Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008558.1 Hibiscus syriacus cultivar Beakdansim tig00111463_pilon, whole genome shotgun sequence
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: 2950132
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 14
Found at i:626643 original size:21 final size:22
Alignment explanation
Indices: 626600--626645 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
626590 AAATAAAAAT
*
626600 AAATCAAAGAAAAAAAGAGATA
1 AAATAAAAGAAAAAAAGAGATA
* *
626622 AAATAAAAGGAAAAAATA-ATA
1 AAATAAAAGAAAAAAAGAGATA
626643 AAA
1 AAA
626646 AATATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (22 bp):
AAATAAAAGAAAAAAAGAGATA
Found at i:626646 original size:22 final size:22
Alignment explanation
Indices: 626590--626646 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
626580 ACAAATAAAT
* *
626590 AAATAAAAATAAATCAAAGAAAA
1 AAATAATAA-AAATAAAAGAAAA
* *
626613 AAAGAGAT-AAAATAAAAGGAAA
1 AAATA-ATAAAAATAAAAGAAAA
626635 AAATAATAAAAA
1 AAATAATAAAAA
626647 ATATTAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
21 2 0.07
22 19 0.70
23 5 0.19
24 1 0.04
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (22 bp):
AAATAATAAAAATAAAAGAAAA
Found at i:631290 original size:23 final size:24
Alignment explanation
Indices: 631246--631291 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
631236 ATAAATAAAT
*
631246 ATTATTATATTAAATTATATTTTA
1 ATTATTATATTAAATTAGATTTTA
*
631270 ATTATTA-ATTAAATTGGATTTT
1 ATTATTATATTAAATTAGATTTT
631292 TAAATCATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTATTATATTAAATTAGATTTTA
Found at i:632274 original size:2 final size:2
Alignment explanation
Indices: 632267--632305 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
632257 ATTTTCCTAT
632267 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
632306 TATTTATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:632539 original size:14 final size:13
Alignment explanation
Indices: 632522--632551 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
632512 TATATATATA
632522 TATATTATTTTATT
1 TATATTA-TTTATT
632536 TATATTATTTATT
1 TATATTATTTATT
632549 TAT
1 TAT
632552 TTTTATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATATTATTTATT
Found at i:632539 original size:22 final size:22
Alignment explanation
Indices: 632512--632563 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
632502 TTTATATTCA
632512 TATATATATATATATTA-TTTTATT
1 TATAT-TATATAT-TTATTTTTA-T
*
632536 TATATTATTTATTTATTTTTAT
1 TATATTATATATTTATTTTTAT
632558 TATATT
1 TATATT
632564 TTTAGTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 10 0.38
23 11 0.42
24 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TATATTATATATTTATTTTTAT
Found at i:632567 original size:17 final size:16
Alignment explanation
Indices: 632518--632567 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
632508 TTCATATATA
632518 TATATATATTATTTTATT
1 TATAT-TATT-TTTTATT
632536 TATATTATTTATTTATT
1 TATATTATTT-TTTATT
*
632553 TTTATTATATTTTTA
1 TATATTAT-TTTTTA
632568 GTTTCTTTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 1 0.03
17 21 0.72
18 7 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TATATTATTTTTTATT
Found at i:632693 original size:22 final size:24
Alignment explanation
Indices: 632648--632694 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
632638 ATATTTTATC
* *
632648 TTCATTTATTTTATTTTATTCAAT
1 TTCATTTATTTTATTTCATCCAAT
632672 TTCATTT-TTTT-TTTCATCCAAT
1 TTCATTTATTTTATTTCATCCAAT
632694 T
1 T
632695 ATTTTATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 10 0.48
23 4 0.19
24 7 0.33
ACGTcount: A:0.21, C:0.13, G:0.00, T:0.66
Consensus pattern (24 bp):
TTCATTTATTTTATTTCATCCAAT
Found at i:635803 original size:13 final size:14
Alignment explanation
Indices: 635785--635832 Score: 64
Period size: 13 Copynumber: 3.5 Consensus size: 14
635775 AAGAAGCAAA
635785 AAAAGAA-AAAAAC
1 AAAAGAACAAAAAC
635798 AAAAGAACAAAAA-
1 AAAAGAACAAAAAC
*
635811 GAAAGAACAAAAATC
1 AAAAGAACAAAAA-C
635826 AAAAGAA
1 AAAAGAA
635833 AAAGGGACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 19 0.63
14 5 0.17
15 6 0.20
ACGTcount: A:0.79, C:0.08, G:0.10, T:0.02
Consensus pattern (14 bp):
AAAAGAACAAAAAC
Found at i:635809 original size:15 final size:15
Alignment explanation
Indices: 635791--635832 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
635781 CAAAAAAAGA
635791 AAAAAACAAAAGAAC
1 AAAAAACAAAAGAAC
*
635806 -AAAAA-GAAAGAAC
1 AAAAAACAAAAGAAC
*
635819 AAAAATCAAAAGAA
1 AAAAAACAAAAGAA
635833 AAAGGGACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.32
14 9 0.41
15 6 0.27
ACGTcount: A:0.79, C:0.10, G:0.10, T:0.02
Consensus pattern (15 bp):
AAAAAACAAAAGAAC
Found at i:635834 original size:25 final size:24
Alignment explanation
Indices: 635767--635836 Score: 61
Period size: 26 Copynumber: 2.7 Consensus size: 24
635757 GGAAAAGAGT
* *
635767 AAAATGAAAAGAAGCAAAAAAAGAAA
1 AAAATCAAAAGAA--AAAGAAAGAAA
635793 AAAA-CAAAAGAACAAAAAGAAAGAACA
1 AAAATCAAAAG---AAAAAGAAAGAA-A
635820 AAAATCAAAAGAAAAAG
1 AAAATCAAAAGAAAAAG
635837 GGACAAAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
25 11 0.30
26 13 0.35
27 5 0.14
28 8 0.22
ACGTcount: A:0.77, C:0.07, G:0.13, T:0.03
Consensus pattern (24 bp):
AAAATCAAAAGAAAAAGAAAGAAA
Found at i:635836 original size:21 final size:22
Alignment explanation
Indices: 635785--635836 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
635775 AAGAAGCAAA
635785 AAAAGAAAAA-AACAAAAGAAC
1 AAAAGAAAAAGAACAAAAGAAC
* *
635806 AAAA-AGAAAGAACAAAA-ATC
1 AAAAGAAAAAGAACAAAAGAAC
635826 AAAAGAAAAAG
1 AAAAGAAAAAG
635837 GGACAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.79, C:0.08, G:0.12, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAAGAACAAAAGAAC
Found at i:636493 original size:22 final size:22
Alignment explanation
Indices: 636465--636519 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
636455 TCTACCCCAT
* *
636465 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAACATCAAAAGC
636487 CAAACCTTTGAACATCAAAAGC
1 CAAACCTTTGAACATCAAAAGC
636509 CAAACCTTTGA
1 CAAACCTTTGA
636520 CCAAACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (22 bp):
CAAACCTTTGAACATCAAAAGC
Found at i:637392 original size:106 final size:106
Alignment explanation
Indices: 637206--638571 Score: 1946
Period size: 106 Copynumber: 12.9 Consensus size: 106
637196 GAGAGTGGAT
* * *
637206 TTCAACTTCA-AGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAAAGCCAATT
1 TTCAACTTCACA-ACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATT
*
637270 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
65 TCAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAG
* *
637312 TTCAACTTCACAACGAAGGGAGGGCTGGTTGTCAACAAAAAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* *
637377 CAACTTCACATCGAAGGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAG
** * * *
637418 TTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
*
637483 CAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
66 CAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAG
*
637524 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* * * *
637589 AAACTTCACATCGAAGGATATTGGACTCCAGACAACGCATG
66 CAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAG
** * *
637630 TTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
*
637695 CAACTTCACAGCGAAGGATATAT-GACTCGAGACAACACAAG
66 CAACTTCACATCGAAGGATAT-TGGACTCGAGACAACACAAG
* * ** * *
637736 TTCAACCTCACAACGAAGGAACTACTGGTTGTCAACAAATAATTTCCCAATTTCAGAACCAATTT
1 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* *
637801 CAACTTCACATCGAAGGATATTGGACTCTAGACAACGCAAG
66 CAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAG
** * *
637842 TTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* *
637907 TAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAG
66 CAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAG
* *
637948 TTCAACTTCACAACAAAGGGATGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* * * **
638013 CAACTTCACGTCGAAGGATATTGGACTCCAGAAAATGCAAG
66 CAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAG
* * * * *
638054 TTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACCACTTCCTAATTTCAGAGCCAATTC
1 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* *
638119 CAACTTCACAGT-AAAGGATATTGGACTCGAGATAACACAAG
66 CAACTTCACA-TCGAAGGATATTGGACTCGAGACAACACAAG
* * * *
638160 TTCAACTTCACAATGGAGGGACGACTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* * * **
638225 TAACTTCACATCAAAGGATATTGGACTCCAGACAATGCAAG
66 CAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAG
** * *
638266 TTCAACTTCATGACGAAGGGACTGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* *
638331 CAACTTCATATCGAAGGATATTGGACTCAAGACAACACAAG
66 CAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAG
* * *
638372 TTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAACTTCCTAATTTCAGAGCCAATTT
1 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
* *
638437 CAACTTCACAGCGAAGGATATTGGACTCGAAACAACACAAG
66 CAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAG
* * * * * * *
638478 TTAAACTTCACAATGAAGGGACGGCTGGTTGCCAACAAACAAATTCCCAGTTCCAGAACCAATTT
1 TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
** *
638543 CAACTTCACGGCGGAGGATATTGGACTCG
66 CAACTTCACATCGAAGGATATTGGACTCG
638572 GAACAGTACA
Statistics
Matches: 1120, Mismatches: 135, Indels: 10
0.89 0.11 0.01
Matches are distributed among these distances:
105 2 0.00
106 1115 1.00
107 3 0.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
TTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTT
CAACTTCACATCGAAGGATATTGGACTCGAGACAACACAAG
Found at i:638894 original size:83 final size:83
Alignment explanation
Indices: 638750--639046 Score: 373
Period size: 83 Copynumber: 3.6 Consensus size: 83
638740 TCCAACTCAA
* * *
638750 AGAAGGAG-TATCTGTCAACAAAGACCTTTGAGTTCGATTACACTCAGCTCCAAGGCGCATCATT
1 AGAAGG-GTTATCTGTCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
* *
638814 TATAACATAGCTCAAGGCT
65 TGTAACATAACTCAAGGCT
*
638833 AGAAGGGTTATCTGTCAGCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTT
1 AGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTT
638898 GTAACATAACTCAAGG-T
66 GTAACATAACTCAAGGCT
* * * * * * * *
638915 AAGAAGGGCTATTTGCCAACAAAAGACCTTTGAGTTCGACTACGCTTAACTCCAAGGCATATCAT
1 -AGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCAT
* *
638980 TTGCAGCATAACTCAAGGCT
64 TTGTAACATAACTCAAGGCT
* * * *
639000 AGAAGGGTGATCTGTCATCAAAGACCTTCGAGTTCGATTACATTCAG
1 AGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACACTCAG
639047 GCAAATCAAA
Statistics
Matches: 182, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
82 2 0.01
83 110 0.60
84 69 0.38
85 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (83 bp):
AGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTT
GTAACATAACTCAAGGCT
Found at i:639082 original size:78 final size:77
Alignment explanation
Indices: 638978--639123 Score: 204
Period size: 78 Copynumber: 1.9 Consensus size: 77
638968 AAGGCATATC
* * * *
638978 ATTTGCAGCATAACTCAAGGCTAGAAGGGTGATCTGTCATCAAAGACCT-TCGAGTTCGATTACA
1 ATTTACAGCATAACTCAAGACGAGAAGGGTGATCTGCCATCAAA-A-CTGTCGAGTTCGATTACA
639042 TTCAGGCAAATCAA
64 TTCAGGCAAATCAA
* * *
639056 ATTTACAGCATAACTCAAGACGAGAAGGGTTATCTGCCATCAAAATTGTCGAGTTCGATTCCATT
1 ATTTACAGCATAACTCAAGACGAGAAGGGTGATCTGCCATCAAAACTGTCGAGTTCGATTACATT
639121 CAG
66 CAG
639124 CTCGATGACA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
76 1 0.02
77 20 0.33
78 39 0.65
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (77 bp):
ATTTACAGCATAACTCAAGACGAGAAGGGTGATCTGCCATCAAAACTGTCGAGTTCGATTACATT
CAGGCAAATCAA
Found at i:639625 original size:34 final size:36
Alignment explanation
Indices: 639562--639659 Score: 110
Period size: 34 Copynumber: 2.8 Consensus size: 36
639552 TTCGTCCTAC
* **
639562 TAGGATTCAAACTTCTAAAAATATAATAGAATT-T-
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTA
*
639596 TAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTA
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTA
* * *
639632 CTATGATTCAAACTCCCAAAGATAGGAT
1 -TAGGATTCAAACTCCTAAAAATAGGAT
639660 CCACAAGCAT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.54
35 1 0.02
37 24 0.44
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (36 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTCTA
Found at i:640391 original size:19 final size:17
Alignment explanation
Indices: 640352--640408 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 17
640342 ATATTATATG
640352 TATATTTA-T-TTTTCAT
1 TATATTTAGTATTTT-AT
*
640368 T-TATTTATTATTGTTAT
1 TATATTTAGTATT-TTAT
640385 TACTATTTAGTATTTTAT
1 TA-TATTTAGTATTTTAT
640403 TATATT
1 TATATT
640409 ATACATACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
15 6 0.17
16 2 0.06
17 9 0.26
18 8 0.23
19 10 0.29
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (17 bp):
TATATTTAGTATTTTAT
Found at i:640392 original size:30 final size:31
Alignment explanation
Indices: 640324--640392 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 31
640314 TATTTCAATG
*
640324 ATTACTATTTTTTAGTTAATATTATATGTAT
1 ATTACTATTTTTCAGTTAATATTATATGTAT
* *
640355 ATT--TATTTTTCATTTATTTATTAT-TGT-T
1 ATTACTATTTTTCAGTTA-ATATTATATGTAT
640383 ATTACTATTT
1 ATTACTATTT
640393 AGTATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
28 4 0.12
29 14 0.44
30 11 0.34
31 3 0.09
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (31 bp):
ATTACTATTTTTCAGTTAATATTATATGTAT
Found at i:645986 original size:32 final size:34
Alignment explanation
Indices: 645945--646014 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
645935 ACCTTACAAC
*
645945 TCCCTAGTTTTT-C-CAGGCTAAACTAGAACCTT
1 TCCCTAGTTTTTACACAGGATAAACTAGAACCTT
* *
645977 TCCCTAGTTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAGTTTTTACACAGGATAAACTAGAACCTT
646011 TCCC
1 TCCC
646015 CTTTACGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 12 0.36
33 1 0.03
34 20 0.61
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (34 bp):
TCCCTAGTTTTTACACAGGATAAACTAGAACCTT
Found at i:654496 original size:55 final size:55
Alignment explanation
Indices: 654436--654847 Score: 567
Period size: 55 Copynumber: 7.5 Consensus size: 55
654426 CAATACGTAT
* * * * *
654436 ATTCATGAATTTATTATTAATTTCTTAGTTTTGTACACAAAGTACCCATACGGAA
1 ATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAA
* * *
654491 ATTCATAAACTTATTATGAATTTATTAGTTTTGCACACACAGTGCCCATACGAAA
1 ATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAA
* * * * *
654546 ATTCATAAATTTATTATGAAATTCTTAGTTTTGCACACACAGTGCCCGTACGGGA
1 ATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAA
*
654601 ATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAA-TGCCCATATGGAA
1 ATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACA-AAGTGCCCATACGGAA
* * *
654656 ATTCATAAACTTATTATGAATTTCTTAGTTTTGCAGACATAGTGCCTATACGGAA
1 ATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAA
* * * *
654711 ATTCATAAACTTATTATGAATGTCTTAGTTTTGCACACACAGTTCCCATACGAAA
1 ATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAA
* * **
654766 ATTTATAAACTTATTATGAATTTCTTAGTTTTGCACACACAA-CGCCCATACAAAA
1 ATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACA-AAGTGCCCATACGGAA
654821 ATTCATAAACTTATTATGAATTTCTTA
1 ATTCATAAACTTATTATGAATTTCTTA
654848 ATTTGTATGC
Statistics
Matches: 317, Mismatches: 37, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
54 1 0.00
55 314 0.99
56 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (55 bp):
ATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAA
Found at i:655346 original size:94 final size:95
Alignment explanation
Indices: 655209--655384 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 95
655199 ACCATGGTAT
* * * * *
655209 CGATACTTCTATATTGTGGTACTGATACTCCCTTTTGGTATCGATGCCATTTCT-ACATTATGG-
1 CGATACTTCTATACTATGGTACCGATACTCCCTTTTAGTATCGATACCATTT-TGACATTATGGA
655272 ATCCACGGTATCGATACTCTTATCCTAGTAC
65 ATCCACGGTATCGATACTCTTATCCTAGTAC
* * * *
655303 CGATAGTTCTATACTATGGTACCGATACTCTCTTTTAGTATCGATACCATTTTGGCATTCTGGAA
1 CGATACTTCTATACTATGGTACCGATACTCCCTTTTAGTATCGATACCATTTTGACATTATGGAA
*
655368 TCCATGGTATCGATACT
66 TCCACGGTATCGATACT
655385 TTCCTTTTAG
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
93 1 0.01
94 52 0.74
95 17 0.24
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (95 bp):
CGATACTTCTATACTATGGTACCGATACTCCCTTTTAGTATCGATACCATTTTGACATTATGGAA
TCCACGGTATCGATACTCTTATCCTAGTAC
Found at i:661010 original size:20 final size:20
Alignment explanation
Indices: 660981--661022 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
660971 ATTCCACCAC
*
660981 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
661001 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
661021 AT
1 AT
661023 AGGCTCTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:672064 original size:7 final size:7
Alignment explanation
Indices: 672052--672077 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
672042 ATTTTTTTAG
672052 GAATAGT
1 GAATAGT
672059 GAATAGT
1 GAATAGT
672066 GAATAGT
1 GAATAGT
672073 GAATA
1 GAATA
672078 TTGAGGGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (7 bp):
GAATAGT
Found at i:683622 original size:55 final size:55
Alignment explanation
Indices: 683560--683997 Score: 599
Period size: 55 Copynumber: 7.9 Consensus size: 55
683550 TTTACGTGGG
* * *
683560 TTGCACACCCACT-CCCAATACGGAAATTCATAAACTTATTATTAATTTCTTAGTT
1 TTGCACACACAGTGCCC-ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
* * ** * * *
683615 TTTCACACAAAGTGCCCATACATAAGTTCATAAACTTATTATGAATTTATTATTT
1 TTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
* * *
683670 TTGCACACACAGTGCCCACATGAAAATTCATAAACTTATTATGAATTTCTTAGTT
1 TTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
* * *
683725 TTTCACACAAAGTTCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
1 TTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
* * * * *
683780 TTGAACACACAATGCCCATATGGAAATTCATAAAATTTATTATGAATTTCTTAGCT
1 TTGCACACACAGTGCCCATACGGAAATTCAT-AAACTTATTATGAATTTCTTAGTT
*
683836 TTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATATCTTAGTT
1 TTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
* * *
683891 TTGCACACACAGTTCCCATATGGAAATTGATAAACTTATTATGAATTTCTTAGTT
1 TTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
* **
683946 TTGCACACACAATGCCCATACATAAATTCATAAACTTATTATGAATTTCTTA
1 TTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTA
683998 ATTTGCATGC
Statistics
Matches: 332, Mismatches: 49, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
55 279 0.84
56 53 0.16
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (55 bp):
TTGCACACACAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGTT
Found at i:683978 original size:221 final size:220
Alignment explanation
Indices: 683581--683997 Score: 638
Period size: 221 Copynumber: 1.9 Consensus size: 220
683571 CTCCCAATAC
* * * * *
683581 GGAAATTCATAAACTTATTATTAATTTCTTAGTTTTTCACACAAAGTGCCCATACATAAGTTCAT
1 GGAAATTCATAAACTTATTATGAATTTCTTAGCTTTGCACACAAAGTGCCCATACAGAAATTCAT
* *
683646 AAACTTATTATGAATTTATTATTTTTGCACACACAGTGCCCACATGAAAATTCATAAACTTATTA
66 AAACTTATTATGAATATATTAGTTTTGCACACACAGTGCCCACATGAAAATTCATAAACTTATTA
* * *
683711 TGAATTTCTTAGTTTTTCACACAAAGTTCCCATACGGAAATTCATAAACTTATTATGAATTTCTT
131 TGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTT
683776 AGTTTTGAACACACAATGCCCATAT
196 AGTTTTGAACACACAATGCCCATAT
* * *
683801 GGAAATTCATAAAATTTATTATGAATTTCTTAGCTTTGCACACACAGTGCCCATACGGAAATTCA
1 GGAAATTCAT-AAACTTATTATGAATTTCTTAGCTTTGCACACAAAGTGCCCATACAGAAATTCA
* * * * *
683866 TAAACTTATTATGAATATCTTAGTTTTGCACACACAGTTCCCATATGGAAATTGATAAACTTATT
65 TAAACTTATTATGAATATATTAGTTTTGCACACACAGTGCCCACATGAAAATTCATAAACTTATT
*
683931 ATGAATTTCTTAGTTTTGCACACACAA-TGCCCATACATAAATTCATAAACTTATTATGAATTTC
130 ATGAATTTCTTAGTTTTGCACACA-AAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTC
683995 TTA
194 TTA
683998 ATTTGCATGC
Statistics
Matches: 176, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
220 10 0.06
221 164 0.93
222 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (220 bp):
GGAAATTCATAAACTTATTATGAATTTCTTAGCTTTGCACACAAAGTGCCCATACAGAAATTCAT
AAACTTATTATGAATATATTAGTTTTGCACACACAGTGCCCACATGAAAATTCATAAACTTATTA
TGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAATTCATAAACTTATTATGAATTTCTT
AGTTTTGAACACACAATGCCCATAT
Found at i:690078 original size:55 final size:55
Alignment explanation
Indices: 690036--690353 Score: 430
Period size: 55 Copynumber: 5.8 Consensus size: 55
690026 CCAACTACCA
* * * *
690036 ATACAGAAATTCGTAAACTTATTACGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACCAAGTGCCC
690091 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACA-CACAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACCA-AGTGCCC
* *
690146 ATATGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAA-TTCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACAC-CAAGTGCCC
* *
690201 ATACGGAAATTCATAAACTTATTATGAATTTCTTAATTTTGCA-AACACAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACCA-AGTGCCC
* * * * *
690256 ATACGAAAATTAATAAACTTATGATGAATTTCTTAGATTTGCACATGC-AGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACA-CCAAGTGCCC
* *
690311 ATACGAAAATTCATAAACTTATTATGAATTTCTTA-ATTTGCAC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCAC
690354 GTATAATGTC
Statistics
Matches: 238, Mismatches: 18, Indels: 15
0.88 0.07 0.06
Matches are distributed among these distances:
53 2 0.01
54 11 0.05
55 220 0.92
56 2 0.01
57 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (55 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACCAAGTGCCC
Found at i:690232 original size:165 final size:164
Alignment explanation
Indices: 690036--690353 Score: 492
Period size: 165 Copynumber: 1.9 Consensus size: 164
690026 CCAACTACCA
* * * *
690036 ATACAGAAATTCGTAAACTTATTACGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
1 ATACAGAAATTCATAAACTTATTACGAATTTCTTAATTTTGCAAACAAAGTGCCCATACGAAAAT
* * * * *
690101 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACACAGTGCCCATATGGAAATTCATAAACTT
66 TAATAAACTTATGATGAATTTCTTAGATTTGCACACACAGTGCCCATACGAAAATTCATAAACTT
*
690166 ATTATGAATTTCTTAGTTTTGCACACACAATTCCC
131 ATTATGAATTTCTTA-ATTTGCACACACAATTCCC
* * *
690201 ATACGGAAATTCATAAACTTATTATGAATTTCTTAATTTTGCAAACACAGTGCCCATACGAAAAT
1 ATACAGAAATTCATAAACTTATTACGAATTTCTTAATTTTGCAAACAAAGTGCCCATACGAAAAT
**
690266 TAATAAACTTATGATGAATTTCTTAGATTTGCACATGCAGTGCCCATACGAAAATTCATAAACTT
66 TAATAAACTTATGATGAATTTCTTAGATTTGCACACACAGTGCCCATACGAAAATTCATAAACTT
690331 ATTATGAATTTCTTAATTTGCAC
131 ATTATGAATTTCTTAATTTGCAC
690354 GTATAATGTC
Statistics
Matches: 138, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
164 7 0.05
165 131 0.95
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (164 bp):
ATACAGAAATTCATAAACTTATTACGAATTTCTTAATTTTGCAAACAAAGTGCCCATACGAAAAT
TAATAAACTTATGATGAATTTCTTAGATTTGCACACACAGTGCCCATACGAAAATTCATAAACTT
ATTATGAATTTCTTAATTTGCACACACAATTCCC
Found at i:690808 original size:20 final size:22
Alignment explanation
Indices: 690783--690832 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
690773 TCCACTGTAT
*
690783 CGATACTCT-TATCCTA-GTAC
1 CGATACTCTCTATACTAGGTAC
690803 CGATACT-TCTATACTATGGTAC
1 CGATACTCTCTATACTA-GGTAC
690825 CGATACTC
1 CGATACTC
690833 CCTTTCAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 13 0.52
22 11 0.44
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (22 bp):
CGATACTCTCTATACTAGGTAC
Found at i:690854 original size:94 final size:95
Alignment explanation
Indices: 690709--690884 Score: 234
Period size: 94 Copynumber: 1.9 Consensus size: 95
690699 ACCATGTTAT
* * *
690709 CGATACTTCTATATCGTGGTACCGATACTCCCTTTAGGTATCGATATCATTTCTACATTTTGG-A
1 CGATACTTCTATATCATGGTACCGATACTCCCTTTAGGTATCGATACCATTTCTACATTCTGGAA
690773 TCCACT-GTATCGATACTCTTATCCTAGTAC
66 TCCA-TGGTATCGATACTCTTATCCTAGTAC
** * *
690803 CGATACTTCTATA-CTATGGTACCGATACTCCCTTTCA-GTATTTATACCATTTTTGCATTCTGG
1 CGATACTTCTATATC-ATGGTACCGATACTCCCTTT-AGGTATCGATACCATTTCTACATTCTGG
690866 AATCCATGGTATCGATACT
64 AATCCATGGTATCGATACT
690885 TTCCTTTTAG
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
93 1 0.01
94 53 0.75
95 17 0.24
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (95 bp):
CGATACTTCTATATCATGGTACCGATACTCCCTTTAGGTATCGATACCATTTCTACATTCTGGAA
TCCATGGTATCGATACTCTTATCCTAGTAC
Found at i:701283 original size:41 final size:40
Alignment explanation
Indices: 701237--701516 Score: 206
Period size: 41 Copynumber: 6.8 Consensus size: 40
701227 GACATTTCTC
* *
701237 AACAAACGCCGCTAAAACTTATACTTTAGTGGCGTTTATTT
1 AACAAACGCCGCTAAAACTCATACTTTAGTGGCGTTT-TTA
* * *
701278 GACAAACGCTGCTAAAGA-TCAGTACTTTAGTGGCGTTTGTA
1 AACAAACGCCGCTAAA-ACTCA-TACTTTAGTGGCGTTTTTA
** * * *
701319 AACAAACGATGCCATATAA-TCATTCTTTAGTGGTGTTTTTA
1 AACAAACGCCG-C-TAAAACTCATACTTTAGTGGCGTTTTTA
* *
701360 AACAAACGCCGCTAAAAC-CTAGTACTTTAGTGGCATTTTTC
1 AACAAACGCCGCTAAAACTC-A-TACTTTAGTGGCGTTTTTA
* * **
701401 AATAAACGCCGCTAAATACTCATACTATAGTGGCGTTTCAA
1 AACAAACGCCGCTAAA-ACTCATACTTTAGTGGCGTTTTTA
* ** * * **
701442 GCAAAAAACATCGCTAAATACTCGTACTTTAGTGGCATTTTCC
1 --AACAAACGCCGCTAAA-ACTCATACTTTAGTGGCGTTTTTA
* *
701485 AACAAACACCGCTAAATACTCATACTATAGTG
1 AACAAACGCCGCTAAA-ACTCATACTTTAGTG
701517 ACTTTTTTTG
Statistics
Matches: 191, Mismatches: 37, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
39 5 0.03
40 2 0.01
41 123 0.64
42 25 0.13
43 36 0.19
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (40 bp):
AACAAACGCCGCTAAAACTCATACTTTAGTGGCGTTTTTA
Found at i:701432 original size:82 final size:82
Alignment explanation
Indices: 701229--701516 Score: 267
Period size: 82 Copynumber: 3.5 Consensus size: 82
701219 ACATTAACGA
* * * ** *
701229 CATTTCTCAACAAACGCCGCTAAA-ACTTATACTTTAGTGGCGTTTATTTGACAAACGCTGCTAA
1 CATTTTTCAACAAACGCCGCTAAATACTCATACTATAGTGGCGTTT-TTAAACAAACGCCGCTAA
701293 AGA-TCAGTACTTTAGTGG
65 AGACT-AGTACTTTAGTGG
* * * ** * * * * * *
701311 CGTTTGTAAACAAACGATGCCATATAATCATTCTTTAGTGGTGTTTTTAAACAAACGCCGCTAAA
1 CATTTTTCAACAAACGCCGCTAAATACTCATACTATAGTGGCGTTTTTAAACAAACGCCGCTAAA
701376 -ACCTAGTACTTTAGTGG
66 GA-CTAGTACTTTAGTGG
* ** * **
701393 CATTTTTCAATAAACGCCGCTAAATACTCATACTATAGTGGCGTTTCAAGCAAAAAACATCGCTA
1 CATTTTTCAACAAACGCCGCTAAATACTCATACTATAGTGGCGTTTTTA--AACAAACGCCGCTA
* *
701458 AATACTCGTACTTTAGTGG
64 AAGACTAGTACTTTAGTGG
* *
701477 CATTTTCCAACAAACACCGCTAAATACTCATACTATAGTG
1 CATTTTTCAACAAACGCCGCTAAATACTCATACTATAGTG
701517 ACTTTTTTTG
Statistics
Matches: 165, Mismatches: 35, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
81 1 0.01
82 81 0.49
83 18 0.11
84 64 0.39
85 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (82 bp):
CATTTTTCAACAAACGCCGCTAAATACTCATACTATAGTGGCGTTTTTAAACAAACGCCGCTAAA
GACTAGTACTTTAGTGG
Found at i:703276 original size:20 final size:20
Alignment explanation
Indices: 703232--703269 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
703222 TTTTTTTCAA
*
703232 AAAAAAAAAGGCAAAAAAAC
1 AAAAAAAAAGCCAAAAAAAC
*
703252 AAAAAAAGAGCCAAAAAA
1 AAAAAAAAAGCCAAAAAA
703270 TCCAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.11, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGCCAAAAAAAC
Found at i:707731 original size:209 final size:210
Alignment explanation
Indices: 707371--707773 Score: 745
Period size: 209 Copynumber: 1.9 Consensus size: 210
707361 ATTGCGACTA
**
707371 GGAGGGCTCGATAGGACACTTATCCATCTATTTTTCCACAAATCCATCCATGCCATCAATCATCT
1 GGAGGGCTCGATAGGACACTTATCCATCTATTTTTCCACAAATCCATCCACACCATCAATCATCT
707436 TTACCGTTCACCTTCATAAGGGAGATCTTTTGATTTCTTTATTATCTTATTTCATCTTTCATTTA
66 TTACCGTTCACCTTCATAAGGGAGATCTTTTGATTTCTTTATTATCTTATTTCATCTTTCATTTA
*
707501 TATATCTTTTGTTTATTTTATTCTTATCGTGTTGTCTTGATTCCAGCACATAAAAG-AACCCTAC
131 TATATCTTTTGTTTATTTTATTCTAATCGTGTTGTCTTGATTCCAGCACATAAAAGAAACCCTAC
707565 TTGCTACCGCCACCT
196 TTGCTACCGCCACCT
*
707580 GGAGGGCTCGATAGGACACTTATCCATCTATTTTTCCACAAATCCATCCGCACCATCAATCATCT
1 GGAGGGCTCGATAGGACACTTATCCATCTATTTTTCCACAAATCCATCCACACCATCAATCATCT
707645 TTACCGTTCACCTTCATAAGGGAGATCTTTTGATTTCTTTATTATCTTATTTCATCTTTCATTTA
66 TTACCGTTCACCTTCATAAGGGAGATCTTTTGATTTCTTTATTATCTTATTTCATCTTTCATTTA
* *
707710 TTTATCTTTTGTTTATTTTATTCTAATCGTGTTGTCTTGATTCCAGTACATAAAAGAAACCCTA
131 TATATCTTTTGTTTATTTTATTCTAATCGTGTTGTCTTGATTCCAGCACATAAAAGAAACCCTA
707774 AACAATCCTA
Statistics
Matches: 187, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
209 180 0.96
210 7 0.04
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (210 bp):
GGAGGGCTCGATAGGACACTTATCCATCTATTTTTCCACAAATCCATCCACACCATCAATCATCT
TTACCGTTCACCTTCATAAGGGAGATCTTTTGATTTCTTTATTATCTTATTTCATCTTTCATTTA
TATATCTTTTGTTTATTTTATTCTAATCGTGTTGTCTTGATTCCAGCACATAAAAGAAACCCTAC
TTGCTACCGCCACCT
Found at i:708122 original size:49 final size:49
Alignment explanation
Indices: 708060--708158 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
708050 TCTATTTTTC
* *
708060 GATTCTTTTTATCATTTTCCGGTCTTTATGATATTGTTATTAGATATTA
1 GATTCCTTATATCATTTTCCGGTCTTTATGATATTGTTATTAGATATTA
708109 GATTCCTTATATCATTTTCCGGTCTTTATGATATTGTTATTAGATATTA
1 GATTCCTTATATCATTTTCCGGTCTTTATGATATTGTTATTAGATATTA
708158 G
1 G
708159 TGACGGAGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.23, C:0.11, G:0.13, T:0.53
Consensus pattern (49 bp):
GATTCCTTATATCATTTTCCGGTCTTTATGATATTGTTATTAGATATTA
Found at i:711240 original size:43 final size:42
Alignment explanation
Indices: 711028--711244 Score: 187
Period size: 43 Copynumber: 5.2 Consensus size: 42
711018 AAGATAATTA
711028 GCGGTGTTTGTTTCAAAAACGCCACTATAGATC-TGACCTTTT
1 GCGGTGTTTGTTTCAAAAACGCCACTATAGATCTTGACC-TTT
* * * *
711070 GCGGTGTTTGTTACAAGAATGCCGCTATAGATC-TGACC--T
1 GCGGTGTTTGTTTCAAAAACGCCACTATAGATCTTGACCTTT
** * * * * *
711109 --GGCATTTGTTGCAAAATCGCCGCTATAAATATCT-ACCTTTT
1 GCGGTGTTTGTTTCAAAAACGCCACTATAGATCT-TGACC-TTT
** * * * *
711150 GCGGCATTTGTTCCAAAAACACTACTATAGATATTGACCTTT
1 GCGGTGTTTGTTTCAAAAACGCCACTATAGATCTTGACCTTT
711192 GGCGGTGTTTGTTTCAAAAACGCCACTATAGATCTTGACCTATT
1 -GCGGTGTTTGTTTCAAAAACGCCACTATAGATCTTGACCT-TT
711236 GCGGTGTTT
1 GCGGTGTTT
711245 TTTGTTCTCA
Statistics
Matches: 141, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
37 23 0.16
38 3 0.02
39 2 0.01
41 1 0.01
42 38 0.27
43 72 0.51
44 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (42 bp):
GCGGTGTTTGTTTCAAAAACGCCACTATAGATCTTGACCTTT
Found at i:711706 original size:31 final size:31
Alignment explanation
Indices: 711665--711724 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
711655 TGTTAAGATA
*
711665 ATTAGAAATA-TTAAAGAAATATTTATAAATC
1 ATTAAAAATATTTAAA-AAATATTTATAAATC
**
711696 ATTAAAAATATTTAAATTATATTTATAAA
1 ATTAAAAATATTTAAAAAATATTTATAAA
711725 GATTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (31 bp):
ATTAAAAATATTTAAAAAATATTTATAAATC
Found at i:715392 original size:19 final size:19
Alignment explanation
Indices: 715370--715408 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
715360 TATCACTCAT
715370 TTATCTTCTCA-CATATTCA
1 TTATCTTCTCATCA-ATTCA
715389 TTATCTTCTCATCAATTCA
1 TTATCTTCTCATCAATTCA
715408 T
1 T
715409 CTTTTCTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATCTTCTCATCAATTCA
Found at i:716081 original size:16 final size:16
Alignment explanation
Indices: 716060--716105 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 16
716050 TATATATTAT
716060 ACATAGTTTTTTGAAA
1 ACATAGTTTTTTGAAA
716076 ACATAG--TTTTGAAA
1 ACATAGTTTTTTGAAA
* *
716090 GCAT-TTTTTTTGAAA
1 ACATAGTTTTTTGAAA
716105 A
1 A
716106 TATATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 11 0.44
15 8 0.32
16 6 0.24
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (16 bp):
ACATAGTTTTTTGAAA
Found at i:716110 original size:2 final size:2
Alignment explanation
Indices: 716105--716166 Score: 99
Period size: 2 Copynumber: 31.5 Consensus size: 2
716095 TTTTTTGAAA
* *
716105 AT AT AT AT AT AG AT AT A- AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
716146 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
716167 GTTTTTGAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:716195 original size:39 final size:37
Alignment explanation
Indices: 716152--716293 Score: 162
Period size: 39 Copynumber: 3.7 Consensus size: 37
716142 ATATATATAT
716152 ATATATATATATATAGTTTTTGAAAATGCTTTTTTGAAA
1 ATATATATATATATAGTTTTTGAAAA--CTTTTTTGAAA
* *
716191 ATATATATAATATATA-ATTTTGAAAACATTTTTCGAAA
1 ATATATAT-ATATATAGTTTTTGAAAAC-TTTTTTGAAA
* * * *
716229 ACATATATATAATATATTATTTTGAAAACCTTTTTGAAT
1 ATATATATAT-ATATAGT-TTTTGAAAACTTTTTTGAAA
716268 ATATATATATATATAGTTTTT-AAAAC
1 ATATATATATATATAGTTTTTGAAAAC
716294 GGTTTTCAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
36 5 0.06
37 7 0.08
38 27 0.30
39 33 0.37
40 17 0.19
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (37 bp):
ATATATATATATATAGTTTTTGAAAACTTTTTTGAAA
Found at i:716235 original size:40 final size:38
Alignment explanation
Indices: 716150--716332 Score: 151
Period size: 40 Copynumber: 4.7 Consensus size: 38
716140 ATATATATAT
* *
716150 ATATATATATATATATAGTTTTTGAAAATGCTTTTTTGAAA-
1 ATATATATA-ATATATA-ATTTTGAAAA--CTTTTTCGAAAC
716191 ATATATATAATATATAATTTTGAAAACATTTTTCGAAAAC
1 ATATATATAATATATAATTTTGAAAAC-TTTTTCG-AAAC
* *
716231 ATATATATAATATATTATTTTGAAAACCTTTTT-G-AAT
1 ATATATATAATATATAATTTTGAAAA-CTTTTTCGAAAC
* * * *
716268 ATATATAT-ATATATAGTTTTTAAAACGGTTTTCAAAAAC
1 ATATATATAATATATAATTTTGAAAAC-TTTTTC-GAAAC
**
716307 ATATATA-ACATATATTTTTTTGAAAA
1 ATATATATA-ATATATAATTTTGAAAA
716333 ACCTATTATA
Statistics
Matches: 119, Mismatches: 13, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
35 1 0.01
36 18 0.15
37 11 0.09
38 6 0.05
39 22 0.18
40 51 0.43
41 10 0.08
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (38 bp):
ATATATATAATATATAATTTTGAAAACTTTTTCGAAAC
Found at i:716403 original size:5 final size:5
Alignment explanation
Indices: 716401--716445 Score: 90
Period size: 5 Copynumber: 9.0 Consensus size: 5
716391 TGTTGTATAG
716401 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
716446 AGTTTTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:716464 original size:9 final size:9
Alignment explanation
Indices: 716401--716470 Score: 68
Period size: 10 Copynumber: 7.1 Consensus size: 9
716391 TGTTGTATAG
716401 TATTATATT
1 TATTATATT
716410 ATATTATATT
1 -TATTATATT
716420 ATATTATATT
1 -TATTATATT
716430 ATATTATATT
1 -TATTATATT
*
716440 ATATTAAGTTTT
1 -TATT-A-TATT
*
716452 TATTTTATT
1 TATTATATT
716461 TATTATATT
1 TATTATATT
716470 T
1 T
716471 CTATTCTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
9 12 0.22
10 34 0.63
11 5 0.09
12 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (9 bp):
TATTATATT
Found at i:717727 original size:26 final size:26
Alignment explanation
Indices: 717680--717757 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 26
717670 TTGATCTGAC
* * *
717680 ATTTTTATTTATATATTTATTT-ATTT
1 ATTTTTATTTTTGT-TTTATTTAATTA
717706 ATTTTTATTTTTGTTTTAATTTAATTA
1 ATTTTTATTTTTGTTTT-ATTTAATTA
* * *
717733 ATTTTTGTCTTTGTTTGTACTTAAT
1 ATTTTTATTTTTGTTT-TATTTAAT
717758 CTTGCATTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.07
26 16 0.37
27 23 0.53
28 1 0.02
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (26 bp):
ATTTTTATTTTTGTTTTATTTAATTA
Found at i:720608 original size:19 final size:19
Alignment explanation
Indices: 720584--720636 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
720574 GAATGCATTT
*
720584 CATGCATCGATGCACATAC
1 CATGCACCGATGCACATAC
720603 CATGCACCGATGCACATAC
1 CATGCACCGATGCACATAC
720622 CATGCACCGATGCAC
1 CATGCACCGATGCAC
720637 TAAGGATGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (19 bp):
CATGCACCGATGCACATAC
Found at i:720745 original size:17 final size:19
Alignment explanation
Indices: 720723--720766 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
720713 TGAAACATTG
*
720723 GATGCACT-TGA-TGCATC
1 GATGCACTCTGAGTGCACC
*
720740 GATGCACTCTTAGTGCACC
1 GATGCACTCTGAGTGCACC
720759 GATGCACT
1 GATGCACT
720767 AAGGATCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 2 0.09
19 13 0.57
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (19 bp):
GATGCACTCTGAGTGCACC
Found at i:720762 original size:64 final size:63
Alignment explanation
Indices: 720624--720772 Score: 158
Period size: 64 Copynumber: 2.3 Consensus size: 63
720614 GCACATACCA
* *
720624 TGCACCGATGCACTAAGGATGTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCAGCC
1 TGCACCGATGCACTAAGGATATTATGAAAACATCGAATGCACTTGATGCATCGATGCACCAG-C
* ** * * * *
720688 ATGCATCGATGCACTCTGGCTATTTTG-AAACATTGGATGCACTTGATGCATCGATGCACTCTTA
1 -TGCACCGATGCACTAAGGATATTATGAAAACATCGAATGCACTTGATGCATCGATGCAC-C--A
720752 G-
62 GC
720753 TGCACCGATGCACTAAGGAT
1 TGCACCGATGCACTAAGGAT
720773 CCAACGGTCA
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
64 45 0.66
65 21 0.31
67 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (63 bp):
TGCACCGATGCACTAAGGATATTATGAAAACATCGAATGCACTTGATGCATCGATGCACCAGC
Found at i:729244 original size:29 final size:30
Alignment explanation
Indices: 729210--729272 Score: 119
Period size: 29 Copynumber: 2.1 Consensus size: 30
729200 ATCGATGCAC
729210 CATGAATTAAATTGAACATCGAATGCA-TT
1 CATGAATTAAATTGAACATCGAATGCATTT
729239 CATGAATTAAATTGAACATCGAATGCATTT
1 CATGAATTAAATTGAACATCGAATGCATTT
729269 CATG
1 CATG
729273 CATCGATGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 27 0.82
30 6 0.18
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (30 bp):
CATGAATTAAATTGAACATCGAATGCATTT
Found at i:729323 original size:65 final size:63
Alignment explanation
Indices: 729253--729438 Score: 230
Period size: 65 Copynumber: 2.9 Consensus size: 63
729243 AATTAAATTG
* *
729253 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTAAGGATGTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACAT-CCATGCACCGATGCACTAAGGATATTATG-A
* * ** * *
729318 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CATCCATGCACCGATGCACTAAGGATATTATGA
* *
729382 AACATCGAATGCACTTGATGCATCGATGCAC-TCTTAGTGCACCGATGCACTAAGGAT
1 AACATCGAATGCATTTGATGCATCGATGCACATC-CA-TGCACCGATGCACTAAGGAT
729439 CCAACGGTCA
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 46 0.45
65 52 0.50
66 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACATCCATGCACCGATGCACTAAGGATATTATGA
Found at i:729412 original size:17 final size:19
Alignment explanation
Indices: 729384--729432 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
729374 TATTTTGAAA
729384 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
729402 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
729421 CACCGATGCACT
1 CATCGATGCACT
729433 AAGGATCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:734703 original size:22 final size:22
Alignment explanation
Indices: 734636--734703 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
734626 CATTTCCTTG
*
734636 TGAATTTAATTTTCTTTCATTC
1 TGAATTTAATTTTCTTTCATTT
* * * * *
734658 TGTACTT-CTTTTCATCTCCTTT
1 TGAATTTAATTTTC-TTTCATTT
734680 TGAATTTAATTTTCTTTCATTT
1 TGAATTTAATTTTCTTTCATTT
734702 TG
1 TG
734704 TGTGGGATGT
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
21 5 0.15
22 23 0.70
23 5 0.15
ACGTcount: A:0.18, C:0.16, G:0.06, T:0.60
Consensus pattern (22 bp):
TGAATTTAATTTTCTTTCATTT
Found at i:739836 original size:63 final size:64
Alignment explanation
Indices: 739762--739883 Score: 173
Period size: 62 Copynumber: 2.0 Consensus size: 64
739752 TTTTTTGAAA
* *
739762 ATATATAATATATAG-TTTTGAAAAC-CTTTTTTG-AAAACATATAT-G-ATATATAGTTTTAAT
1 ATATATAATATATAGTTTTTGAAAACGC-TTTTTGAAAAAAATATATAGAATATATAATTTTAAT
739822 ATATATATATATATAGTTTTTGAAAACGCTTTTTGAAAAAAATATATAGAATATATAATTTT
1 ATATATA-ATATATAGTTTTTGAAAACGCTTTTTGAAAAAAATATATAGAATATATAATTTT
739884 GAAAACATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
60 7 0.13
61 8 0.15
62 16 0.30
63 11 0.20
64 1 0.02
65 11 0.20
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (64 bp):
ATATATAATATATAGTTTTTGAAAACGCTTTTTGAAAAAAATATATAGAATATATAATTTTAAT
Found at i:739895 original size:40 final size:42
Alignment explanation
Indices: 739819--739917 Score: 123
Period size: 40 Copynumber: 2.4 Consensus size: 42
739809 ATATAGTTTT
* *
739819 AATATATATATATATATAGTTTTTGAAAACGCTTTTT-GAAAAA
1 AATATATATA-ATATATAGATTTTGAAAACGATTTTTCG-AAAA
*
739862 AATATATAGAATATATA-ATTTTGAAAAC-ATTTTTCGAAAA
1 AATATATATAATATATAGATTTTGAAAACGATTTTTCGAAAA
*
739902 CATATATATAATATAT
1 AATATATATAATATAT
739918 GAATGCAGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
40 23 0.46
41 11 0.22
42 7 0.14
43 9 0.18
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (42 bp):
AATATATATAATATATAGATTTTGAAAACGATTTTTCGAAAA
Found at i:739909 original size:42 final size:41
Alignment explanation
Indices: 739819--739917 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
739809 ATATAGTTTT
* * *
739819 AATATATATATATATATAGTTTTTGAAAACGCTTTTTGAAA
1 AATATATATAAATATATAGATTTTGAAAACGATTTTTGAAA
*
739860 AAAATATATAGAATATATA-ATTTTGAAAAC-ATTTTTCGAAA
1 AATATATATA-AATATATAGATTTTGAAAACGATTTTT-GAAA
739901 ACATATATAT-AATATAT
1 A-ATATATATAAATATAT
739918 GAATGCAGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
40 12 0.24
41 24 0.48
42 14 0.28
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (41 bp):
AATATATATAAATATATAGATTTTGAAAACGATTTTTGAAA
Found at i:741003 original size:61 final size:61
Alignment explanation
Indices: 740908--741027 Score: 204
Period size: 61 Copynumber: 2.0 Consensus size: 61
740898 ATCATAATGC
* * * *
740908 TATGACACATAAGTTCTTGCCCACCACCTTCACTAAGTGTCTTGGTTATACACTCTAGTAT
1 TATGACACATAAGGTCGTGCCCACCACCTGCACTAAGTGTCTTGGGTATACACTCTAGTAT
740969 TATGACACATAAGGTCGTGCCCACCACCTGCACTAAGTGTCTTGGGTATACACTCTAGT
1 TATGACACATAAGGTCGTGCCCACCACCTGCACTAAGTGTCTTGGGTATACACTCTAGT
741028 GTTAATCCGG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (61 bp):
TATGACACATAAGGTCGTGCCCACCACCTGCACTAAGTGTCTTGGGTATACACTCTAGTAT
Found at i:747957 original size:63 final size:63
Alignment explanation
Indices: 747856--748040 Score: 253
Period size: 63 Copynumber: 2.9 Consensus size: 63
747846 GCACATCCTC
* * * * *
747856 TCTCCTCTTCTTTACATTCTGATTGCAAACATTGTCCCCTTCCTTCAAAAGCTTTTCCTCTGC
1 TCTCCTCTTCTTTCCATTCTGTTTGCTAACATTTTCCCCTTCCTTCAAAAGCTTTTCCTCTGA
* * ** *
747919 TCTCCTCTTCTTTCCGTTCTGTTTGCTGATGTTTTCCCCTTCCATCAAAAGCTTTTCCTCTGA
1 TCTCCTCTTCTTTCCATTCTGTTTGCTAACATTTTCCCCTTCCTTCAAAAGCTTTTCCTCTGA
* * *
747982 TTTCCTCTTCTTTTCATTCTGTTTGCTAACATTTTCCCCTTCTTTCAAAAGCTTTTCCT
1 TCTCCTCTTCTTTCCATTCTGTTTGCTAACATTTTCCCCTTCCTTCAAAAGCTTTTCCT
748041 TACTACAATC
Statistics
Matches: 104, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 104 1.00
ACGTcount: A:0.14, C:0.31, G:0.08, T:0.46
Consensus pattern (63 bp):
TCTCCTCTTCTTTCCATTCTGTTTGCTAACATTTTCCCCTTCCTTCAAAAGCTTTTCCTCTGA
Found at i:751902 original size:21 final size:21
Alignment explanation
Indices: 751876--751927 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
751866 GATATTGAGT
751876 TGTGAAATGATATTGATCAAG
1 TGTGAAATGATATTGATCAAG
751897 TGTGAAATGATATTGATCAAG
1 TGTGAAATGATATTGATCAAG
* *
751918 TATCAAATGA
1 TGTGAAATGA
751928 ATTTTATGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (21 bp):
TGTGAAATGATATTGATCAAG
Found at i:753020 original size:67 final size:69
Alignment explanation
Indices: 752934--753157 Score: 235
Period size: 67 Copynumber: 3.2 Consensus size: 69
752924 GTATTTATGT
752934 TATAATAATATATAGTTTTT-AAGAATATATAATATAGTTTTTGAAAACGTATTATATAGTTTTG
1 TATAAT-ATATATAGTTTTTGAA-AATATATAATATAGTTTTTGAAAACGTATTATATAGTTTTG
752998 AAAACA
64 AAAACA
* * * * *
753004 TAT-A-GTATATAGTTTTTGAAAATATATAGTATTGGTTTTT-AAAACATATTATACAGTTTTGA
1 TATAATATATATAGTTTTTGAAAATATATAATA-TAGTTTTTGAAAACGTATTATATAGTTTTGA
753066 AAACA
65 AAACA
* * *
753071 TATAATATATATAGTTTTTGAAAACATATGTAATATACATAACTTTTGAATAATGTATTATATAG
1 TATAATATATATAGTTTTTG-AAA-ATATATAATATA-GT---TTTTGAA-AACGTATTATATAG
753136 TTTTTG-AAA-A
59 -TTTTGAAAACA
753146 TATAATATATAT
1 TATAATATATAT
753158 TATAAAGTTT
Statistics
Matches: 128, Mismatches: 13, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
67 50 0.39
68 10 0.08
69 14 0.11
70 7 0.05
71 9 0.07
74 4 0.03
75 15 0.12
76 14 0.11
77 5 0.04
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.44
Consensus pattern (69 bp):
TATAATATATATAGTTTTTGAAAATATATAATATAGTTTTTGAAAACGTATTATATAGTTTTGAA
AACA
Found at i:753078 original size:26 final size:26
Alignment explanation
Indices: 752934--753099 Score: 102
Period size: 24 Copynumber: 7.1 Consensus size: 26
752924 GTATTTATGT
* *
752934 TATAATAATATATAGTTTTT-AAGA-A
1 TATAAT-ATATACAGTTTTTGAAAACA
* *
752959 TAT-ATA-ATATAGTTTTTGAAAACG
1 TATAATATATACAGTTTTTGAAAACA
752983 TAT--TATAT--AG-TTTTGAAAACA
1 TATAATATATACAGTTTTTGAAAACA
* *
753004 TATAGTATAT--AGTTTTTGAAAATA
1 TATAATATATACAGTTTTTGAAAACA
* *
753028 TATAGTAT-T--GGTTTTT-AAAAC-
1 TATAATATATACAGTTTTTGAAAACA
753049 -AT-AT-TATACAG-TTTTGAAAACA
1 TATAATATATACAGTTTTTGAAAACA
*
753071 TATAATATATATAGTTTTTGAAAACA
1 TATAATATATACAGTTTTTGAAAACA
753097 TAT
1 TAT
753100 GTAATATACA
Statistics
Matches: 117, Mismatches: 9, Indels: 29
0.75 0.06 0.19
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 6 0.05
21 19 0.16
22 17 0.15
23 22 0.19
24 27 0.23
25 9 0.08
26 14 0.12
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (26 bp):
TATAATATATACAGTTTTTGAAAACA
Found at i:753154 original size:22 final size:22
Alignment explanation
Indices: 752938--753156 Score: 135
Period size: 22 Copynumber: 9.5 Consensus size: 22
752928 TTATGTTATA
752938 ATAATATATAGTTTTT-AAGAAT
1 ATAATATATAGTTTTTGAA-AAT
*
752960 AT-ATAATATAGTTTTTGAAAAC
1 ATAAT-ATATAGTTTTTGAAAAT
* *
752982 GTATTATATAG-TTTTGAAAACAT
1 ATAATATATAGTTTTTG-AAA-AT
*
753005 ATAGTATATAGTTTTTGAAAAT
1 ATAATATATAGTTTTTGAAAAT
* *
753027 AT-ATAGTATTGGTTTTT-AAAAC
1 ATAATA-TA-TAGTTTTTGAAAAT
* *
753049 ATATTATACAG-TTTTGAAAACAT
1 ATAATATATAGTTTTTG-AAA-AT
753072 ATAATATATATAGTTTTTGAAAACAT
1 AT-A-ATATATAGTTTTTG-AAA-AT
**
753098 ATGTAATATACATAACTTTTGAATAAT
1 A--TAATAT--ATAGTTTTTGAA-AAT
* *
753125 GTATTATATAGTTTTTGAAAAT
1 ATAATATATAGTTTTTGAAAAT
753147 ATAATATATA
1 ATAATATATA
753157 TTATAAAGTT
Statistics
Matches: 154, Mismatches: 23, Indels: 40
0.71 0.11 0.18
Matches are distributed among these distances:
20 4 0.03
21 10 0.06
22 53 0.34
23 38 0.25
24 6 0.04
25 11 0.07
26 17 0.11
27 5 0.03
28 10 0.06
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.43
Consensus pattern (22 bp):
ATAATATATAGTTTTTGAAAAT
Found at i:753166 original size:29 final size:27
Alignment explanation
Indices: 753126--753181 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
753116 TTGAATAATG
*
753126 TATTATATAGTTTTTGAAAATATAATATA
1 TATTATAAAGTTTTT-AAAATAT-ATATA
*
753155 TATTATAAAGTTTTTAATATATATATA
1 TATTATAAAGTTTTTAAAATATATATA
753182 GTAAACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.20
28 6 0.24
29 14 0.56
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (27 bp):
TATTATAAAGTTTTTAAAATATATATA
Found at i:757346 original size:2 final size:2
Alignment explanation
Indices: 757339--757376 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
757329 ATGGTTTTTC
757339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
757377 TGATTCAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:762590 original size:27 final size:26
Alignment explanation
Indices: 762552--762604 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
762542 TTTCAGATCT
762552 TTACTTCTCGACCGAGAGCTTGAGGGC
1 TTACTTCTCGACCGAGA-CTTGAGGGC
762579 TTACTTCTCGACCGAGACTTGAGGGC
1 TTACTTCTCGACCGAGACTTGAGGGC
762605 CAAGGCACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (26 bp):
TTACTTCTCGACCGAGACTTGAGGGC
Found at i:763216 original size:21 final size:21
Alignment explanation
Indices: 763192--763272 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
763182 ATTTTATAGT
763192 AAAAGGATATATCCCTTTTGA
1 AAAAGGATATATCCCTTTTGA
**
763213 AAAAGGATCGATCCCTTTTGA
1 AAAAGGATATATCCCTTTTGA
* * *
763234 AAAATGACCA-ATCCC--TTGG
1 AAAAGGA-TATATCCCTTTTGA
763253 AAAAGAGATATATCCCTTTT
1 AAAAG-GATATATCCCTTTT
763273 AGAAGTTCGG
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
19 8 0.17
20 7 0.15
21 30 0.64
22 2 0.04
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (21 bp):
AAAAGGATATATCCCTTTTGA
Found at i:764832 original size:35 final size:35
Alignment explanation
Indices: 764786--764871 Score: 111
Period size: 35 Copynumber: 2.4 Consensus size: 35
764776 AATCCATGTG
* *
764786 GGGCATTTTGAATGCCCA-CGTCAATATGAATATTT
1 GGGCATTTTGAAGGCCCATAGT-AATATGAATATTT
*
764821 GGGCATTTTGAAGGCTCATAGTAATATGAATATTT
1 GGGCATTTTGAAGGCCCATAGTAATATGAATATTT
*
764856 GGGCATTCTTGGAGGC
1 GGGCATT-TTGAAGGC
764872 TCATCTCAGC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
35 36 0.80
36 9 0.20
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (35 bp):
GGGCATTTTGAAGGCCCATAGTAATATGAATATTT
Found at i:767048 original size:73 final size:73
Alignment explanation
Indices: 766944--767394 Score: 787
Period size: 73 Copynumber: 6.2 Consensus size: 73
766934 CTATTTCCCA
* * *
766944 CATCTGTAAGACCTACAGTGCATGAGGTTTTCAAAAAACCTTCGGGAGCTTTTTGATCGTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
767009 CTCAGGGT
66 CTCAGGGT
767017 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
767082 CTCAGGGT
66 CTCAGGGT
*
767090 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCCTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
767155 CTCAGGGT
66 CTCAGGGT
*
767163 CATCTGTAAAACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
767228 CTCAGGGT
66 CTCAGGGT
* *
767236 TATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATCTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
*
767301 CTCATGGT
66 CTCAGGGT
* *
767309 CATCTGTAAGACCCACAGTGCATGATGTTTTCAAAAA-CCTTCGGGAGCTTTTTGATTTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
767373 CTCAGGGT
66 CTCAGGGT
**
767381 CATCCATAAGACCT
1 CATCTGTAAGACCT
767395 CTGGGCAGAA
Statistics
Matches: 360, Mismatches: 18, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
72 43 0.12
73 317 0.88
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (73 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAGC
CTCAGGGT
Found at i:767567 original size:3 final size:3
Alignment explanation
Indices: 767552--767604 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
767542 ATTATGCTTA
*
767552 ATT ATT AAT -TT ATT ATT ATT ATT ATT ATT ATAT ATAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT
767598 ATT ATT A
1 ATT ATT A
767605 AATAAATTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 1 0.02
3 38 0.83
4 7 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:767581 original size:23 final size:24
Alignment explanation
Indices: 767552--767605 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
767542 ATTATGCTTA
*
767552 ATTATTAATTTAT-TATTATTATT
1 ATTATTAATATATATATTATTATT
767575 ATTATT-ATATATATATTATTATT
1 ATTATTAATATATATATTATTATT
767598 ATTATTAA
1 ATTATTAA
767606 ATAAATTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 5 0.18
23 22 0.79
24 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
ATTATTAATATATATATTATTATT
Found at i:769099 original size:29 final size:27
Alignment explanation
Indices: 769066--769128 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 27
769056 TTGTTAATAA
769066 TTATATTAATAATCTT-ATCCATTAATTGT
1 TTATATTAATAAT-TTGAT-CATTAATT-T
*
769095 TTATATTTTATAATTTGATCATTAATTT
1 TTATA-TTAATAATTTGATCATTAATTT
769123 TTATAT
1 TTATAT
769129 AATTTTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 1 0.03
28 6 0.19
29 15 0.48
30 9 0.29
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.57
Consensus pattern (27 bp):
TTATATTAATAATTTGATCATTAATTT
Found at i:769238 original size:12 final size:11
Alignment explanation
Indices: 769222--769283 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
769212 TTTATTTGCA
769222 ATTTTATTATT
1 ATTTTATTATT
*
769233 ACTTTTAATA-T
1 A-TTTTATTATT
769244 ATTTTAATTATT
1 ATTTT-ATTATT
*
769256 ACTTTAATTATT
1 A-TTTTATTATT
769268 ATTTTATTATT
1 ATTTTATTATT
769279 ATTTT
1 ATTTT
769284 TATCTTAGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
10 4 0.09
11 20 0.47
12 16 0.37
13 3 0.07
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:769255 original size:23 final size:24
Alignment explanation
Indices: 769222--769285 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 24
769212 TTTATTTGCA
769222 ATTTTATTATTACTTTTAA-TA-T
1 ATTTTATTATTACTTTTAATTATT
769244 ATTTTAATTATTAC-TTTAATTATT
1 ATTTT-ATTATTACTTTTAATTATT
*
769268 ATTTTATTATTATTTTTA
1 ATTTTATTATTACTTTTA
769286 TCTTAGTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 10 0.27
23 17 0.46
24 10 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (24 bp):
ATTTTATTATTACTTTTAATTATT
Found at i:769284 original size:12 final size:12
Alignment explanation
Indices: 769223--769286 Score: 71
Period size: 12 Copynumber: 5.5 Consensus size: 12
769213 TTATTTGCAA
769223 TTTTATTATTAC
1 TTTTATTATTAC
*
769235 TTTTAATA-TA-
1 TTTTATTATTAC
769245 TTTTAATTATTAC
1 TTTT-ATTATTAC
*
769258 TTTAATTATTA-
1 TTTTATTATTAC
*
769269 TTTTATTATTAT
1 TTTTATTATTAC
769281 TTTTAT
1 TTTTAT
769287 CTTAGTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
10 4 0.09
11 15 0.34
12 22 0.50
13 3 0.07
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTATTATTAC
Found at i:771779 original size:28 final size:28
Alignment explanation
Indices: 771739--771792 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
771729 AAACATGTTT
* *
771739 CTACGAGGCACTTTTGAGTGCAAATATA
1 CTACGAGGAACTTTTAAGTGCAAATATA
771767 CTACGAGGAACTTTTAAGTGCAAATA
1 CTACGAGGAACTTTTAAGTGCAAATA
771793 GTGTGCACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (28 bp):
CTACGAGGAACTTTTAAGTGCAAATATA
Found at i:777559 original size:12 final size:12
Alignment explanation
Indices: 777542--777583 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
777532 GCTCGATCGA
*
777542 AAAAAATAAAAT
1 AAAAAATAAAAC
777554 AAAAAATAAAAC
1 AAAAAATAAAAC
777566 AAAAACA-AAAAC
1 AAAAA-ATAAAAC
777578 AAAAAA
1 AAAAAA
777584 GTAATGGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 1 0.04
12 26 0.93
13 1 0.04
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAATAAAAC
Found at i:783872 original size:4 final size:4
Alignment explanation
Indices: 783863--783912 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
783853 AAGTCTTTTC
* *
783863 TTAT TTAT TTA- TTA- TTAT TTAT TTAT AT-T TTAT TTAT TTAT AT-T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
783907 TTAT TT
1 TTAT TT
783913 GAATTTAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 10 0.26
4 29 0.74
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:783897 original size:15 final size:15
Alignment explanation
Indices: 783863--783912 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
783853 AAGTCTTTTC
*
783863 TTATTTATTTAT-TA
1 TTATTTATTTATATT
783877 TTATTTATTTATATT
1 TTATTTATTTATATT
783892 TTATTTATTTATATT
1 TTATTTATTTATATT
783907 TTATTT
1 TTATTT
783913 GAATTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTTATTTATATT
Found at i:796389 original size:20 final size:22
Alignment explanation
Indices: 796353--796393 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
796343 GCATGCTTAA
796353 TCATTCATTTGTTAGCTCATAT
1 TCATTCATTTGTTAGCTCATAT
796375 TCATTC-TTT-TTAGCTCATA
1 TCATTCATTTGTTAGCTCATA
796394 GGTCTTACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
21 3 0.16
22 6 0.32
ACGTcount: A:0.22, C:0.20, G:0.07, T:0.51
Consensus pattern (22 bp):
TCATTCATTTGTTAGCTCATAT
Found at i:806841 original size:30 final size:29
Alignment explanation
Indices: 806774--806848 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
806764 TAAATTAAAT
* *
806774 ATTATATAAATATACTTATCAATCATGCA
1 ATTATACAAATATACTTATCAATCATGAA
*
806803 ATTAATACAAATGTACTTATCAATCAT-AA
1 ATT-ATACAAATATACTTATCAATCATGAA
*
806832 AGGTTATACATATATAC
1 A--TTATACAAATATAC
806849 CAATCATGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
29 5 0.13
30 31 0.82
31 2 0.05
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.36
Consensus pattern (29 bp):
ATTATACAAATATACTTATCAATCATGAA
Found at i:812814 original size:14 final size:15
Alignment explanation
Indices: 812787--812823 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
812777 AGTAGGAGCT
812787 ATCAGAGATGAAAG-
1 ATCAGAGATGAAAGC
812801 ATCAAGAGAT-AAAGC
1 ATC-AGAGATGAAAGC
812816 ATCAGAGA
1 ATCAGAGA
812824 GCAACCAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.51, C:0.11, G:0.24, T:0.14
Consensus pattern (15 bp):
ATCAGAGATGAAAGC
Found at i:814611 original size:20 final size:20
Alignment explanation
Indices: 814567--814618 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
814557 CTTTTTTTTT
*
814567 CAAAAAAAAAACAAAAAAAG
1 CAAAAAAAAAACAAAAAAAA
* **
814587 GAAAAAAAAGGCAAAAAAAA
1 CAAAAAAAAAACAAAAAAAA
814607 CAAAAACAAAAA
1 CAAAAA-AAAAA
814619 AAGCCAAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.83, C:0.10, G:0.08, T:0.00
Consensus pattern (20 bp):
CAAAAAAAAAACAAAAAAAA
Found at i:814627 original size:16 final size:15
Alignment explanation
Indices: 814570--814620 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
814560 TTTTTTTCAA
814570 AAAAAAAACAAAAA-
1 AAAAAAAACAAAAAC
* **
814584 AAGGAAAAA-AAAGGC
1 AA-AAAAAACAAAAAC
814599 AAAAAAAACAAAAAC
1 AAAAAAAACAAAAAC
814614 AAAAAAA
1 AAAAAAA
814621 GCCAAAATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAAAAAC
Found at i:820165 original size:1 final size:1
Alignment explanation
Indices: 820159--820185 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
820149 AGTTCTTCCC
820159 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
820186 ATCAATGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:821529 original size:30 final size:29
Alignment explanation
Indices: 821490--821546 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
821480 AGACTTACAT
821490 ATTAAATAAATACACTTATCAATCATGCA
1 ATTAAATAAATACACTTATCAATCATGCA
* *
821519 ATTAATATAAATATACTTATCAGTCATG
1 ATTAA-ATAAATACACTTATCAATCATG
821547 AAAGTTATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.35
Consensus pattern (29 bp):
ATTAAATAAATACACTTATCAATCATGCA
Found at i:823269 original size:117 final size:117
Alignment explanation
Indices: 823054--823275 Score: 284
Period size: 117 Copynumber: 1.9 Consensus size: 117
823044 CCTGTACACC
* * * * *
823054 CAGTTAGGGCTTACCCTGTGCACAAAGTAGAAGAGCCTGCAGTAAGGTCTTATCCTGTGCACAAA
1 CAGTAAGGACTTACCCTGAGCACAAAGTAGAAGAGCCTGCAGTAAGGACTTATCCTGAGCACAAA
* *
823119 GCATAGGAGCCTATAGTAAGGACTTACCCTGAGCACAAAGCCAAGGATTCTA
66 GCAGAGGAGCCTACAGTAAGGACTTACCCTGAGCACAAAGCCAAGGATTCTA
* * * * *
823171 CAGTAAGGACTTACCTTGAGCACAAATTCGATGAGCCTGTAGTAAGGACTTA-CCATGAGCACAA
1 CAGTAAGGACTTACCCTGAGCACAAAGTAGAAGAGCCTGCAGTAAGGACTTATCC-TGAGCACAA
* * * *
823235 AGCCGAGGAGCCTGCGGTAGGGACTTACCCTGAGCACAAAG
65 AGCAGAGGAGCCTACAGTAAGGACTTACCCTGAGCACAAAG
823276 GTGAGGAGCC
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
116 2 0.02
117 86 0.98
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (117 bp):
CAGTAAGGACTTACCCTGAGCACAAAGTAGAAGAGCCTGCAGTAAGGACTTATCCTGAGCACAAA
GCAGAGGAGCCTACAGTAAGGACTTACCCTGAGCACAAAGCCAAGGATTCTA
Found at i:823285 original size:78 final size:78
Alignment explanation
Indices: 823063--823287 Score: 247
Period size: 78 Copynumber: 2.9 Consensus size: 78
823053 CCAGTTAGGG
* ** * * * *
823063 CTTACCCTGTGCACAAAGTAGAAGAGCCTGCAGTAAGGTCTTATCCTGTGCACAAAGCAT-AGGA
1 CTTACCCTGAGCACAAAGCCGAGGAGCCTGCAGTAAGGACTTACCCTGAGCACAAAG-ATGAGGA
*
823127 GCCTATAGTAAGGA
65 GCCTGTAGTAAGGA
* ** * * * *
823141 CTTACCCTGAGCACAAAGCCAAGGATTCTACAGTAAGGACTTACCTTGAGCACAAA-TTCGATGA
1 CTTACCCTGAGCACAAAGCCGAGGAGCCTGCAGTAAGGACTTACCCTGAGCACAAAGAT-GAGGA
823205 GCCTGTAGTAAGGA
65 GCCTGTAGTAAGGA
* * * *
823219 CTTACCATGAGCACAAAGCCGAGGAGCCTGCGGTAGGGACTTACCCTGAGCACAAAGGTGAGGAG
1 CTTACCCTGAGCACAAAGCCGAGGAGCCTGCAGTAAGGACTTACCCTGAGCACAAAGATGAGGAG
823284 CCTG
66 CCTG
823288 CGGAAAGCGG
Statistics
Matches: 119, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
76 1 0.01
78 117 0.98
79 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.20
Consensus pattern (78 bp):
CTTACCCTGAGCACAAAGCCGAGGAGCCTGCAGTAAGGACTTACCCTGAGCACAAAGATGAGGAG
CCTGTAGTAAGGA
Found at i:823290 original size:39 final size:39
Alignment explanation
Indices: 823054--823288 Score: 215
Period size: 39 Copynumber: 6.0 Consensus size: 39
823044 CCTGTACACC
* * * *
823054 CAGTTAGGGCTTACCCTGTGCACAAAG-TAGAAGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGCT-GAGGAGCCTG
* * * *
823093 CAGTAAGGTCTTATCCTGTGCACAAAGCAT-AGGAGCCTA
1 CAGTAAGGACTTACCCTGAGCACAAAGC-TGAGGAGCCTG
* ** ** *
823132 TAGTAAGGACTTACCCTGAGCACAAAGCCAAGGATTCTA
1 CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
* * *
823171 CAGTAAGGACTTACCTTGAGCACAAA-TTCGATGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGCT-GAGGAGCCTG
* * *
823210 TAGTAAGGACTTACCATGAGCACAAAGCCGAGGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
* * *
823249 CGGTAGGGACTTACCCTGAGCACAAAGGTGAGGAGCCTG
1 CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
823288 C
1 C
823289 GGAAAGCGGG
Statistics
Matches: 159, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
39 158 0.99
41 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (39 bp):
CAGTAAGGACTTACCCTGAGCACAAAGCTGAGGAGCCTG
Found at i:825443 original size:29 final size:30
Alignment explanation
Indices: 825411--825475 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
825401 ACCAAAATGC
*
825411 AAATTTT-G-AAAGTTTAGTAGCCAAAGTAT
1 AAATTTTGGAAAACTTTAGT-GCCAAAGTAT
*
825440 AAATTTTGGAAAACTTTAGTGCCAAAGTGT
1 AAATTTTGGAAAACTTTAGTGCCAAAGTAT
825470 -AATTTT
1 AAATTTT
825476 CAAAAGTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 13 0.41
30 10 0.31
31 9 0.28
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (30 bp):
AAATTTTGGAAAACTTTAGTGCCAAAGTAT
Found at i:829102 original size:20 final size:20
Alignment explanation
Indices: 829077--829121 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
829067 TACTATCCTG
*
829077 GAATTTAATGTTAGACTGTA
1 GAATTTAATGTTAGAATGTA
*
829097 GAATTTGATGTTAGAATGTA
1 GAATTTAATGTTAGAATGTA
*
829117 AAATT
1 GAATT
829122 GGACCATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (20 bp):
GAATTTAATGTTAGAATGTA
Found at i:832855 original size:116 final size:116
Alignment explanation
Indices: 832651--832886 Score: 436
Period size: 116 Copynumber: 2.0 Consensus size: 116
832641 TTCTTGTGTA
* *
832651 AAGGGCCACACCCGATGAGTAACTGTCCTAAACTTGGTTCATTGTCCGCCATCATCGATCGTCAA
1 AAGGGCCACACCCGATGAGTAACTGTCCCAAACTTGGTTCATTGTCCACCATCATCGATCGTCAA
**
832716 AAAATGGAGTCTCAAGCAGAGATGGGGTTGCTTCAAATTCTAAATACCTTG
66 AAAACAGAGTCTCAAGCAGAGATGGGGTTGCTTCAAATTCTAAATACCTTG
832767 AAGGGCCACACCCGATGAGTAACTGTCCCAAACTTGGTTCATTGTCCACCATCATCGATCGTCAA
1 AAGGGCCACACCCGATGAGTAACTGTCCCAAACTTGGTTCATTGTCCACCATCATCGATCGTCAA
832832 AAAACAGAGTCTCAAGCAGAGATGGGGTTGCTTCAAATTCTAAATACCTTG
66 AAAACAGAGTCTCAAGCAGAGATGGGGTTGCTTCAAATTCTAAATACCTTG
832883 AAGG
1 AAGG
832887 CCAAGTCGTT
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (116 bp):
AAGGGCCACACCCGATGAGTAACTGTCCCAAACTTGGTTCATTGTCCACCATCATCGATCGTCAA
AAAACAGAGTCTCAAGCAGAGATGGGGTTGCTTCAAATTCTAAATACCTTG
Found at i:840173 original size:95 final size:95
Alignment explanation
Indices: 840040--840231 Score: 321
Period size: 95 Copynumber: 2.0 Consensus size: 95
840030 CTGTAACAAT
* *
840040 TTCATTTATTTAAGAGAATAATTATTATTCTTTAAAGAAGTATCTTTTTAAGGAAGAACATGTAA
1 TTCATTTATTTAAGAGAATAATTATTATTCTTTAAAGAACTATCTTTTTAAGGAAGAAAATGTAA
* *
840105 CTTAATACTTTGTTTAATTTCATTTTAAAG
66 CTTAATACTTTATATAATTTCATTTTAAAG
*
840135 TTCATTTATTTAAGAGAATAATTATTATTCTTTAAAGAACTATCTTTTTGAGGAAGAAAATGTAA
1 TTCATTTATTTAAGAGAATAATTATTATTCTTTAAAGAACTATCTTTTTAAGGAAGAAAATGTAA
* *
840200 CTTAATACTTTATATCATTTCATTTTCAAG
66 CTTAATACTTTATATAATTTCATTTTAAAG
840230 TT
1 TT
840232 ATGATAATTG
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.45
Consensus pattern (95 bp):
TTCATTTATTTAAGAGAATAATTATTATTCTTTAAAGAACTATCTTTTTAAGGAAGAAAATGTAA
CTTAATACTTTATATAATTTCATTTTAAAG
Found at i:841689 original size:20 final size:20
Alignment explanation
Indices: 841664--841701 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
841654 CTCGTTAACC
*
841664 TTGACCGTTGATTTTGACTG
1 TTGACCGTTGACTTTGACTG
841684 TTGACCGTTGACTTTGAC
1 TTGACCGTTGACTTTGAC
841702 CCAAAAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.42
Consensus pattern (20 bp):
TTGACCGTTGACTTTGACTG
Found at i:843310 original size:18 final size:19
Alignment explanation
Indices: 843286--843327 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
843276 AAAAATAGGA
*
843286 AAAATC-ATATATTTTGGT
1 AAAATCAATAAATTTTGGT
*
843304 TAAATCAATAAATTTTGGT
1 AAAATCAATAAATTTTGGT
843323 AAAAT
1 AAAAT
843328 GCATTTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (19 bp):
AAAATCAATAAATTTTGGT
Found at i:843990 original size:31 final size:31
Alignment explanation
Indices: 843955--844064 Score: 143
Period size: 31 Copynumber: 3.5 Consensus size: 31
843945 TAAGGCGACC
*
843955 CTTGGGTAGGCTCCGAGGCCCCGAGACCTTT
1 CTTGGGTAGGCTCCGAGGCCCCGAGAACTTT
* *
843986 CTTGGGTAGGCTCCGAGGCCCCAAGAATTTT
1 CTTGGGTAGGCTCCGAGGCCCCGAGAACTTT
*
844017 CTTGGGTAGGCT-CTATGGCCCCGAGATACTTT
1 CTTGGGTAGGCTCCGA-GGCCCCGAGA-ACTTT
*
844049 -TTGGGTAGGCACCGAG
1 CTTGGGTAGGCTCCGAG
844065 TAACTTTCTT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.03
31 60 0.88
32 6 0.09
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.25
Consensus pattern (31 bp):
CTTGGGTAGGCTCCGAGGCCCCGAGAACTTT
Found at i:850339 original size:55 final size:54
Alignment explanation
Indices: 850280--850910 Score: 467
Period size: 55 Copynumber: 11.6 Consensus size: 54
850270 TAATACTCAG
* * *
850280 AAAATCTTCTAAATACGAGTCCGCTCCTTCTTCTTTCAAAGAGTATAGGACTTGA
1 AAAATCTTC-AAAAACGGGTCCGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGA
* * * *
850335 AAAATCTTTGAAAAATGGGTCTGCT-C--CTTCTTTCAAGGAGTATAAGACTTGA
1 AAAATC-TTCAAAAACGGGTCCGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGA
* * * * *
850387 AATATCTTTGAAAAATGGGTCCGCTCC-T-TT-TTTCAATGAGTATAGGACTCGA
1 AAAATC-TTCAAAAACGGGTCCGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGA
* * * * * *
850439 AGAATCTTCGAAAAATGGGTCCGTTCTTTCTTCTATCAAGGAGTATAGGAC-TCA
1 AAAATCTTC-AAAAACGGGTCCGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGA
* * * *
850493 AACAATCTTCAGAAAACGGGTCTGCTCCCTCTTATTTCAGGGAGTATAGGACTTGA
1 AA-AATCTTCA-AAAACGGGTCCGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGA
* * * * * * * *
850549 AAATTCTTCGGAAAACAGGTCC-CCCCTCTCTTCTTTCAGGGAGAATAAGACTCGA
1 AAAATCTTC-AAAAACGGGTCCGCTCCT-TCTTCTTTCAAGGAGTATAGGACTTGA
* * * * * * *
850604 ACAATCTTCAGAAAATGAGTTCGCTCCCTCTTCTTTCAGGGAATATAGGACTTGA
1 AAAATCTTCA-AAAACGGGTCCGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGA
* ** * * *
850659 AAAATCTTCGTAAAATAGGTACACTCCTTCTTCTGTCAAGGAGTATAGGACTT-A
1 AAAATCTTC-AAAAACGGGTCCGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGA
**
850713 AACAATCTTCAGAAAACGGGTATGCTCGC-TCTTCTTT-AAGGGAGTATAGGACTTGA
1 AA-AATCTTCA-AAAACGGGTCCGCTC-CTTCTTCTTTCAA-GGAGTATAGGACTTGA
* * ** * * *
850769 AAAATCTTCAGAAAACAGGTTCTTTCCCTCTTCTTTCAGGGAGTATAGGACTCGA
1 AAAATCTTCA-AAAACGGGTCCGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGA
* * ** * *
850824 ACAATCTTCGAAAAATGGGTCAACTCCTTATTCTGTCAAGGAGTATAGGACTT-A
1 AAAATCTTC-AAAAACGGGTCCGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGA
* **
850878 AACAATCTTCGAAAAACGTGTTTGCTCCTTCTT
1 AA-AATCTTC-AAAAACGGGTCCGCTCCTTCTT
850911 GAACAATCTT
Statistics
Matches: 456, Mismatches: 96, Indels: 48
0.76 0.16 0.08
Matches are distributed among these distances:
51 2 0.00
52 85 0.19
53 4 0.01
54 17 0.04
55 333 0.73
56 15 0.03
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (54 bp):
AAAATCTTCAAAAACGGGTCCGCTCCTTCTTCTTTCAAGGAGTATAGGACTTGA
Found at i:850921 original size:34 final size:34
Alignment explanation
Indices: 850878--850944 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
850868 ATAGGACTTA
* * *
850878 AACAATCTTCGAAAAACGTGTTTGCTCCTTCTTG
1 AACAATCTTCGAAAAACGGGTCTGCTCCCTCTTG
850912 AACAATCTTCGAAAAACGGGTCTGCTCCCTCTT
1 AACAATCTTCGAAAAACGGGTCTGCTCCCTCTT
850945 CTTTCAGGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (34 bp):
AACAATCTTCGAAAAACGGGTCTGCTCCCTCTTG
Found at i:850975 original size:55 final size:56
Alignment explanation
Indices: 850908--851141 Score: 280
Period size: 55 Copynumber: 4.2 Consensus size: 56
850898 TTTGCTCCTT
* *
850908 CTTGAACAATCTTCGA-AAAACGGGTCTGCTCCCTCTTCTTTCAGGGACTATAGGA
1 CTTGAAAAATCTTCGAGAAAACGGGTCTGCTCCCTCTTCTTTCAGGGAATATAGGA
* * * * * *
850963 CTTGAAAAATCTT-TAGAAAATGGGTTTGGTCCCTCTTCTTTCAAGGATTATAGGA
1 CTTGAAAAATCTTCGAGAAAACGGGTCTGCTCCCTCTTCTTTCAGGGAATATAGGA
* ** * *
851018 CTTGAAATATCTTC-AGAAAACATGT-TCGCTCCCTCTTCTTTTAGGGAGTATAGGA
1 CTTGAAAAATCTTCGAGAAAACGGGTCT-GCTCCCTCTTCTTTCAGGGAATATAGGA
* * *
851073 CTTGAAAAATCTTCGA-AAAATGGGTCAGCTCCCTCTTCTTTCAGGGAATATAAGA
1 CTTGAAAAATCTTCGAGAAAACGGGTCTGCTCCCTCTTCTTTCAGGGAATATAGGA
851128 CTTGAAAAATCTTC
1 CTTGAAAAATCTTC
851142 TGAAGACGGG
Statistics
Matches: 151, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
54 2 0.01
55 148 0.98
56 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (56 bp):
CTTGAAAAATCTTCGAGAAAACGGGTCTGCTCCCTCTTCTTTCAGGGAATATAGGA
Found at i:850990 original size:89 final size:89
Alignment explanation
Indices: 850822--850999 Score: 207
Period size: 89 Copynumber: 2.0 Consensus size: 89
850812 TATAGGACTC
* * *
850822 GAACAATCTTCGAAAAATGGGTCAACTCCTTATTCTGTCAAGGAGTATAGGACTTAAACAATCTT
1 GAACAATCTTCGAAAAACGGGTCAACTCCCTATTCTGTCAAGGACTATAGGACTTAAACAATCTT
* * *
850887 CGAAAAACGTGTTTGCTCCTTCTT
66 AGAAAAACGGGTTTGCTCCCTCTT
** * * *
850911 GAACAATCTTCGAAAAACGGGTCTGCTCCCTCTTCTTTCAGGGACTATAGGACTTGAAA-AATCT
1 GAACAATCTTCGAAAAACGGGTCAACTCCCTATTCTGTCAAGGACTATAGGACTT-AAACAATC-
* *
850975 TTAG-AAAATGGGTTTGGTCCCTCTT
64 TTAGAAAAACGGGTTTGCTCCCTCTT
851000 CTTTCAAGGA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
89 68 0.92
90 6 0.08
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (89 bp):
GAACAATCTTCGAAAAACGGGTCAACTCCCTATTCTGTCAAGGACTATAGGACTTAAACAATCTT
AGAAAAACGGGTTTGCTCCCTCTT
Found at i:851030 original size:144 final size:144
Alignment explanation
Indices: 850793--851054 Score: 332
Period size: 144 Copynumber: 1.8 Consensus size: 144
850783 ACAGGTTCTT
* * * *
850793 TCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCGAAAAATGGGTCAACTCCTTATTCT
1 TCCCTCTTCTTTCAGGGACTATAGGACTCGAAAAATCTTAGAAAAATGGGTCAACTCCCTATTCT
* * *
850858 GTCAAGGAGTATAGGACTTAAACAATCTTC-GAAAAACGTGTTTGCTCCTTCTTGAACAATCTTC
66 GTCAAGGAGTATAGGACTTAAACAATCTTCAG-AAAACATGTTCGCTCCCTCTTGAACAATCTTC
850922 GAAAAACGGGTCTGC
130 GAAAAACGGGTCTGC
* **** *
850937 TCCCTCTTCTTTCAGGGACTATAGGACTTGAAAAATCTTTAG-AAAATGGGTTTGGTCCCTCTTC
1 TCCCTCTTCTTTCAGGGACTATAGGACTCGAAAAATC-TTAGAAAAATGGGTCAACTCCCTATTC
* * *
851001 TTTCAAGGATTATAGGACTTGAAA-TATCTTCAGAAAACATGTTCGCTCCCTCTT
65 TGTCAAGGAGTATAGGACTT-AAACAATCTTCAGAAAACATGTTCGCTCCCTCTT
851055 CTTTTAGGGA
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
144 92 0.93
145 7 0.07
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (144 bp):
TCCCTCTTCTTTCAGGGACTATAGGACTCGAAAAATCTTAGAAAAATGGGTCAACTCCCTATTCT
GTCAAGGAGTATAGGACTTAAACAATCTTCAGAAAACATGTTCGCTCCCTCTTGAACAATCTTCG
AAAAACGGGTCTGC
Found at i:851068 original size:199 final size:199
Alignment explanation
Indices: 850713--851092 Score: 502
Period size: 199 Copynumber: 1.9 Consensus size: 199
850703 ATAGGACTTA
* *
850713 AACAATCTTCAGAAAACGGGTATGCTCGCTCTTCTTTAAGGGAGTATAGGACTTGAAAAATCTTC
1 AACAATCTTCAGAAAACGGGTATGCTCCCTCTTCTTTAAGGGACTATAGGACTTGAAAAATCTTC
* *
850778 AGAAAACAGGTTCTTTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCGAAAAATGGG
66 AGAAAACAGGTTCTGTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCGAAAAATGGG
*
850843 TCAACTCCTTATTCTGTCAAGGAGTATAGGACTT-AAACAATCTTCGAAAAACGTGTTTGCTCCT
131 TCAACTCCCTATTCTGTCAAGGAGTATAGGACTTGAAA-AATCTTCGAAAAACGTGTTTGCTCCT
850907 TCTTG
195 TCTTG
* *
850912 AACAATCTTC-GAAAAACGGGTCTGCTCCCTCTTCTTTCAGGGACTATAGGACTTGAAAAATCTT
1 AACAATCTTCAG-AAAACGGGTATGCTCCCTCTTCTTTAAGGGACTATAGGACTTGAAAAATCTT
* ** * *
850976 TAGAAAATGGGTT-TGGTCCCTCTTCTTTCAAGGATTATAGGACTTGAA-ATATCTTCAGAAAAC
65 CAGAAAACAGGTTCT-GTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACA-ATCTTC-GAAAA-
* * * * * *
851039 AT-GTTC-GCTCCCTCTTCTTTTAGGGAGTATAGGACTTGAAAAATCTTCGAAAAA
126 ATGGGTCAACTCCCTATTCTGTCAAGGAGTATAGGACTTGAAAAATCTTCGAAAAA
851093 TGGGTCAGCT
Statistics
Matches: 157, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
198 3 0.02
199 141 0.90
200 11 0.07
201 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (199 bp):
AACAATCTTCAGAAAACGGGTATGCTCCCTCTTCTTTAAGGGACTATAGGACTTGAAAAATCTTC
AGAAAACAGGTTCTGTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCGAAAAATGGG
TCAACTCCCTATTCTGTCAAGGAGTATAGGACTTGAAAAATCTTCGAAAAACGTGTTTGCTCCTT
CTTG
Found at i:851141 original size:254 final size:254
Alignment explanation
Indices: 850682--851141 Score: 656
Period size: 254 Copynumber: 1.8 Consensus size: 254
850672 AATAGGTACA
* * *
850682 CTCCTTCTTCTGTCAAGGAGTATAGGACTTAAACAATCTTCAGAAAACGGGTATGCTCGCTCTTC
1 CTCCCTCTTCTGTCAAGGACTATAGGACTTAAACAATCTTCAGAAAACGGGTATGCTCCCTCTTC
**
850747 TTTAAGGGAGTATAGGACTTGAAAAATCTTCAGAAAACAGGTTCTTTCCCTCTTCTTTCAGGGAG
66 TTTAAGGGAGTATAGGACTTGAAAAATCTTCAGAAAACAGGTTCGCTCCCTCTTCTTTCAGGGAG
* * * *
850812 TATAGGACTCGAACAATCTTCGAAAAATGGGTCAACTCCTTATTCTGTCAAGGAGTATAGGACTT
131 TATAGGACTCGAAAAATCTTCGAAAAATGGGTCAACTCCCTATTCTGTCAAGGAATATAAGACTT
850877 AAACAATCTTCGAAAAACGTGTTTGCTCCTTCTTGAACAATCTTCGAAAAACGGGTCTG
196 AAACAATCTTCGAAAAACGTGTTTGCTCCTTCTTGAACAATCTTCGAAAAACGGGTCTG
* * * * * *
850936 CTCCCTCTTCTTTCAGGGACTATAGGACTTGAAA-AATCTTTAGAAAATGGGTTTGGTCCCTCTT
1 CTCCCTCTTCTGTCAAGGACTATAGGACTT-AAACAATCTTCAGAAAACGGGTATGCTCCCTCTT
* * * *
851000 CTTTCAA-GGATTATAGGACTTGAAATATCTTCAGAAAACATGTTCGCTCCCTCTTCTTTTAGGG
65 CTTT-AAGGGAGTATAGGACTTGAAAAATCTTCAGAAAACAGGTTCGCTCCCTCTTCTTTCAGGG
* * * * *
851064 AGTATAGGACTTGAAAAATCTTCGAAAAATGGGTCAGCTCCCTCTTCTTTCAGGGAATATAAGAC
129 AGTATAGGACTCGAAAAATCTTCGAAAAATGGGTCAACTCCCTATTCTGTCAAGGAATATAAGAC
851129 TTGAAA-AATCTTC
194 TT-AAACAATCTTC
851142 TGAAGACGGG
Statistics
Matches: 179, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
254 171 0.96
255 8 0.04
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (254 bp):
CTCCCTCTTCTGTCAAGGACTATAGGACTTAAACAATCTTCAGAAAACGGGTATGCTCCCTCTTC
TTTAAGGGAGTATAGGACTTGAAAAATCTTCAGAAAACAGGTTCGCTCCCTCTTCTTTCAGGGAG
TATAGGACTCGAAAAATCTTCGAAAAATGGGTCAACTCCCTATTCTGTCAAGGAATATAAGACTT
AAACAATCTTCGAAAAACGTGTTTGCTCCTTCTTGAACAATCTTCGAAAAACGGGTCTG
Found at i:856833 original size:26 final size:26
Alignment explanation
Indices: 856797--856900 Score: 176
Period size: 26 Copynumber: 4.1 Consensus size: 26
856787 TCCATCAATT
856797 TCACAATTATGATAATGACATGTACC
1 TCACAATTATGATAATGACATGTACC
856823 TCACAATTATGATAATGACATGTACC
1 TCACAATTATGATAATGACATGTACC
* *
856849 TTATAATTATGATAATGACATGTACC
1 TCACAATTATGATAATGACATGTACC
856875 TCACAATTATGATAATGAC--GTACC
1 TCACAATTATGATAATGACATGTACC
856899 TC
1 TC
856901 TTCACTAATA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
24 7 0.09
26 67 0.91
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.33
Consensus pattern (26 bp):
TCACAATTATGATAATGACATGTACC
Found at i:860759 original size:43 final size:42
Alignment explanation
Indices: 860662--860938 Score: 423
Period size: 42 Copynumber: 6.5 Consensus size: 42
860652 AAGGTCTTGT
* *
860662 CCTTGCACATAGCAAA-AGAGCCTGGGGAAACTGTAA-GCTTAC
1 CCTTGCACACAGCAAAGGGA-CCT-GGGAAACTGTAAGGCTTAC
860704 CCTTGCACACAGCAAAGGGACCTGGGGAAACTGTAAGGCTTAC
1 CCTTGCACACAGCAAAGGGACCT-GGGAAACTGTAAGGCTTAC
*
860747 CATTGCACACAGCAAAGGGACCTAGGGAAACTGTAAGGCTTAC
1 CCTTGCACACAGCAAAGGGACCT-GGGAAACTGTAAGGCTTAC
*
860790 CCTTGCACACAGCAAATGGACCTGGGAAACTGTAAGGCTTAC
1 CCTTGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTAC
860832 CCTTGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTAC
1 CCTTGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTAC
* *
860874 CCTTGCACACAGCAAAGGGACATGAGAAACTGTAAGGCTTAC
1 CCTTGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTAC
* * *
860916 CATTGCACACAACAAAGGAACCT
1 CCTTGCACACAGCAAAGGGACCT
860939 ACTGTAACGG
Statistics
Matches: 220, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
42 150 0.68
43 70 0.32
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.17
Consensus pattern (42 bp):
CCTTGCACACAGCAAAGGGACCTGGGAAACTGTAAGGCTTAC
Found at i:863412 original size:30 final size:31
Alignment explanation
Indices: 863375--863500 Score: 186
Period size: 31 Copynumber: 4.1 Consensus size: 31
863365 GAACCTCGGC
863375 AACTGTCCATAGGTCCCGACA-AACCTAGGTA
1 AACTGTCCATAGGTCCCGA-AGAACCTAGGTA
863406 AA-TGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
863436 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
* * *
863467 AACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTGTCCATAGGTCCCGAAGA-ACCTAGGTA
863498 AAC
1 AAC
863501 CCTCGACTCT
Statistics
Matches: 89, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.01
30 29 0.33
31 59 0.66
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAGAACCTAGGTA
Found at i:863448 original size:61 final size:62
Alignment explanation
Indices: 863375--863500 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 62
863365 GAACCTCGGC
*
863375 AACTGTCCATAGGTCCCGACA-AACCTAGGTAAA-TGTCCATAGGTCCCG-AAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGA-AGAACCTAGGTAAACTGTCCATAGGTCCCGAAAG-ACATAGGTA
* *
863436 AACTGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATATGTCTCGAAAGACATAGGTA
1 AACTGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATAGGTCCCGAAAGACATAGGTA
863498 AAC
1 AAC
863501 CCTCGACTCT
Statistics
Matches: 59, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
60 1 0.02
61 31 0.53
62 24 0.41
63 3 0.05
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (62 bp):
AACTGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATAGGTCCCGAAAGACATAGGTA
Found at i:864101 original size:20 final size:22
Alignment explanation
Indices: 864076--864133 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
864066 TTCCCCTTGA
864076 AGTGCATCGATGCATGC-T-AC
1 AGTGCATCGATGCATGCTTAAC
*
864096 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATGC-TTAAC
864119 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
864134 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (22 bp):
AGTGCATCGATGCATGCTTAAC
Found at i:864199 original size:64 final size:63
Alignment explanation
Indices: 864121--864261 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 63
864111 TCTTTAACAT
* *
864121 GTGCATCGATGCACTACC-CATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAGG
1 GTGCATCGATGCACT-CCTCATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * * * *
864184 GATGCATCGATGCACTCCTTATGCATCGATGCACCATTTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTCCTCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
864248 GTGCATCGATGCAC
1 GTGCATCGATGCAC
864262 ATTGAATGTG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 21 0.31
64 46 0.69
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:867271 original size:31 final size:30
Alignment explanation
Indices: 867233--867336 Score: 181
Period size: 31 Copynumber: 3.4 Consensus size: 30
867223 CAACCTCGGC
867233 AACTGTCCATAGGTCCCAACGAACCTAGGTA
1 AACTGTCCATAGGTCCCAA-GAACCTAGGTA
867264 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCCC-AAGAACCTAGGTA
867295 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATAGGTCCC-AAGAACCTAGGTA
867326 AACTGTCCATA
1 AACTGTCCATA
867337 TGTCTCGAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
31 69 0.97
32 2 0.03
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (30 bp):
AACTGTCCATAGGTCCCAAGAACCTAGGTA
Found at i:867304 original size:62 final size:62
Alignment explanation
Indices: 867233--867359 Score: 202
Period size: 62 Copynumber: 2.0 Consensus size: 62
867223 CAACCTCGGC
* *
867233 AACTGTCCATAGGTCCCAACGAACCTAGGTAAACTGTCCATAGGTCCCG-AAGAACCTAGGTA
1 AACTGTCCATAGGTCCCAAAGAACCTAGGTAAACTGTCCATAGGTCCCGAAAG-ACATAGGTA
* *
867295 AACTGTCCATAGGTCCCAAAGAACCTAGGTAAACTGTCCATATGTCTCGAAAGACATAGGTA
1 AACTGTCCATAGGTCCCAAAGAACCTAGGTAAACTGTCCATAGGTCCCGAAAGACATAGGTA
867357 AAC
1 AAC
867360 CCTCGACACT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
62 57 0.95
63 3 0.05
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (62 bp):
AACTGTCCATAGGTCCCAAAGAACCTAGGTAAACTGTCCATAGGTCCCGAAAGACATAGGTA
Found at i:867355 original size:31 final size:31
Alignment explanation
Indices: 867233--867359 Score: 177
Period size: 31 Copynumber: 4.1 Consensus size: 31
867223 CAACCTCGGC
* *
867233 AACTGTCCATAGGTCCCAACGAACCTAGGTA
1 AACTGTCCATAGGTCCGAAAGAACCTAGGTA
867264 AACTGTCCATAGGTCCCG-AAGAACCTAGGTA
1 AACTGTCCATAGGT-CCGAAAGAACCTAGGTA
*
867295 AACTGTCCATAGGTCCCAAAGAACCTAGGTA
1 AACTGTCCATAGGTCCGAAAGAACCTAGGTA
* *
867326 AACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATAGGTC-CGAAAGAACCTAGGTA
867357 AAC
1 AAC
867360 CCTCGACACT
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.02
31 78 0.90
32 7 0.08
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (31 bp):
AACTGTCCATAGGTCCGAAAGAACCTAGGTA
Found at i:868052 original size:64 final size:63
Alignment explanation
Indices: 867980--868119 Score: 158
Period size: 64 Copynumber: 2.2 Consensus size: 63
867970 CTTTAACATG
* *
867980 TGCATCGATGCACTACC-CATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAGGG
1 TGCATCGATGCACT-CCTCATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAA-GA
868043 A
63 A
* * * * * *
868044 TGCATCGATGCACTCCTTATGCATCGATGCACCATTTGCATTCGATGTTTCTTCTTTAAAGAA
1 TGCATCGATGCACTCCTCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGAA
*
868107 GGCATCGATGCAC
1 TGCATCGATGCAC
868120 ATTGAATGTG
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
63 21 0.32
64 44 0.68
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (63 bp):
TGCATCGATGCACTCCTCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGAA
Found at i:872460 original size:42 final size:42
Alignment explanation
Indices: 872171--872460 Score: 447
Period size: 42 Copynumber: 6.8 Consensus size: 42
872161 GCAAAAACGA
* * *
872171 TAAGGTCTTATCCTTGCACATAGCAAA-AGAGCCTGGGGAAACTG
1 TAAGG-CTTACCCTTGCACACAGCAAAGGGA-CCT-GGGAAACTG
872215 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCT-GGGAAACTG
872258 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTAGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCT-GGGAAACTG
* *
872301 TAAGGCTTACCCTTGCATACAGCAAAGGGACTTGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAACTG
*
872343 TAAGGCTTACCCTTGCACACAGAAAAGGGACCTGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAACTG
872385 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAACTG
* * *
872427 TAAGGCTTACCATTGCACACAACAAAGGAACCTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
872461 CTGTAACGGT
Statistics
Matches: 232, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
42 120 0.52
43 105 0.45
44 7 0.03
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.18
Consensus pattern (42 bp):
TAAGGCTTACCCTTGCACACAGCAAAGGGACCTGGGAAACTG
Found at i:875260 original size:13 final size:13
Alignment explanation
Indices: 875242--875271 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
875232 ACCAGTCAAC
*
875242 GGTCAACGGGTCG
1 GGTCAACGGGTAG
875255 GGTCAACGGGTAG
1 GGTCAACGGGTAG
875268 GGTC
1 GGTC
875272 GGGTCGGGTT
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:0.17, C:0.20, G:0.47, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTAG
Found at i:879978 original size:32 final size:32
Alignment explanation
Indices: 879908--879980 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
879898 CCTAAGGTTA
*
879908 CCCTTGGGTAGGCTCTAAGGCCCCGAGGAACT
1 CCCTTGGGTAGGCTCTAAGGCCCCAAGGAACT
** * *
879940 TTCTTGGGTAGGCTCTCAGGCCCCAAGGCACT
1 CCCTTGGGTAGGCTCTAAGGCCCCAAGGAACT
879972 CCCTTGGGT
1 CCCTTGGGT
879981 TAATCACGAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.15, C:0.32, G:0.30, T:0.23
Consensus pattern (32 bp):
CCCTTGGGTAGGCTCTAAGGCCCCAAGGAACT
Found at i:882774 original size:29 final size:31
Alignment explanation
Indices: 882736--882810 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 31
882726 AATTTTGGAA
* *
882736 TAGTGACCAAAATGTAAA-TTT-TGAAAGTT
1 TAGTGGCCAAAATGTAAACTTTGTAAAAGTT
882765 TAGTGGCC-AAA-GTAAAACTTTGTAAAAGTT
1 TAGTGGCCAAAATGT-AAACTTTGTAAAAGTT
882795 TAGTGG-CAAAAGTGTA
1 TAGTGGCCAAAA-TGTA
882811 CTTTTCAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 2 0.05
28 6 0.16
29 11 0.29
30 16 0.42
31 1 0.03
32 2 0.05
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (31 bp):
TAGTGGCCAAAATGTAAACTTTGTAAAAGTT
Found at i:882814 original size:29 final size:30
Alignment explanation
Indices: 882759--882823 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
882749 GTAAATTTTG
*
882759 AAAGTTTAGTGGCCAAAGTAAAACTTTGT-A
1 AAAGTTTAGTGGCAAAAGTAAAACTTT-TCA
**
882789 AAAGTTTAGTGGCAAAAGT-GTACTTTTCA
1 AAAGTTTAGTGGCAAAAGTAAAACTTTTCA
882818 AAAGTT
1 AAAGTT
882824 ATATATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 12 0.39
30 18 0.58
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.32
Consensus pattern (30 bp):
AAAGTTTAGTGGCAAAAGTAAAACTTTTCA
Found at i:884029 original size:20 final size:20
Alignment explanation
Indices: 884004--884041 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
883994 TTGTAATTGA
884004 ATGTTAGAATA-TTGATTTTG
1 ATGTTAGAA-AGTTGATTTTG
884024 ATGTTAGAAAGTTGATTT
1 ATGTTAGAAAGTTGATTT
884042 GTATCGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (20 bp):
ATGTTAGAAAGTTGATTTTG
Found at i:884613 original size:2 final size:2
Alignment explanation
Indices: 884606--884634 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
884596 TCTTACTTAT
884606 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
884635 TATGAGGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:885187 original size:61 final size:64
Alignment explanation
Indices: 885079--885238 Score: 188
Period size: 63 Copynumber: 2.5 Consensus size: 64
885069 TGTTATAATA
* * * *
885079 ATATGTAGTTCTTAAAAA-ATATAATATATATATATATATATAGTTTTTT-AATATATATATATA
1 ATATATAGTTTTTAAAAAGATAT-ATATATATATATACATA-A-TTTTTTAAATATATACATATA
885142 T-
63 TG
*
885143 A-ATATAGTTTTT-GAAAGTATATATATATATATATACATAATTTTTTAAAATATATACATATAT
1 ATATATAGTTTTTAAAAAG-ATATATATATATATATACATAATTTTTT-AAATATATACATATAT
885206 G
64 G
885207 ATATATAGTTTTTAAAAAGATATATA-ATATAT
1 ATATATAGTTTTTAAAAAGATATATATATATAT
885239 TTAAAAATAT
Statistics
Matches: 83, Mismatches: 6, Indels: 14
0.81 0.06 0.14
Matches are distributed among these distances:
61 6 0.07
62 4 0.05
63 39 0.47
64 12 0.14
65 18 0.22
66 4 0.05
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (64 bp):
ATATATAGTTTTTAAAAAGATATATATATATATATACATAATTTTTTAAATATATACATATATG
Found at i:885197 original size:2 final size:2
Alignment explanation
Indices: 885097--885177 Score: 53
Period size: 2 Copynumber: 40.5 Consensus size: 2
885087 TTCTTAAAAA
* *
885097 AT AT A- AT AT AT AT AT AT AT AT AT AGT -T TT TT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* * *
885137 AT AT AT A- AT AT AGT TT TT GAA AGT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT A-T AT AT -AT A-T AT AT AT AT AT AT AT AT A
885178 CATAATTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
1 4 0.06
2 59 0.89
3 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Done.