
19 20 0.56
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.25
Consensus pattern (19 bp):
TATCGATACACACAAGATG
Found at i:435273 original size:13 final size:13
Alignment explanation
Indices: 435255--435312 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
435245 TACACACAAG
435255 ATGTATCGATACA
1 ATGTATCGATACA
435268 ATGTATCGATACACACAA
1 ATGTATCGAT----AC-A
435286 GATGTATCGATACA
1 -ATGTATCGATACA
435300 ATGTATCGATACA
1 ATGTATCGATACA
435313 TCCCAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.59
14 1 0.03
15 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:435280 original size:32 final size:32
Alignment explanation
Indices: 435239--435331 Score: 152
Period size: 32 Copynumber: 2.9 Consensus size: 32
435229 TAACTGTTTA
435239 TATCGATACACACAAGATGTATCGATACAATG
1 TATCGATACACACAAGATGTATCGATACAATG
435271 TATCGATACACACAAGATGTATCGATACAATG
1 TATCGATACACACAAGATGTATCGATACAATG
*
435303 TATCGATACATCCCAA-ATTGTATCGATAC
1 TATCGATACA-CACAAGA-TGTATCGATAC
435332 TGTTAGGATC
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
32 43 0.74
33 15 0.26
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TATCGATACACACAAGATGTATCGATACAATG
Found at i:436262 original size:34 final size:35
Alignment explanation
Indices: 436199--436265 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
436189 CTAAGTGATT
436199 GAGAGGTTCTATCTTAGCCCTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCCTTG-AAAAGATAGAGA
436235 GAGAGGTTTCTATCTTAG-CCTTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCCTTGAAAAGATAG
436266 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 11 0.37
37 11 0.37
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCCTTGAAAAGATAGAGA
Found at i:440887 original size:157 final size:158
Alignment explanation
Indices: 440594--441358 Score: 839
Period size: 158 Copynumber: 4.9 Consensus size: 158
440584 ACAGATAAAT
** * * * * **
440594 CCCTAAACTTTCTAAATTTGTAAA-TAGGTCCTAAACCTAATT-TAAACACAAAATTAAACATTG
1 CCCTAAACTTTCTAAATTTACAAATTA-GTCCT-TACATAATTAAAAACACAAAATTAAGCATCA
* * * * * * *
440657 AAGAAATC-AAATTAGTATATAAAGCACATTCCAAAAGTTACAA-GAAAAACTCGGCCAAATACT
64 AAGAAATCAAAATCAGCATACAAAACACA-TCCAAAAGTTACAAGGAAGAA-TTGGCCAAGTACT
* * *
440720 TTTAGCCTTAGATCAAAATTTTCAAAGAAACC
127 TTTGGCCTTAGAACAAAATTTTCAAATAAACC
* * * * * *
440752 CACTAAACTTTCTAATTTTGCAAATCAGTTCTTACATAA-TGAAAACACAAAATTAAGCATCAAA
1 CCCTAAACTTTCTAAATTTACAAATTAGTCCTTACATAATTAAAAACACAAAATTAAGCATCAAA
*
440816 GAAATCAAAAGT-AGCATATAAAACACATCCAAAAGTTACAAGGGAA-AATTGGCCAAGTACTTT
66 GAAATCAAAA-TCAGCATACAAAACACATCCAAAAGTTACAA-GGAAGAATTGGCCAAGTACTTT
**
440879 TAGG-CTTAGAACAAAATTTTTGAATAAACC
129 T-GGCCTTAGAACAAAATTTTCAAATAAACC
* * * * * * *
440909 CCTTAAACTTTTTGAACTTATAAATTAATCCTTACATAATT-AAAATACAAAATTAAGCATCAAA
1 CCCTAAACTTTCTAAATTTACAAATTAGTCCTTACATAATTAAAAACACAAAATTAAGCATCAAA
* * * * *
440973 GAAATGAAAATCAGCATACAAAACACATCTAAAAGTTAGAAGGAAGATTTGGCCAAGTACCTTTG
66 GAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGGAAGAATTGGCCAAGTACTTTTG
* *
441038 GCCTTAAAACAAAATTTTCGAATAAACC
131 GCCTTAGAACAAAATTTTCAAATAAACC
*
441066 CCCTAAACTTTCTAAAGTTACAAATTAGT-CTTCACATAATTAAAAACACAAAATTAAGCATCAA
1 CCCTAAACTTTCTAAATTTACAAATTAGTCCTT-ACATAATTAAAAACACAAAATTAAGCATCAA
* * * * *
441130 AGAAACCAAAATAAACATACAAAACACATCCAAAAGTTACAAGGAAGATTTCGCCAAGTACTTTT
65 AGAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGGAAGAATTGGCCAAGTACTTTT
* * *
441195 GGCCATAGAACAAAATTTTCATATATACC
130 GGCCTTAGAACAAAATTTTCAAATAAACC
* * *
441224 CCCTAAACTTTCTAAATTTATAAATTAGTCCTCAAATAATTAAAAACACAAAATTAAGCATCAAA
1 CCCTAAACTTTCTAAATTTACAAATTAGTCCTTACATAATTAAAAACACAAAATTAAGCATCAAA
* * * * * * **
441289 GAAATGAAAATCAGCATACAAAATACATCCAAAAGTTACACGAAAGATTTGGCCATGTAAGTTTG
66 GAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGGAAGAATTGGCCAAGTACTTTTG
441354 GCCTT
131 GCCTT
441359 GAAATAAAAT
Statistics
Matches: 517, Mismatches: 76, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
156 11 0.02
157 236 0.46
158 263 0.51
159 7 0.01
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (158 bp):
CCCTAAACTTTCTAAATTTACAAATTAGTCCTTACATAATTAAAAACACAAAATTAAGCATCAAA
GAAATCAAAATCAGCATACAAAACACATCCAAAAGTTACAAGGAAGAATTGGCCAAGTACTTTTG
GCCTTAGAACAAAATTTTCAAATAAACC
Found at i:441152 original size:22 final size:23
Alignment explanation
Indices: 441109--441152 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
441099 ACATAATTAA
*
441109 AAACACAAAATTAAGCATCAAAG
1 AAACACAAAATTAAACATCAAAG
441132 AAAC-CAAAA-TAAACATACAAA
1 AAACACAAAATTAAACAT-CAAA
441153 ACACATCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.66, C:0.18, G:0.05, T:0.11
Consensus pattern (23 bp):
AAACACAAAATTAAACATCAAAG
Found at i:441169 original size:315 final size:315
Alignment explanation
Indices: 440594--441370 Score: 908
Period size: 315 Copynumber: 2.5 Consensus size: 315
440584 ACAGATAAAT
* * * * * *
440594 CCCTAAACTTTCTAAATTTGTAAA-TAGGTCCT-AAACCTAATT-TAAACACAAAATTAAACATT
1 CCCTAAACTTTCTAAACTTATAAATTA-ATCCTCAAA--TAATTAAAAACACAAAATTAAGCATC
* * * * * * * * * * *
440656 GAAGAAAT-CAAATTAGTATATAAAGCACATTCCAAAAGTTACAAGAAAAACTCGGCCAAATACT
63 AAAGAAATGAAAATCAGCATACAAAACACA-TCCAAAAGTTACAAGAAAGATTTGGCCAAGTACC
* * * ** *
440720 TTTAGCCTTAGATCAAAATTTTCAAAGAAACCCACTAAACTTTCTAATTTTGCAAATCAGTTCTT
127 TTTGGCCTTAAAACAAAATTTTCAAAGAAACCCACTAAACTTTCTAAAGTTACAAATCAGTTCTT
* * * *
440785 ACATAATGAAAACACAAAATTAAGCATCAAAGAAATCAAAAGTAGCATATAAAACACATCCAAAA
192 ACATAATAAAAACACAAAATTAAGCATCAAAGAAACCAAAAGTAACATACAAAACACATCCAAAA
* * *
440850 GTTACAAGGGAA-AATTGGCCAAGTACTTTTAGG-CTTAGAACAAAATTTTTGA-ATAAACC
257 GTTACAA-GGAAGAATTCGCCAAGTACTTTT-GGCCATAGAACAAAA-TTTTCATATAAACC
* * * * * *
440909 CCTTAAACTTTTTGAACTTATAAATTAATCCTTACATAATT-AAAATACAAAATTAAGCATCAAA
1 CCCTAAACTTTCTAAACTTATAAATTAATCCTCAAATAATTAAAAACACAAAATTAAGCATCAAA
* * *
440973 GAAATGAAAATCAGCATACAAAACACATCTAAAAGTTAGAAGGAAGATTTGGCCAAGTACCTTTG
66 GAAATGAAAATCAGCATACAAAACACATCCAAAAGTTACAAGAAAGATTTGGCCAAGTACCTTTG
* * * *
441038 GCCTTAAAACAAAATTTTCGAATAAACCCCCTAAACTTTCTAAAGTTACAAATTAG-TCTTCACA
131 GCCTTAAAACAAAATTTTCAAAGAAACCCACTAAACTTTCTAAAGTTACAAATCAGTTCTT-ACA
441102 TAATTAAAAACACAAAATTAAGCATCAAAGAAACCAAAA-TAAACATACAAAACACATCCAAAAG
195 TAA-TAAAAACACAAAATTAAGCATCAAAGAAACCAAAAGT-AACATACAAAACACATCCAAAAG
* *
441166 TTACAAGGAAGATTTCGCCAAGTACTTTTGGCCATAGAACAAAATTTTCATATATACC
258 TTACAAGGAAGAATTCGCCAAGTACTTTTGGCCATAGAACAAAATTTTCATATAAACC
* *
441224 CCCTAAACTTTCTAAATTTATAAATTAGTCCTCAAATAATTAAAAACACAAAATTAAGCATCAAA
1 CCCTAAACTTTCTAAACTTATAAATTAATCCTCAAATAATTAAAAACACAAAATTAAGCATCAAA
* * * **
441289 GAAATGAAAATCAGCATACAAAATACATCCAAAAGTTACACGAAAGATTTGGCCATGTAAGTTTG
66 GAAATGAAAATCAGCATACAAAACACATCCAAAAGTTACAAGAAAGATTTGGCCAAGTACCTTTG
* *
441354 GCCTTGAAATAAAATTT
131 GCCTTAAAACAAAATTT
441371 CCAATATTTA
Statistics
Matches: 390, Mismatches: 62, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
313 4 0.01
314 122 0.31
315 166 0.43
316 98 0.25
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.27
Consensus pattern (315 bp):
CCCTAAACTTTCTAAACTTATAAATTAATCCTCAAATAATTAAAAACACAAAATTAAGCATCAAA
GAAATGAAAATCAGCATACAAAACACATCCAAAAGTTACAAGAAAGATTTGGCCAAGTACCTTTG
GCCTTAAAACAAAATTTTCAAAGAAACCCACTAAACTTTCTAAAGTTACAAATCAGTTCTTACAT
AATAAAAACACAAAATTAAGCATCAAAGAAACCAAAAGTAACATACAAAACACATCCAAAAGTTA
CAAGGAAGAATTCGCCAAGTACTTTTGGCCATAGAACAAAATTTTCATATAAACC
Found at i:444559 original size:34 final size:35
Alignment explanation
Indices: 444490--444562 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
444480 GGTATTTGTG
*
444490 GAAAGAATAAGCACAAAGGAATACAAATGAGCTTT
1 GAAAGAATAAGCACAAAGGAATACAAAAGAGCTTT
**
444525 GAAAGAATAA-CAACAAA-GAATACAAAAGCTCTTT
1 GAAAGAATAAGC-ACAAAGGAATACAAAAGAGCTTT
444559 GAAA
1 GAAA
444563 TGTAGAAGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 19 0.56
35 15 0.44
ACGTcount: A:0.55, C:0.12, G:0.16, T:0.16
Consensus pattern (35 bp):
GAAAGAATAAGCACAAAGGAATACAAAAGAGCTTT
Found at i:447585 original size:13 final size:13
Alignment explanation
Indices: 447567--447616 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
447557 ATAGTGCCCT
447567 TGTATCGATACAA
1 TGTATCGATACAA
*
447580 TGTATCGATGCAA
1 TGTATCGATACAA
*
447593 TGTATCAATACAA
1 TGTATCGATACAA
*
447606 TGCATCGATAC
1 TGTATCGATAC
447617 TAAGATCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:451708 original size:21 final size:24
Alignment explanation
Indices: 451664--451708 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 24
451654 TTTCATCATT
*
451664 TAGTTTAGAGAATGTTTCCTTTTC
1 TAGTTTAGACAATGTTTCCTTTTC
451688 TAGTTT-GACAAT-TTT-CTTTTC
1 TAGTTTAGACAATGTTTCCTTTTC
451709 AAGAATATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 3 0.15
23 5 0.25
24 6 0.30
ACGTcount: A:0.20, C:0.13, G:0.13, T:0.53
Consensus pattern (24 bp):
TAGTTTAGACAATGTTTCCTTTTC
Found at i:453808 original size:33 final size:33
Alignment explanation
Indices: 453766--453835 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
453756 GCCGTTAGGC
* ** *
453766 ACAATATATCGATACCTTTTACCATGTATCGAT
1 ACAATATATCAATACAATGTACCATGTATCGAT
*
453799 ACAATATATCAATGCAATGTACCATGTATCGAT
1 ACAATATATCAATACAATGTACCATGTATCGAT
453832 ACAA
1 ACAA
453836 CTAGTGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (33 bp):
ACAATATATCAATACAATGTACCATGTATCGAT
Found at i:456033 original size:29 final size:29
Alignment explanation
Indices: 455943--456033 Score: 80
Period size: 29 Copynumber: 3.1 Consensus size: 29
455933 TAAAATGACC
* *
455943 TAAATGACCATAACATACATGAAATTGCA
1 TAAATGACCCTAACATACATGAAATTACA
* * *
455972 TAAAAGTCCCTAA-AT-CATGAAAAATGA-A
1 TAAATGACCCTAACATACATG--AAATTACA
*
456000 CTAAATGACCCCAACATACATGAAATTACA
1 -TAAATGACCCTAACATACATGAAATTACA
456030 TAAA
1 TAAA
456034 AGTTCCTAGA
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
27 4 0.09
28 3 0.06
29 33 0.70
30 3 0.06
31 4 0.09
ACGTcount: A:0.51, C:0.19, G:0.09, T:0.22
Consensus pattern (29 bp):
TAAATGACCCTAACATACATGAAATTACA
Found at i:456088 original size:59 final size:58
Alignment explanation
Indices: 455927--456115 Score: 204
Period size: 58 Copynumber: 3.2 Consensus size: 58
455917 AAGATTATGG
* * ** *
455927 ATCATGTAAAATGACCTAAATGACCATAACATACATGAAATTGCATAAAAGTCCCTAA
1 ATCATGAAAAATGAACTAAATGACCCCAACATACATGAAATTACATAAAAGTCCCTAA
* *
455985 ATCATGAAAAATGAACTAAATGACCCCAACATACATGAAATTACATAAAAGTTCCTAG
1 ATCATGAAAAATGAACTAAATGACCCCAACATACATGAAATTACATAAAAGTCCCTAA
** * *
456043 ATCAT-AGAAAAT-AACCTAAATGATCCCCAACATTTAT-AAAGTTACATAAAAGTCTCTAG
1 ATCATGA-AAAATGAA-CTAAATGA-CCCCAACATACATGAAA-TTACATAAAAGTCCCTAA
* *
456102 GTCATGCAAAATGA
1 ATCATGAAAAATGA
456116 TTTCATAAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
57 3 0.03
58 72 0.64
59 36 0.32
60 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.24
Consensus pattern (58 bp):
ATCATGAAAAATGAACTAAATGACCCCAACATACATGAAATTACATAAAAGTCCCTAA
Found at i:457004 original size:20 final size:20
Alignment explanation
Indices: 456955--457005 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
456945 AAGAAATCCA
*
456955 TTTTTTTCTTTTTTTTCTAT
1 TTTTTTTCTTTTTGTTCTAT
** * *
456975 TTTTCCTCTTTTTGTTGTTT
1 TTTTTTTCTTTTTGTTCTAT
456995 TTTTTTTCTTT
1 TTTTTTTCTTT
457006 GATTATTCTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (20 bp):
TTTTTTTCTTTTTGTTCTAT
Found at i:458540 original size:131 final size:131
Alignment explanation
Indices: 458374--458635 Score: 515
Period size: 131 Copynumber: 2.0 Consensus size: 131
458364 CCACCATTAT
458374 AAACTTTGGATATACCATTAAAAACTTGTATTTGTTTTGGCTACCACCAAATGCTTTGAATGTAC
1 AAACTTTGGATATACCATTAAAAACTTGTATTTGTTTTGGCTACCACCAAATGCTTTGAATGTAC
*
458439 CACCAAAGACTTATATTCATTTTGGTTATCATTGCTAATGACTTATTCTGACAGTTTTCTTAAAT
66 CACCAAAGACTTATATTCATTTTGGTTATCATTGCTAATGACTTATTCTGACAATTTTCTTAAAT
458504 G
131 G
458505 AAACTTTGGATATACCATTAAAAACTTGTATTTGTTTTGGCTACCACCAAATGCTTTGAATGTAC
1 AAACTTTGGATATACCATTAAAAACTTGTATTTGTTTTGGCTACCACCAAATGCTTTGAATGTAC
458570 CACCAAAGACTTATATTCATTTTGGTTATCATTGCTAATGACTTATTCTGACAATTTTCTTAAAT
66 CACCAAAGACTTATATTCATTTTGGTTATCATTGCTAATGACTTATTCTGACAATTTTCTTAAAT
458635 G
131 G
458636 TATTGGATTC
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 130 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.40
Consensus pattern (131 bp):
AAACTTTGGATATACCATTAAAAACTTGTATTTGTTTTGGCTACCACCAAATGCTTTGAATGTAC
CACCAAAGACTTATATTCATTTTGGTTATCATTGCTAATGACTTATTCTGACAATTTTCTTAAAT
G
Found at i:458771 original size:46 final size:45
Alignment explanation
Indices: 458721--458869 Score: 149
Period size: 46 Copynumber: 3.2 Consensus size: 45
458711 GAAAATTTTC
458721 TTAAATGCTGTAGATTCCACCATCGATGATCATTTTGTAAAAATCT
1 TTAAATGCT-TAGATTCCACCATCGATGATCATTTTGTAAAAATCT
* * * * * * * *
458767 TTAAATGCTTCATATGCCTCCATTGAAGACTTATTTTG-AAAATTTT
1 TTAAATGCTT-AGATTCCACCATCGATGA-TCATTTTGTAAAAATCT
*
458813 CTTAAATGCTTTAGATTCCACCA-CTGTTGATCATTTTGTAAAAATCT
1 -TTAAATGC-TTAGATTCCACCATC-GATGATCATTTTGTAAAAATCT
458860 TTAAATGCTT
1 TTAAATGCTT
458870 CAAATGTCTC
Statistics
Matches: 80, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
45 3 0.04
46 43 0.54
47 32 0.40
48 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (45 bp):
TTAAATGCTTAGATTCCACCATCGATGATCATTTTGTAAAAATCT
Found at i:458784 original size:93 final size:92
Alignment explanation
Indices: 458604--458914 Score: 396
Period size: 93 Copynumber: 3.4 Consensus size: 92
458594 GTTATCATTG
* * * * * *
458604 CTAATGACTTATTCTGACAATTTTCTTAAATG-TATTGGATTCCACCACCAAT-ATCATTTTGCA
1 CTAAAGACTTATTTTGAAAATTTTCTTAAATGCT-TTAGATTCCACCA-CGATGATCATTTTGTA
* *
458667 AAACTCTTTAAATGCTTCACATGCCTCCA
64 AAAATCTTTAAATGCTTCAAATGCCTCCA
* * *
458696 CTAAAAACTTGTTTTGAAAATTTTCTTAAATGCTGTAGATTCCACCATCGATGATCATTTTGTAA
1 CTAAAGACTTATTTTGAAAATTTTCTTAAATGCTTTAGATTCCACCA-CGATGATCATTTTGTAA
*
458761 AAATCTTTAAATGCTTCATATGCCTCCA
65 AAATCTTTAAATGCTTCAAATGCCTCCA
* * *
458789 TTGAAGACTTATTTTGAAAATTTTCTTAAATGCTTTAGATTCCACCACTGTTGATCATTTTGTAA
1 CTAAAGACTTATTTTGAAAATTTTCTTAAATGCTTTAGATTCCACCAC-GATGATCATTTTGTAA
*
458854 AAATCTTTAAATGCTTCAAATGTCTCCA
65 AAATCTTTAAATGCTTCAAATGCCTCCA
* *
458882 CCAAAGACTTCTTTTGAAAA-TTT-TTAAATGCTT
1 CTAAAGACTTATTTTGAAAATTTTCTTAAATGCTT
458915 CGGATGCTTC
Statistics
Matches: 192, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
91 10 0.05
92 45 0.23
93 137 0.71
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.40
Consensus pattern (92 bp):
CTAAAGACTTATTTTGAAAATTTTCTTAAATGCTTTAGATTCCACCACGATGATCATTTTGTAAA
AATCTTTAAATGCTTCAAATGCCTCCA
Found at i:458818 original size:47 final size:46
Alignment explanation
Indices: 458659--458926 Score: 177
Period size: 47 Copynumber: 5.8 Consensus size: 46
458649 CACCAATATC
* * * * *
458659 ATTTTGCAAAACTCTTTAAATGCTTCACATGCCTCCACTAAAAACTT
1 ATTTTG-AAAAATTTTTAAATGCTTCAGATGCCTCCACTGAAGACTT
* * * * * *
458706 GTTTTGAAAATTTTCTTAAATGCTGT-AGATTCCACCA-TCGATGA-TC
1 ATTTTGAAAAATTT-TTAAATGCT-TCAGATGCCTCCACT-GAAGACTT
* * *
458752 ATTTTGTAAAAATCTTTAAATGCTTCATATGCCTCCATTGAAGACTT
1 ATTTTG-AAAAATTTTTAAATGCTTCAGATGCCTCCACTGAAGACTT
* * * * ** *
458799 ATTTTGAAAATTTTCTTAAATGCTTTAGATTCCACCACTGTTGA-TC
1 ATTTTGAAAAATTT-TTAAATGCTTCAGATGCCTCCACTGAAGACTT
* * * **
458845 ATTTTGTAAAAATCTTTAAATGCTTCAAATGTCTCCACCAAAGACTT
1 ATTTTG-AAAAATTTTTAAATGCTTCAGATGCCTCCACTGAAGACTT
* * *
458892 CTTTTG-AAAATTTTTAAATGCTTCGGATGCTTCCA
1 ATTTTGAAAAATTTTTAAATGCTTCAGATGCCTCCA
458927 TCGAAGGCTT
Statistics
Matches: 165, Mismatches: 46, Indels: 22
0.71 0.20 0.09
Matches are distributed among these distances:
45 25 0.15
46 67 0.41
47 72 0.44
48 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (46 bp):
ATTTTGAAAAATTTTTAAATGCTTCAGATGCCTCCACTGAAGACTT
Found at i:465499 original size:156 final size:155
Alignment explanation
Indices: 465215--465923 Score: 675
Period size: 156 Copynumber: 4.5 Consensus size: 155
465205 GGTGTAAGAG
* * *
465215 TGACAACCTAGGACTCGATCTTAAAAAAATTATGAAAAATGTCCCTAGTG-GTATACCTTTGA-A
1 TGACAACCTAGGACTCGAT-TTTAAAAAATTATG-AAAATGCCCCTA-TGAGTATACCTTCGACA
* * * * *
465278 TGAAAGTATCCTGGTAAGCTTAAAGGACTTAAAATGGTTATAGCTGGGATGAACCAATCCTAAAT
63 TGAAAGTATCCTGATAACCCTAAAGGACTTAAAAAGGTTATAGCAGGGATGAACCAATCCTAAAT
* *
465343 ACCCACTTTCGGCAT-AAAGTGGACCTGA
128 ACCCACCTTCGGCATAAAAG-GGACCCGA
* * * *
465371 TGACAACCTAGGACTCGATTCTAAACACTTATGAAAATGCCCCTATGAGTATACTTTCGACATGA
1 TGACAACCTAGGACTCGATTTTAAAAAATTATGAAAATGCCCCTATGAGTATACCTTCGACATGA
* * *
465436 AAGTATCCTAATAACCCTAAAGGACTTAAAAAGAATTATAGAAGGGATGAACCAATCCTAAATAC
66 AAGTATCCTGATAACCCTAAAGGACTTAAAAAG-GTTATAGCAGGGATGAACCAATCCTAAATAC
* * *
465501 CCACCTTCAGCTTAAAAGCAGG-CCCGG
130 CCACCTTCGGCATAAAAG--GGACCCGA
** * * * * * *
465528 TGGTAACTTAGGAGTCAATTTTAAAAAATTATGAAAATACCCCTATGGGTATACCTTCGATATGA
1 TGACAACCTAGGACTCGATTTTAAAAAATTATGAAAATGCCCCTATGAGTATACCTTCGACATGA
* * ** *
465593 AAGTAT-CTCGATAACCCTAAAGGACTTAAAAAGGTTCTAGCTGGGATGAACCTCTACTAAATAC
66 AAGTATCCT-GATAACCCTAAAGGACTTAAAAAGGTTATAGCAGGGATGAACCAATCCTAAATAC
* ** * ** * *
465657 TCATTTTTGGCATAAAAGCAAACTCGG
130 CCACCTTCGGCATAAAAG-GGACCCGA
* * ** * *
465684 TGATAAGCTAGGACTC-AGTTTTAAAAAATTACAAAAATGCCCCAATGGGTATACCTTCGACATG
1 TGACAACCTAGGACTCGA-TTTTAAAAAATTATGAAAATGCCCCTATGAGTATACCTTCGACATG
* * * *
465748 AAAGTATCTTGGTAACCCTAAAGGACTTAAAAAGGTTATAGCTAGGG-TGAACCTATGCTAAATA
65 AAAGTATCCTGATAACCCTAAAGGACTTAAAAAGGTTATAGC-AGGGATGAACCAATCCTAAATA
** *
465812 CCCACCTTCGATATAAAAGCGGACCCAA
129 CCCACCTTCGGCATAAAAG-GGACCCGA
* ** * *
465840 TGACAACCTAGTTA-TCGATTTTAAAAAATTACAAAAATGCCCCTAT-AGGT-TACCTTCAAGAT
1 TGACAACCTAG-GACTCGATTTTAAAAAATTATGAAAATGCCCCTATGA-GTATACCTTCGACAT
465902 GAAAGTAT-CTCGATAACCCTAA
64 GAAAGTATCCT-GATAACCCTAA
465924 TGGATAATTA
Statistics
Matches: 453, Mismatches: 86, Indels: 29
0.80 0.15 0.05
Matches are distributed among these distances:
153 2 0.00
154 22 0.05
155 71 0.16
156 261 0.58
157 95 0.21
158 2 0.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (155 bp):
TGACAACCTAGGACTCGATTTTAAAAAATTATGAAAATGCCCCTATGAGTATACCTTCGACATGA
AAGTATCCTGATAACCCTAAAGGACTTAAAAAGGTTATAGCAGGGATGAACCAATCCTAAATACC
CACCTTCGGCATAAAAGGGACCCGA
Found at i:465811 original size:312 final size:311
Alignment explanation
Indices: 465215--465923 Score: 774
Period size: 312 Copynumber: 2.3 Consensus size: 311
465205 GGTGTAAGAG
* * * *
465215 TGACAACCTAG-GACTCGATCTTAAAAAAATTATGAAAAATGTCCCTA-GTGGTATACCTTTGAA
1 TGACAACCTAGTGA-TCAAT-TTTAAAAAATTATG-AAAATGCCCCTATG-GGTATACCTTCGAA
* * * * *
465278 TGAAAGTATC-CTGGTAAGCTTAAAGGACTTAAAATGGTTATAGCTGGGATGAACCAATCCTAAA
62 TGAAAGTATCTC-GATAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGATGAACCAATACTAAA
*** * * **
465342 TACCCACTTTCGGCATAAAGTGGACCTGATGACAACCTAGGACTCGATTCTAAACACTTATGAAA
126 TACCCACTTTCGGCATAAAGCAAACCTGATGACAACCTAGGACTCGATTCTAAAAAATTACAAAA
* *
465407 ATGCCCCTATGAGTATACTTTCGACATGAAAGTATCCTAATAACCCTAAAGGACTTAAAAAGAAT
191 ATGCCCCAATGAGTATACCTTCGACATGAAAGTATCCTAATAACCCTAAAGGACTTAAAAAGAAT
* **
465472 TATAGAAGGGATGAACCAATCCTAAATACCCACCTTCAGCT-TAAAAGCAGG-CCCGG
256 TATAGAAGGGATGAACCAATCCTAAATACCCACCTTC-GATATAAAAGC-GGACCCAA
** * *
465528 TGGTAACTTAG-GAGTCAATTTTAAAAAATTATGAAAATACCCCTATGGGTATACCTTCGATATG
1 TGACAACCTAGTGA-TCAATTTTAAAAAATTATGAAAATGCCCCTATGGGTATACCTTCGA-ATG
* **
465592 AAAGTATCTCGATAACCCTAAAGGACTTAAAAAGGTTCTAGCTGGGATGAACCTCTACTAAATAC
64 AAAGTATCTCGATAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGATGAACCAATACTAAATAC
* * * * * * *
465657 TCATTTTTGGCATAAAAGCAAA-CTCGGTGATAAGCTAGGACTC-AGTTTTAAAAAATTACAAAA
129 CCACTTTCGGCAT-AAAGCAAACCT-GATGACAACCTAGGACTCGA-TTCTAAAAAATTACAAAA
* * ** *
465720 ATGCCCCAATGGGTATACCTTCGACATGAAAGTATCTTGGTAACCCTAAAGGACTTAAAAAG-GT
191 ATGCCCCAATGAGTATACCTTCGACATGAAAGTATCCTAATAACCCTAAAGGACTTAAAAAGAAT
* * *
465784 TATAGCTAGGG-TGAACCTATGCTAAATACCCACCTTCGATATAAAAGCGGACCCAA
256 TATAG-AAGGGATGAACCAATCCTAAATACCCACCTTCGATATAAAAGCGGACCCAA
* * ** * *
465840 TGACAACCTAGTTATCGATTTTAAAAAATTACAAAAATGCCCCTATAGGT-TACCTTCAAGATGA
1 TGACAACCTAGTGATCAATTTTAAAAAATTATGAAAATGCCCCTATGGGTATACCTTCGA-ATGA
465904 AAGTATCTCGATAACCCTAA
65 AAGTATCTCGATAACCCTAA
465924 TGGATAATTA
Statistics
Matches: 331, Mismatches: 55, Indels: 22
0.81 0.13 0.05
Matches are distributed among these distances:
311 58 0.18
312 164 0.50
313 109 0.33
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (311 bp):
TGACAACCTAGTGATCAATTTTAAAAAATTATGAAAATGCCCCTATGGGTATACCTTCGAATGAA
AGTATCTCGATAACCCTAAAGGACTTAAAAAGGTTATAGCTGGGATGAACCAATACTAAATACCC
ACTTTCGGCATAAAGCAAACCTGATGACAACCTAGGACTCGATTCTAAAAAATTACAAAAATGCC
CCAATGAGTATACCTTCGACATGAAAGTATCCTAATAACCCTAAAGGACTTAAAAAGAATTATAG
AAGGGATGAACCAATCCTAAATACCCACCTTCGATATAAAAGCGGACCCAA
Found at i:468121 original size:165 final size:165
Alignment explanation
Indices: 467899--468203 Score: 381
Period size: 165 Copynumber: 1.8 Consensus size: 165
467889 TTTAATAACA
* * *
467899 ATATTTAATGAATTTTTAAAATTTTAAATAGTAAAAAATCTCCCCAAAAATATTTATG-GGATAG
1 ATATTTAATGAATTTTAAAAATTTTAAATAATAAAAAATCTCCCCAAAAATATTTATGAAGA-A-
* **
467963 AAAAC-TCGATTTTTTGAAAATAAGAG-AATTTCAAAGAAAAATTTAAAACTCATG-AAGATGAA
64 AAAACTTCG-TATTTTGAAAATAAGAGAAATTTCAAAGAAAAATGAAAAACTCATGAAAG-TGAA
*
468025 TGAATTTTTTAAAACAAATTTACTATGGATTAAATGATG
127 TGAATTTTTCAAAACAAATTTACTATGGATTAAATGATG
* * *
468064 ATATTTGATGAATTTTAAAAATTTTAAATCAAT-GAAAATC-CTCTC-AAAATAATTTATGAAGA
1 ATATTTAATGAATTTTAAAAATTTTAAAT-AATAAAAAATCTC-CCCAAAAAT-ATTTATGAAGA
* * *
468126 AAAAACTTCGTATTTTGAAAATAGGAGAAATTTCAAGGAAAAATGAAAAATTCATGAAAGTGAAT
63 AAAAACTTCGTATTTTGAAAATAAGAGAAATTTCAAAGAAAAATGAAAAACTCATGAAAGTGAAT
468191 GAATTTTTCAAAA
128 GAATTTTTCAAAA
468204 TTGATTTGAT
Statistics
Matches: 120, Mismatches: 13, Indels: 14
0.82 0.09 0.10
Matches are distributed among these distances:
164 26 0.22
165 87 0.73
166 7 0.06
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (165 bp):
ATATTTAATGAATTTTAAAAATTTTAAATAATAAAAAATCTCCCCAAAAATATTTATGAAGAAAA
AACTTCGTATTTTGAAAATAAGAGAAATTTCAAAGAAAAATGAAAAACTCATGAAAGTGAATGAA
TTTTTCAAAACAAATTTACTATGGATTAAATGATG
Found at i:468442 original size:21 final size:21
Alignment explanation
Indices: 468399--468443 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
468389 AAAAATGAAG
* *
468399 AAAATAAAGTTATAAAATCTA
1 AAAATAAAGTAATAAAATATA
468420 AAAATAAAGTAAATAAAA-ATA
1 AAAATAAAGT-AATAAAATATA
468441 AAA
1 AAA
468444 TTCACGAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAATAAAGTAATAAAATATA
Found at i:469730 original size:41 final size:41
Alignment explanation
Indices: 469524--469968 Score: 244
Period size: 40 Copynumber: 11.0 Consensus size: 41
469514 ATCAAACGAA
* * *
469524 TAGAAGGGTTGACTAGGGCAAAACTGATAAAGTCAATCAAT
1 TAGAAAGGTTGACCAGGGCAAAACTGATAAAGTCAACCAAT
* * * * * *
469565 TA-AAAGGCT-AGTCAAGGCAAAA-TCGATAAA-ACTAATCAGT
1 TAGAAAGGTTGA-CCAGGGCAAAACT-GATAAAGTC-AACCAAT
* *** *
469605 TAGAAAGGTTGACTAGGTTGATACTGATAAAG-CAACCAATT
1 TAGAAAGGTTGACCAGGGCAAAACTGATAAAGTCAACCAA-T
* * * * ** ***
469646 TA-AAGGGTT-AGCTAAGGCAAAACCGATAAAACCAACGGGT
1 TAGAAAGGTTGA-CCAGGGCAAAACTGATAAAGTCAACCAAT
* * *
469686 TAGAAAAGTTGACGAAGGCAAAACTGATAAAGTCAACCAAT
1 TAGAAAGGTTGACCAGGGCAAAACTGATAAAGTCAACCAAT
* * *
469727 TAG-AAGGTTGGCTAGGGCAAAACTAATAAAG-C-ACACAGAT
1 TAGAAAGGTTGACCAGGGCAAAACTGATAAAGTCAAC-CA-AT
* * *
469767 TA-AAAGGGTTGACCAAGGCAAAACCGATAAAATCAACCAAT
1 TAGAAA-GGTTGACCAGGGCAAAACTGATAAAGTCAACCAAT
* * ** *
469808 TAG-AAGGTTGGCTAGGGTGAAA-TCGATAAAGCCAA-CAGAT
1 TAGAAAGGTTGACCAGGGCAAAACT-GATAAAGTCAACCA-AT
*
469848 TAGAAGGGTTGACCAGGGCAAAACTGATAAAGTCAACCAAT
1 TAGAAAGGTTGACCAGGGCAAAACTGATAAAGTCAACCAAT
* * *
469889 TAG-AAGGTTGGCTAGGGCAAAA-TCGATAAAGCCAA-CAGAT
1 TAGAAAGGTTGACCAGGGCAAAACT-GATAAAGTCAACCA-AT
* *
469929 TA-AAAGTGTCGACCAGGGCAGAA-TAGATAAAGTCAACCAA
1 TAGAAAG-GTTGACCAGGGCAAAACT-GATAAAGTCAACCAA
469969 GGATGAAAAG
Statistics
Matches: 303, Mismatches: 72, Indels: 58
0.70 0.17 0.13
Matches are distributed among these distances:
38 2 0.01
39 12 0.04
40 141 0.47
41 135 0.45
42 11 0.04
43 2 0.01
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (41 bp):
TAGAAAGGTTGACCAGGGCAAAACTGATAAAGTCAACCAAT
Found at i:469924 original size:81 final size:81
Alignment explanation
Indices: 469524--469968 Score: 463
Period size: 81 Copynumber: 5.5 Consensus size: 81
469514 ATCAAACGAA
* * * * * *
469524 TAGAAGGGTTGACTAGGGCAAAACTGATAAAGTCAATCAATTAAAAGGCTAG-TCAAGGCAAAAT
1 TAGAAGGGTTGACCAGGGCAAAACTGATAAAGTCAACCAATTAGAAGGTTGGCT-AGGGCAAAAT
* *
469588 CGATAAAACTAATCAG-T
65 CGATAAAGCCAA-CAGAT
* * *** * * *
469605 TAGAAAGGTTGACTAGGTTGATACTGATAAAG-CAACCAATTTA-AAGGGTTAGCTAAGGCAAAA
1 TAGAAGGGTTGACCAGGGCAAAACTGATAAAGTCAACCAA-TTAGAA-GGTTGGCTAGGGCAAAA
* * * *
469668 CCGATAAAACCAACGGGT
64 TCGATAAAGCCAACAGAT
** * *
469686 TAGAAAAGTTGACGAAGGCAAAACTGATAAAGTCAACCAATTAGAAGGTTGGCTAGGGCAAAA-C
1 TAGAAGGGTTGACCAGGGCAAAACTGATAAAGTCAACCAATTAGAAGGTTGGCTAGGGCAAAATC
*
469750 TAATAAAG-CACACAGAT
66 -GATAAAGCCA-ACAGAT
* * * * **
469767 TAAAAGGGTTGACCAAGGCAAAACCGATAAAATCAACCAATTAGAAGGTTGGCTAGGGTGAAATC
1 TAGAAGGGTTGACCAGGGCAAAACTGATAAAGTCAACCAATTAGAAGGTTGGCTAGGGCAAAATC
469832 GATAAAGCCAACAGAT
66 GATAAAGCCAACAGAT
469848 TAGAAGGGTTGACCAGGGCAAAACTGATAAAGTCAACCAATTAGAAGGTTGGCTAGGGCAAAATC
1 TAGAAGGGTTGACCAGGGCAAAACTGATAAAGTCAACCAATTAGAAGGTTGGCTAGGGCAAAATC
469913 GATAAAGCCAACAGAT
66 GATAAAGCCAACAGAT
* * * *
469929 TAAAAGTGTCGACCAGGGCAGAA-TAGATAAAGTCAACCAA
1 TAGAAGGGTTGACCAGGGCAAAACT-GATAAAGTCAACCAA
469969 GGATGAAAAG
Statistics
Matches: 311, Mismatches: 42, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
80 14 0.05
81 284 0.91
82 13 0.04
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (81 bp):
TAGAAGGGTTGACCAGGGCAAAACTGATAAAGTCAACCAATTAGAAGGTTGGCTAGGGCAAAATC
GATAAAGCCAACAGAT
Found at i:470065 original size:35 final size:35
Alignment explanation
Indices: 470019--470252 Score: 232
Period size: 35 Copynumber: 6.8 Consensus size: 35
470009 TAAACGAGAT
* *
470019 TGGAAAGAGTTTGACCAGATATAGTTAAAGGATGA
1 TGGAAAGAGTTTGACCAGATATAGCTAAATGATGA
470054 TGGGAAA-AGTTTGACCAGATATAG-TCAAATGATGA
1 T-GGAAAGAGTTTGACCAGATATAGCT-AAATGATGA
* * *
470089 TGGGAAGAGTTTGACCAG-----GTTAAACGATGA
1 TGGAAAGAGTTTGACCAGATATAGCTAAATGATGA
* * *
470119 TGGAAAGAGTTTGACTAGATACAACTAAATGATGA
1 TGGAAAGAGTTTGACCAGATATAGCTAAATGATGA
* * *
470154 TGGAGAA-ATTTTGACTAGATATAGCTAAATGATAA
1 TGGA-AAGAGTTTGACCAGATATAGCTAAATGATGA
* * * *
470189 TGAAAAGAGTTTCACTAGATATAGCTAAACGATGA
1 TGGAAAGAGTTTGACCAGATATAGCTAAATGATGA
* *
470224 TGGAAAGAGTTTTACCAGATACAGCTAAA
1 TGGAAAGAGTTTGACCAGATATAGCTAAA
470253 CAAAGGAAGA
Statistics
Matches: 167, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
30 25 0.15
31 1 0.01
34 7 0.04
35 127 0.76
36 7 0.04
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (35 bp):
TGGAAAGAGTTTGACCAGATATAGCTAAATGATGA
Found at i:470184 original size:100 final size:101
Alignment explanation
Indices: 470008--470252 Score: 273
Period size: 100 Copynumber: 2.4 Consensus size: 101
469998 ATCGGTACAA
* *
470008 TTAAACGA-GATTGGAAAGAGTTTGACCAGATATAGTTAAAGGATGATGGGAAAAGTTTGACCAG
1 TTAAACGATGA-TGGAAAGAGTTTGACCAGATACAGCTAAAGGATGATGGGAAAAGTTTGACCAG
* ** *
470072 ATATAGTCAAATGATGATGGGAAGAGTTTGACCAG-G
65 ATATAGTCAAATGATAATGAAAAGAGTTTCACCAGAG
* * * * *
470108 TTAAACGATGATGGAAAGAGTTTGACTAGATACAACTAAATGATGAT-GGAGAAATTTTGACTAG
1 TTAAACGATGATGGAAAGAGTTTGACCAGATACAGCTAAAGGATGATGGGA-AAAGTTTGACCAG
*
470172 ATATAG-CTAAATGATAATGAAAAGAGTTTCACTAGATATAG
65 ATATAGTC-AAATGATAATGAAAAGAGTTTCACCAG----AG
* *
470213 CTAAACGATGATGGAAAGAGTTTTACCAGATACAGCTAAA
1 TTAAACGATGATGGAAAGAGTTTGACCAGATACAGCTAAA
470253 CAAAGGAAGA
Statistics
Matches: 121, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
99 4 0.03
100 78 0.64
101 2 0.02
105 37 0.31
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (101 bp):
TTAAACGATGATGGAAAGAGTTTGACCAGATACAGCTAAAGGATGATGGGAAAAGTTTGACCAGA
TATAGTCAAATGATAATGAAAAGAGTTTCACCAGAG
Found at i:471021 original size:91 final size:91
Alignment explanation
Indices: 470865--471093 Score: 257
Period size: 91 Copynumber: 2.5 Consensus size: 91
470855 GTTCCTTCTT
* * * **
470865 TGATGCATCAATGCCATCTAGTAGCTAAAAGAAAGGGATATGATTGGGAATGAGTGGTCAGGATA
1 TGATGCATCAATACCATCTAGT-GGTTAGTGAAAGGGATATGATTGGGAATGAGTGGTCAGGATA
* *
470930 TCATTGCCCTA-GGGAAACCAAG-CTTTG
65 TCATTGCCCCATGGG-AA-CAAGACTTCG
*
470957 TGATGCATCAATACCATCTAGTGGTTGAGTG-AAGGGATATGATTGGTAATGAGTGGTCAGGATA
1 TGATGCATCAATACCATCTAGTGGTT-AGTGAAAGGGATATGATTGGGAATGAGTGGTCAGGATA
* **
471021 TCCTTGCCCCATGGGAATTAGACTTCG
65 TCATTGCCCCATGGGAACAAGACTTCG
* * * *
471048 TGATGCATCAATACTATTTAGTGGTTAGATGTAGGGGATATGATTG
1 TGATGCATCAATACCATCTAGTGGTTAG-TGAAAGGGATATGATTG
471094 AAAATATGTA
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
90 4 0.03
91 75 0.64
92 39 0.33
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (91 bp):
TGATGCATCAATACCATCTAGTGGTTAGTGAAAGGGATATGATTGGGAATGAGTGGTCAGGATAT
CATTGCCCCATGGGAACAAGACTTCG
Found at i:471326 original size:90 final size:88
Alignment explanation
Indices: 470865--471334 Score: 312
Period size: 90 Copynumber: 5.2 Consensus size: 88
470855 GTTCCTTCTT
* * * * *
470865 TGATGCATCAATGCCATCTAGTAGCTAAAAGAAAGGGATATGATTGGGAATGA-GTGGTCAGGAT
1 TGATGCATCAATACCATCTAGTAGTTGAATG-AAGGGATATGATTGGGAATGATG-GGTCA-G-C
* * * **
470929 ATCATTGCCCTAGGGAAACCAAGCTTTG
62 ACCCTTGCCCTAAGGAAA-TTAGCTTTG
* * * *
470957 TGATGCATCAATACCATCTAGTGGTTGAGTGAAGGGATATGATTGGTAATGA-GTGGTCAGGATA
1 TGATGCATCAATACCATCTAGTAGTTGAATGAAGGGATATGATTGGGAATGATG-GGTCA-G-CA
* * * * *
471021 TCCTTGCCCCATGGGAATTAGACTTCG
63 CCCTTGCCCTAAGGAAATTAG-CTTTG
* * * * ** *
471048 TGATGCATCAATACTATTTAGTGGTT-AGATGTAGGGGATATGATTGAAAAT-ATGTAGG-CCGC
1 TGATGCATCAATACCATCTAGTAGTTGA-ATG-AAGGGATATGATTGGGAATGATG--GGTCAGC
471110 A-CCTTGCCCCTAAGGAAATTAGGCTTTG
62 ACCCTTG-CCCTAAGGAAATTA-GCTTTG
* * * ** ** *
471138 TGATGCATTAATACCA-CTTAG-AGGTTGAGTGAGGGGATACAATTAAGAATGAGTGGG-CTGCA
1 TGATGCATCAATACCATC-TAGTA-GTTGAATGAAGGGATATGATTGGGAATGA-TGGGTCAGCA
* * * *
471200 CCTTTTCCCCAAGGAAATTAAGCTTTA
63 CCCTTGCCCTAAGGAAATT-AGCTTTG
*
471227 TGATACATCAATACCATCTAGTAGTTGAATGAAGGGAATATGATTGGGAATGTATGGGTC-GCAC
1 TGATGCATCAATACCATCTAGTAGTTGAATGAAGGG-ATATGATTGGGAATG-ATGGGTCAGCAC
*
471291 CCTTGCCCTAAAGAAATCTAGCTTTG
64 CCTTGCCCTAAGGAAAT-TAGCTTTG
471317 TGATGCATCAATACCATC
1 TGATGCATCAATACCATC
471335 GATAAGGTTT
Statistics
Matches: 303, Mismatches: 55, Indels: 42
0.76 0.14 0.10
Matches are distributed among these distances:
89 71 0.23
90 103 0.34
91 84 0.28
92 43 0.14
93 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (88 bp):
TGATGCATCAATACCATCTAGTAGTTGAATGAAGGGATATGATTGGGAATGATGGGTCAGCACCC
TTGCCCTAAGGAAATTAGCTTTG
Found at i:471780 original size:80 final size:81
Alignment explanation
Indices: 471683--471837 Score: 222
Period size: 80 Copynumber: 1.9 Consensus size: 81
471673 TAGGTAATTC
* * *
471683 GAATGTTATCTAATAGTGTAGATGCATATGAAATAATGTAAATGCAAGCATCAATAAA-TGGCAA
1 GAATGTTATCTAATAGTGTAGATGCACATGAAATAATGCAAATGCAAGCATCAATAAAGAGGCAA
471747 ATGCATATGAGATAAT
66 ATGCATATGAGATAAT
* ** * *
471763 GAATTTTATCTAATAGTGTAGATGTGCATGAAATGATGCGAATGCAAGCATCAATAAAGAGGCAA
1 GAATGTTATCTAATAGTGTAGATGCACATGAAATAATGCAAATGCAAGCATCAATAAAGAGGCAA
*
471828 ATGCCTATGA
66 ATGCATATGA
471838 AACGATACCA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 51 0.78
81 14 0.22
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (81 bp):
GAATGTTATCTAATAGTGTAGATGCACATGAAATAATGCAAATGCAAGCATCAATAAAGAGGCAA
ATGCATATGAGATAAT
Found at i:473227 original size:16 final size:16
Alignment explanation
Indices: 473202--473235 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
473192 TATTCATTCC
*
473202 TTCATATTTTTCTTTT
1 TTCATATTTTTATTTT
*
473218 TTCATTTTTTTATTTT
1 TTCATATTTTTATTTT
473234 TT
1 TT
473236 TTACTATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (16 bp):
TTCATATTTTTATTTT
Found at i:476934 original size:153 final size:155
Alignment explanation
Indices: 476644--476993 Score: 376
Period size: 153 Copynumber: 2.3 Consensus size: 155
476634 ATGAGAAGAC
* * ** * * **
476644 GAACCTATCCCT-AATACCCACC-CTCGACATAAAAGCAAACCCGGTGGTAACCTGGGACTTGGT
1 GAACCTAT-CCTAAATACCCACCTCTAG-CAAAAAAGCGGACCCGATGATAACCTAAGACTTGGT
* *
476707 TCTAGAAAATTATGAAAATACCCTGTGGGTATACCCTTGACATGAAAGTATCCTAGTAACCCTAA
64 TCTAGAAAATTACGAAAATACCCTGTGGGTATACCCTTAACATGAAAGTATCCTAGTAACCCTAA
* *
476772 AGAACTTAAAAAGGTAATAGCT-GGGAT
129 AGAACTTAAAAAGATAACAGCTAGGG-T
* * *
476799 GAA-CTAT-CTAAATACTCACCT-TCAGCATAAAAGTGGACCCGATGATAACCTAAGACTTGGTT
1 GAACCTATCCTAAATACCCACCTCT-AGCAAAAAAGCGGACCCGATGATAACCTAAGACTTGGTT
* * * * *
476861 CTAGAAAATTACGAAAATACCTTTTTGGTATA-TCTTCAACATGAAAGTAT-CTCAGTAA-CCTT
65 CTAGAAAATTACGAAAATACCCTGTGGGTATACCCTT-AACATGAAAGTATCCT-AGTAACCCTA
* *
476923 AAGAGACTTAAAATGATTACAGCTAGGGT
128 AAGA-ACTTAAAAAGATAACAGCTAGGGT
476952 GAACCTATCCTAAATACCCACCTCTAGCAAAAAAGCGGACCC
1 GAACCTATCCTAAATACCCACCTCTAGCAAAAAAGCGGACCC
476994 AGTAACCTTA
Statistics
Matches: 162, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
152 14 0.09
153 104 0.64
154 12 0.07
155 31 0.19
156 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (155 bp):
GAACCTATCCTAAATACCCACCTCTAGCAAAAAAGCGGACCCGATGATAACCTAAGACTTGGTTC
TAGAAAATTACGAAAATACCCTGTGGGTATACCCTTAACATGAAAGTATCCTAGTAACCCTAAAG
AACTTAAAAAGATAACAGCTAGGGT
Found at i:482685 original size:18 final size:18
Alignment explanation
Indices: 482662--482696 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
482652 ATTTTCAGAT
*
482662 AGTTTGACTAGGGTAGCC
1 AGTTTGACTAAGGTAGCC
482680 AGTTTGACTAAGGTAGC
1 AGTTTGACTAAGGTAGC
482697 GACTCGATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (18 bp):
AGTTTGACTAAGGTAGCC
Found at i:483403 original size:36 final size:37
Alignment explanation
Indices: 483363--483436 Score: 141
Period size: 36 Copynumber: 2.0 Consensus size: 37
483353 AGAAAGGTAG
483363 AATTTTGATCTATTCCCCTATTTCTATAAG-AAATTT
1 AATTTTGATCTATTCCCCTATTTCTATAAGAAAATTT
483399 AATTTTGATCTATTCCCCTATTTCTATAAGAAAATTT
1 AATTTTGATCTATTCCCCTATTTCTATAAGAAAATTT
483436 A
1 A
483437 CTCTTAGCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 30 0.81
37 7 0.19
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.46
Consensus pattern (37 bp):
AATTTTGATCTATTCCCCTATTTCTATAAGAAAATTT
Found at i:485947 original size:15 final size:13
Alignment explanation
Indices: 485915--485940 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
485905 AATTTGGTCA
485915 TGTATCGATACAT
1 TGTATCGATACAT
485928 TGTATCGATACAT
1 TGTATCGATACAT
485941 CTTGTATGTA
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:493431 original size:13 final size:13
Alignment explanation
Indices: 493413--493437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
493403 CAATTTGTGG
493413 TGTATCGATACAA
1 TGTATCGATACAA
493426 TGTATCGATACA
1 TGTATCGATACA
493438 TACTGTGTGT
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:493437 original size:33 final size:32
Alignment explanation
Indices: 493390--493457 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
493380 CGATACAAGC
*
493390 CAATGTATCAATACA-ATTTGTGGTGTATCGATA
1 CAATGTATCAATACATA-CTGT-GTGTATCGATA
*
493423 CAATGTATCGATACATACTGTGTGTATCGATA
1 CAATGTATCAATACATACTGTGTGTATCGATA
493455 CAA
1 CAA
493458 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 14 0.44
33 17 0.53
34 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (32 bp):
CAATGTATCAATACATACTGTGTGTATCGATA
Found at i:493453 original size:32 final size:33
Alignment explanation
Indices: 493390--493457 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
493380 CGATACAAGC
*
493390 CAATGTATCAATACAATTTGTGGTGTATCGATA
1 CAATGTATCAATACAATCTGTGGTGTATCGATA
*
493423 CAATGTATCGATAC-ATACTGT-GTGTATCGATA
1 CAATGTATCAATACAAT-CTGTGGTGTATCGATA
493455 CAA
1 CAA
493458 GTTTAGCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 16 0.50
33 16 0.50
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (33 bp):
CAATGTATCAATACAATCTGTGGTGTATCGATA
Found at i:496963 original size:32 final size:34
Alignment explanation
Indices: 496918--497008 Score: 109
Period size: 36 Copynumber: 2.7 Consensus size: 34
496908 CAATACTATC
496918 TTTCAA-GGCTAAGATAGAAACCTCT-C-TATC-T
1 TTTCAAGGGCTAAGATAG-AACCTCTCCTTATCTT
*
496949 TTTCACGGGCTAAGATAGAACCTTTCTCCTTATCTT
1 TTTCAAGGGCTAAGATAGAACC--TCTCCTTATCTT
*
496985 TTTCAATGGCTAAGATAGAACCTC
1 TTTCAAGGGCTAAGATAGAACCTC
497009 ATAATCGCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
31 9 0.18
32 11 0.22
33 3 0.06
34 3 0.06
35 4 0.08
36 21 0.41
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (34 bp):
TTTCAAGGGCTAAGATAGAACCTCTCCTTATCTT
Found at i:497510 original size:24 final size:24
Alignment explanation
Indices: 497475--497546 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
497465 ACACTGTATC
*
497475 GATACATAAACAGTGATGAATAGT
1 GATACATGAACAGTGATGAATAGT
*
497499 GATACATGAACAGTAATGAACT-GT
1 GATACATGAACAGTGATGAA-TAGT
* *
497523 GGTACATGAACATTGATGAATAGT
1 GATACATGAACAGTGATGAATAGT
497547 AATAAACAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (24 bp):
GATACATGAACAGTGATGAATAGT
Found at i:499562 original size:13 final size:13
Alignment explanation
Indices: 499544--499573 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
499534 GCTAAAACTC
499544 ACATTGTATCGAT
1 ACATTGTATCGAT
499557 ACATTGTATCGAT
1 ACATTGTATCGAT
499570 ACAT
1 ACAT
499574 GAAGGATTGT
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:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:499604 original size:20 final size:20
Alignment explanation
Indices: 499561--499610 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
499551 ATCGATACAT
* *
499561 TGTATCGATACATGAAGGAT
1 TGTATCGATACATGAAGAAA
**
499581 TGTATCGATACATGGTGAAA
1 TGTATCGATACATGAAGAAA
499601 TGTATCGATA
1 TGTATCGATA
499611 TATTAAGCCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAA
Found at i:505743 original size:33 final size:33
Alignment explanation
Indices: 505706--505789 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 33
505696 TTAATACTTT
* *
505706 GTTCTTAGTATCGATACATTATATCGATACTGC
1 GTTCTTTGTATCGATACATTATATCGATACTAC
*
505739 GTTCTTTGTATCGATACATTGTATCGATACTAC
1 GTTCTTTGTATCGATACATTATATCGATACTAC
* *
505772 ATTCTTTGTATTGATACA
1 GTTCTTTGTATCGATACA
505790 AGGGTACTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (33 bp):
GTTCTTTGTATCGATACATTATATCGATACTAC
Found at i:505762 original size:13 final size:13
Alignment explanation
Indices: 505744--505768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
505734 ACTGCGTTCT
505744 TTGTATCGATACA
1 TTGTATCGATACA
505757 TTGTATCGATAC
1 TTGTATCGATAC
505769 TACATTCTTT
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:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:510951 original size:13 final size:13
Alignment explanation
Indices: 510933--510958 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
510923 TACAGCAAGT
510933 ATGTATCGATACA
1 ATGTATCGATACA
510946 ATGTATCGATACA
1 ATGTATCGATACA
510959 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:512827 original size:16 final size:16
Alignment explanation
Indices: 512806--512837 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
512796 ATAAATTTTG
512806 AAAAAAGGGAGAGATA
1 AAAAAAGGGAGAGATA
512822 AAAAAAGGGAGAGATA
1 AAAAAAGGGAGAGATA
512838 TTCTTGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.06
Consensus pattern (16 bp):
AAAAAAGGGAGAGATA
Found at i:513594 original size:13 final size:13
Alignment explanation
Indices: 513576--513601 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
513566 GCATATTGCG
513576 TTGTATCGATACA
1 TTGTATCGATACA
513589 TTGTATCGATACA
1 TTGTATCGATACA
513602 CACTAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:518880 original size:164 final size:162
Alignment explanation
Indices: 518494--519006 Score: 586
Period size: 166 Copynumber: 3.1 Consensus size: 162
518484 CAATTAAACA
* * * * * *
518494 CTTAAACTTTTGAAAATTTTATTTCGTACCCAATAAAAAATTAAAAAGATACGAAAAGTCTTGAA
1 CTTAAACTTTTAAAAATTTTATTTCATACCCAATGAAAAATCAAGAGGATACGAAAAGTCTTGAA
* * * *
518559 ATTTTCTAGACCTCTATA-GAAGGCCATAAGAATAATAGAAATCTTTAAAAATGACTAAAATGAT
66 AATTTCTATACC-CT-TAGGAAGG--ATCAGGATAATAGAAATCTTTAAAAATGACTAAAATGAT
* * * *
518623 TATTTTA-C-CTACAAAA-AATATTTTCTACTTAATT
127 GATTTTACCTCTA-AAAACAAAATTTGCTATTTAATT
* * * *
518657 CTTAAACTTTTAAAAATTTTATTTCATACCCAATGGAAAACCAAGGGGATATGAAAAGTCTTGAA
1 CTTAAACTTTTAAAAATTTTATTTCATACCCAATGAAAAATCAAGAGGATACGAAAAGTCTTGAA
* *
518722 AATTTCTATACCCTTAGGAAGGTTGCAGGATAATAAAAATCTTTAAAAATGACTAAAATGATGAT
66 AATTTCTATACCCTTAGGAAGGAT-CAGGATAATAGAAATCTTTAAAAATGACTAAAATGATGAT
* *
518787 CTTACCTCTAAAAACTAAAATTTGCTATTTAATC
130 TTTACCTCTAAAAAC-AAAATTTGCTATTTAATT
* * * * * * * *
518821 CCTAAACTTTTGAAAATTTCATTTCATATCCTACGAAAAATCAAGAGGATACAAAAAGTCTTAAA
1 CTTAAACTTTTAAAAATTTTATTTCATACCCAATGAAAAATCAAGAGGATACGAAAAGTCTTGAA
* * *
518886 AATTTTTATACTCC-TATGGAAGGCTCTAGGAATAATAGAAATCTATAAAAATGACTAAAATGAT
66 AATTTCTATAC-CCTTA-GGAAGGATC-AGG-ATAATAGAAATCTTTAAAAATGACTAAAATGAT
518950 GATTTTACCTCTAAAAACAAAAATTTGCTATTTAATT
127 GATTTTACCTCTAAAAAC-AAAATTTGCTATTTAATT
518987 CTTAAACTTTTAAAAATTTT
1 CTTAAACTTTTAAAAATTTT
519007 CACTTTAGTC
Statistics
Matches: 296, Mismatches: 44, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
160 1 0.00
161 41 0.14
162 12 0.04
163 68 0.23
164 80 0.27
165 12 0.04
166 82 0.28
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (162 bp):
CTTAAACTTTTAAAAATTTTATTTCATACCCAATGAAAAATCAAGAGGATACGAAAAGTCTTGAA
AATTTCTATACCCTTAGGAAGGATCAGGATAATAGAAATCTTTAAAAATGACTAAAATGATGATT
TTACCTCTAAAAACAAAATTTGCTATTTAATT
Found at i:519652 original size:15 final size:16
Alignment explanation
Indices: 519616--519649 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
519606 TAATAAATAC
519616 AAATTATCAAAATGAA
1 AAATTATCAAAATGAA
519632 AAATTATCAAAATGAA
1 AAATTATCAAAATGAA
519648 AA
1 AA
519650 TTAACACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (16 bp):
AAATTATCAAAATGAA
Found at i:521092 original size:19 final size:20
Alignment explanation
Indices: 521042--521095 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
521032 TGCCAATCTC
**
521042 ATGTATCGATACAATTGTCT
1 ATGTATCGATACAATTAACT
*
521062 ATGTATCTATACAATTAAC-
1 ATGTATCGATACAATTAACT
*
521081 ATTTATCGATACAAT
1 ATGTATCGATACAAT
521096 GTATCAATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACAATTAACT
Found at i:521989 original size:13 final size:13
Alignment explanation
Indices: 521973--521999 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
521963 TTTAAGTTTT
521973 CATTTTTCTCCCC
1 CATTTTTCTCCCC
521986 CATTTTTCTCCCC
1 CATTTTTCTCCCC
521999 C
1 C
522000 TTAATCAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.48, G:0.00, T:0.44
Consensus pattern (13 bp):
CATTTTTCTCCCC
Found at i:522028 original size:33 final size:33
Alignment explanation
Indices: 521991--522058 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
521981 TCCCCCATTT
521991 TTCTCCCCCTTAATCAAAGAATTTCTAAAAAAA
1 TTCTCCCCCTTAATCAAAGAATTTCTAAAAAAA
* * **
522024 TTCTCCCCTTTAATCAAAGCATTTCTCTAAAAA
1 TTCTCCCCCTTAATCAAAGAATTTCTAAAAAAA
522057 TT
1 TT
522059 TATTTATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (33 bp):
TTCTCCCCCTTAATCAAAGAATTTCTAAAAAAA
Found at i:523931 original size:13 final size:13
Alignment explanation
Indices: 523910--523951 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
523900 AAATAGTACC
523910 CAATGTATCGATA
1 CAATGTATCGATA
523923 -AAGTGTATCGATA
1 CAA-TGTATCGATA
*
523936 CAATGTATTGATA
1 CAATGTATCGATA
523949 CAA
1 CAA
523952 GGAATATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 2 0.08
13 22 0.85
14 2 0.08
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:530643 original size:21 final size:21
Alignment explanation
Indices: 530610--530654 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
530600 TTGCAAGTTG
*
530610 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
530632 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
530652 AAA
1 AAA
530655 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:532478 original size:15 final size:15
Alignment explanation
Indices: 532458--532488 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
532448 TAAAAATGTC
*
532458 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
532473 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
532488 C
1 C
532489 CAAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:534585 original size:13 final size:13
Alignment explanation
Indices: 534567--534592 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
534557 ACATTTTTCT
534567 TTGTATCGATACA
1 TTGTATCGATACA
534580 TTGTATCGATACA
1 TTGTATCGATACA
534593 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:534756 original size:20 final size:20
Alignment explanation
Indices: 534713--534758 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
534703 AAATCTTTTG
534713 CAAAATACTTGTTTTTCAGTT
1 CAAAATACTTGTTTTTCAG-T
*
534734 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCAGT
534754 CAAAA
1 CAAAA
534759 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCAGT
Found at i:540055 original size:13 final size:13
Alignment explanation
Indices: 540039--540068 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
540029 CAATTCATCG
540039 TGTATCGATACAA
1 TGTATCGATACAA
*
540052 TGTATCGATACAT
1 TGTATCGATACAA
540065 TGTA
1 TGTA
540069 CCATGTATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:540076 original size:33 final size:33
Alignment explanation
Indices: 540016--540084 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
540006 CCGTTACAAG
* *
540016 CAATGTATCGATACAATTCATCGTGTATCGATA
1 CAATGTATCGATACAATTCACCATGTATCGATA
*
540049 CAATGTATCGATAC-ATTGTACCATGTATCGATA
1 CAATGTATCGATACAATT-CACCATGTATCGATA
540082 CAA
1 CAA
540085 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (33 bp):
CAATGTATCGATACAATTCACCATGTATCGATA
Found at i:540157 original size:19 final size:20
Alignment explanation
Indices: 540113--540167 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
540103 GTACCAATCT
**
540113 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
540133 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGAA
*
540152 CATGTATCAATACAAT
1 CATGTATCGATACAAT
540168 GTATCGATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:541483 original size:15 final size:17
Alignment explanation
Indices: 541465--541496 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
541455 TGTTCATCAA
541465 CTTC-TTTTGGA-GCTT
1 CTTCATTTTGGATGCTT
541480 CTTCATTTTGGATGCTT
1 CTTCATTTTGGATGCTT
541497 TCATCTTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 7 0.47
17 4 0.27
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (17 bp):
CTTCATTTTGGATGCTT
Found at i:543932 original size:9 final size:9
Alignment explanation
Indices: 543918--543951 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
543908 TCCGAGTCAC
543918 CATCATTAT
1 CATCATTAT
543927 CATCATTAT
1 CATCATTAT
543936 CATCATTAT
1 CATCATTAT
543945 CATCATT
1 CATCATT
543952 GATGGTTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (9 bp):
CATCATTAT
Done.