Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008526.1 Hibiscus syriacus cultivar Beakdansim tig00111398_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: 3043201
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 12
Found at i:663327 original size:34 final size:33
Alignment explanation
Indices: 663284--663373 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 33
663274 GGGCTGAGTA
*
663284 TATATATATATATTTAAATTAAATATATAA-ATAT
1 TATATATATATATATAAATTAAAT-TA-AATATAT
* *
663318 TATATATATATATATATATTAAATTAAATTTAT
1 TATATATATATATATAAATTAAATTAAATATAT
663351 TAATATATATATATATATAATTA
1 T-ATATATATATATATA-AATTA
663374 TTTTTAATAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
32 2 0.04
33 6 0.12
34 37 0.76
35 4 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
TATATATATATATATAAATTAAATTAAATATAT
Found at i:663491 original size:29 final size:30
Alignment explanation
Indices: 663449--663523 Score: 116
Period size: 29 Copynumber: 2.5 Consensus size: 30
663439 ACTCGTCCCC
663449 TCCCCGTCCCCGTTTAGCATAAAC-AGTTT
1 TCCCCGTCCCCGTTTAGCATAAACAAGTTT
*
663478 TCCCCGTCCCCGTTTAGCATAAACAATTTT
1 TCCCCGTCCCCGTTTAGCATAAACAAGTTT
* *
663508 TTCCCGTCCCCATTTA
1 TCCCCGTCCCCGTTTA
663524 ATTCGGTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 24 0.57
30 18 0.43
ACGTcount: A:0.20, C:0.36, G:0.11, T:0.33
Consensus pattern (30 bp):
TCCCCGTCCCCGTTTAGCATAAACAAGTTT
Found at i:668683 original size:16 final size:17
Alignment explanation
Indices: 668651--668685 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
668641 TATTTTAATT
668651 ATATATTATTAAACTAA
1 ATATATTATTAAACTAA
*
668668 ATATTTTATT-AACTAA
1 ATATATTATTAAACTAA
668684 AT
1 AT
668686 TTAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATATTATTAAACTAA
Found at i:670863 original size:46 final size:46
Alignment explanation
Indices: 670796--670888 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
670786 TTAGTACGAT
670796 GGTCTATTAGTAATTTATGGATACTTGGATTCCATCTCATTGTCAA
1 GGTCTATTAGTAATTTATGGATACTTGGATTCCATCTCATTGTCAA
670842 GGTCTATTAGTAATTTATGGATACTTGGATTCCATCTCATTGTCAA
1 GGTCTATTAGTAATTTATGGATACTTGGATTCCATCTCATTGTCAA
670888 G
1 G
670889 TATCAATACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (46 bp):
GGTCTATTAGTAATTTATGGATACTTGGATTCCATCTCATTGTCAA
Found at i:679967 original size:74 final size:76
Alignment explanation
Indices: 679864--680073 Score: 252
Period size: 74 Copynumber: 2.8 Consensus size: 76
679854 GACCGTTGAA
*
679864 CAGGGGGGAATCGGTACC-CCT-TGGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCG
1 CAGGGGGGAATCGGTTCCTCCTAT--GGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCG
**
679927 GAACAAAAATGTT
64 GAACAAAAACATT
* *
679940 TA-GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTA-TGGAAATCTCGG
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCA-TACTGGAATTCTCGG
* * *
680002 AGCCAAACCATT
65 AACAAAAACATT
*
680014 CAGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA-ATCTGGAATT
1 CAGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATA-CTGGAATT
680074 TTTGGCTTTG
Statistics
Matches: 115, Mismatches: 11, Indels: 15
0.82 0.08 0.11
Matches are distributed among these distances:
74 43 0.37
75 38 0.33
76 4 0.03
77 30 0.26
ACGTcount: A:0.22, C:0.23, G:0.32, T:0.23
Consensus pattern (76 bp):
CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
ACAAAAACATT
Found at i:682732 original size:20 final size:20
Alignment explanation
Indices: 682703--682740 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
682693 CCCCTTCAAA
*
682703 GGGGGAATCGGTTCCCTCAG
1 GGGGGAATCGATTCCCTCAG
*
682723 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
682741 TGCACCAAAA
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:0.13, C:0.26, G:0.39, T:0.21
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAG
Found at i:688595 original size:75 final size:75
Alignment explanation
Indices: 688492--688701 Score: 264
Period size: 75 Copynumber: 2.8 Consensus size: 75
688482 GACCGTTGAA
*
688492 CAGGGGGGAATCGGTACC-CCTTGGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 CAGGGGGGAATCGGTTCCTCCTT-GGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
**
688556 ACAAAAATGTT
65 ACAAAAACATT
* * *
688567 TAGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGA
1 CAGGGGGGAATCGGTTCCTCCT-TGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
* * *
688631 GCCAAACCATT
65 ACAAAAACATT
*
688642 CAGGGGGGAATCGGTTCCTCCTGTGGGGGGGAATCGGTTCCCTCTGAGCA-ATCTGGAATT
1 CAGGGGGGAATCGGTTCCTCCT-T-GGGGGGAATCGGTTCCCTCCGAGCATA-CTGGAATT
688702 TTTGGCTTTG
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
75 82 0.71
76 3 0.03
77 31 0.27
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.23
Consensus pattern (75 bp):
CAGGGGGGAATCGGTTCCTCCTTGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
CAAAAACATT
Found at i:700708 original size:41 final size:41
Alignment explanation
Indices: 700651--700732 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
700641 AAACTTGAAG
700651 TTAGTACATTTTTGTATTTACTGGTTTGATAAGGAAGGTCA
1 TTAGTACATTTTTGTATTTACTGGTTTGATAAGGAAGGTCA
700692 TTAGTACATTTTTGTATTTACTGGTTTGATAAGGAAGGTCA
1 TTAGTACATTTTTGTATTTACTGGTTTGATAAGGAAGGTCA
700733 CCTGCTCAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (41 bp):
TTAGTACATTTTTGTATTTACTGGTTTGATAAGGAAGGTCA
Found at i:718064 original size:35 final size:34
Alignment explanation
Indices: 717979--718065 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 34
717969 ATTTGGTATT
*
717979 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
*
718013 TAAATGATAATC-AAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAA-CAAAATTACAATAA--GA-ATTAAATGG
718051 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
718066 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
34 6 0.13
35 22 0.49
36 2 0.04
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:718662 original size:18 final size:18
Alignment explanation
Indices: 718639--718674 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
718629 GCGATGGTGA
*
718639 CATCATATATAGCTGCGG
1 CATCATAAATAGCTGCGG
*
718657 CATCATAAATGGCTGCGG
1 CATCATAAATAGCTGCGG
718675 TGGCTGCTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (18 bp):
CATCATAAATAGCTGCGG
Found at i:720348 original size:17 final size:18
Alignment explanation
Indices: 720305--720345 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
720295 GAATTATATT
720305 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
720322 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
720340 ATTAAA
1 AGTAAA
720346 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:726251 original size:24 final size:23
Alignment explanation
Indices: 726224--726279 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
726214 CAAATAAGAT
*
726224 ATCAGAACAGAATCCAGATCATAA
1 ATCAGAACAAAATCCAGATCA-AA
* * *
726248 ATCAGAACAAAATTCATATCAGA
1 ATCAGAACAAAATCCAGATCAAA
726271 ATCAGAACA
1 ATCAGAACA
726280 TAATTCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.18
Consensus pattern (23 bp):
ATCAGAACAAAATCCAGATCAAA
Found at i:726297 original size:47 final size:48
Alignment explanation
Indices: 726205--726300 Score: 113
Period size: 47 Copynumber: 2.0 Consensus size: 48
726195 CAGAAAATAA
* * *
726205 AACAGAATTCAAATAAGATATCAGAACAGAATCCAGATCATAAATCAG
1 AACAAAATTCAAATAAGATATCAGAACAGAATCCAAATCAGAAATCAG
* * * * *
726253 AACAAAATTCATATCAGA-ATCAGAACATAATTCAAATCGGAAATCAG
1 AACAAAATTCAAATAAGATATCAGAACAGAATCCAAATCAGAAATCAG
726300 A
1 A
726301 TAAAACAATC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 25 0.62
48 15 0.38
ACGTcount: A:0.52, C:0.17, G:0.11, T:0.20
Consensus pattern (48 bp):
AACAAAATTCAAATAAGATATCAGAACAGAATCCAAATCAGAAATCAG
Found at i:731722 original size:82 final size:82
Alignment explanation
Indices: 731585--731749 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 82
731575 AGTTTTTTGT
*
731585 GTGTTAATAATCTTAATAATGCATTGCATGCAGGCCGTAATAAAGTCAGTCTCAAAGAGTTATTT
1 GTGTTAATAATCTTAATAATGCATTGCAGGCAGGCCGTAATAAAGTCAGTCTCAAAGAGTTATTT
731650 GCAAATGAGCTTTCATA
66 GCAAATGAGCTTTCATA
731667 GTGTTAATAATCTTAATAATGCATTGCAGGCAGGCCGTAATAAAGTCAGTCTCAAAGAGTTATTT
1 GTGTTAATAATCTTAATAATGCATTGCAGGCAGGCCGTAATAAAGTCAGTCTCAAAGAGTTATTT
731732 GCAAATGAGCTTTCATA
66 GCAAATGAGCTTTCATA
731749 G
1 G
731750 GATCAACTCT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (82 bp):
GTGTTAATAATCTTAATAATGCATTGCAGGCAGGCCGTAATAAAGTCAGTCTCAAAGAGTTATTT
GCAAATGAGCTTTCATA
Found at i:733860 original size:51 final size:51
Alignment explanation
Indices: 733800--733896 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
733790 ATTTAACCTT
*
733800 TGAATATGACACATTACGAATAGGGAATAATTTAGAAAAATGTTAAATGAA
1 TGAATATGACACATTACGAATAGGGAATAATTTAGAAAAAGGTTAAATGAA
* **
733851 TGAATATGACACGTTGTGAATAGGGAATAATTTAGAAAAAGGTTAA
1 TGAATATGACACATTACGAATAGGGAATAATTTAGAAAAAGGTTAA
733897 GGGAGAGAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (51 bp):
TGAATATGACACATTACGAATAGGGAATAATTTAGAAAAAGGTTAAATGAA
Found at i:734185 original size:24 final size:24
Alignment explanation
Indices: 734150--734203 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
734140 AGAGAAAGAG
734150 AAGAGA-TCGAGAGAGGGAACGGGA
1 AAGAGAGT-GAGAGAGGGAACGGGA
* * *
734174 TAGAGAGTGAGATATGGAACGGGA
1 AAGAGAGTGAGAGAGGGAACGGGA
734198 AAGAGA
1 AAGAGA
734204 AAGAGATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.43, C:0.06, G:0.43, T:0.09
Consensus pattern (24 bp):
AAGAGAGTGAGAGAGGGAACGGGA
Found at i:734209 original size:24 final size:24
Alignment explanation
Indices: 734165--734210 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
734155 ATCGAGAGAG
* **
734165 GGAACGGGATAGAGAGTGAGATAT
1 GGAACGGGAAAGAGAAAGAGATAT
734189 GGAACGGGAAAGAGAAAGAGAT
1 GGAACGGGAAAGAGAAAGAGAT
734211 CGCTTGAGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.04, G:0.41, T:0.11
Consensus pattern (24 bp):
GGAACGGGAAAGAGAAAGAGATAT
Found at i:746969 original size:11 final size:11
Alignment explanation
Indices: 746953--746986 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
746943 ACCCAAGTTT
746953 TATTTTATTAA
1 TATTTTATTAA
746964 TA-TTT-TTAA
1 TATTTTATTAA
746973 TATTTTATTAA
1 TATTTTATTAA
746984 TAT
1 TAT
746987 ATTAAATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 6 0.29
10 6 0.29
11 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:747590 original size:58 final size:57
Alignment explanation
Indices: 747422--747592 Score: 164
Period size: 58 Copynumber: 2.9 Consensus size: 57
747412 TTCTAATTGA
* * * * * **
747422 AATTATGATCAATTTGATAAAATATGTAAGTAATGAGGAGTAAATGTGTTATGGTCCT
1 AATTAGGATCAAATTAAT-AAATATGTAAGTAATGAGTACTAAATGTGTTATTATCCT
* *
747480 AATTAGGATCAAATTAATATAATATGTAAATAAT-TGTGACTAAATGTGTTATTATCCT
1 AATTAGGATCAAATTAATA-AATATGTAAGTAATGAGT-ACTAAATGTGTTATTATCCT
* ** * * *
747538 AATTAGGATTATGTTTATAACATATGTAAGTAATGAGTACAAAATTTGTTATTAT
1 AATTAGGATCAAATTAATAA-ATATGTAAGTAATGAGTACTAAATGTGTTATTAT
747593 ATAAATTTGT
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
57 3 0.03
58 87 0.95
59 2 0.02
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.39
Consensus pattern (57 bp):
AATTAGGATCAAATTAATAAATATGTAAGTAATGAGTACTAAATGTGTTATTATCCT
Found at i:749667 original size:18 final size:17
Alignment explanation
Indices: 749629--749667 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
749619 TAAAGTTATA
* *
749629 ATTAATTTTAATACATG
1 ATTAATTTTAATAAATC
749646 ATTAATTTTAAATAAATC
1 ATTAATTTT-AATAAATC
749664 ATTA
1 ATTA
749668 TACTTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (17 bp):
ATTAATTTTAATAAATC
Found at i:750822 original size:35 final size:35
Alignment explanation
Indices: 750783--750853 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
750773 AATACGCTCA
750783 AATAGCATTATTTAAAAAATAACCCTAAACTATCG
1 AATAGCATTATTTAAAAAATAACCCTAAACTATCG
750818 AATAGCATTATTTAAAAAATAACCCTAAACTATCG
1 AATAGCATTATTTAAAAAATAACCCTAAACTATCG
750853 A
1 A
750854 CGTAGAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.49, C:0.17, G:0.06, T:0.28
Consensus pattern (35 bp):
AATAGCATTATTTAAAAAATAACCCTAAACTATCG
Found at i:751766 original size:79 final size:79
Alignment explanation
Indices: 751682--751833 Score: 250
Period size: 79 Copynumber: 1.9 Consensus size: 79
751672 GGTTAAAGAA
751682 AAAAATTCGATTAATTCAGTTCAGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACC
1 AAAAATTCGATTAATTCAGTTCAGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACC
751747 GAATTAATCGAAAC
66 GAATTAATCGAAAC
* * ** * *
751761 AAAAATTCGGTTAATTTAGTTTGGTTAATTGAACCAAAATTTATTTGAAAATTATTAACCGAACT
1 AAAAATTCGATTAATTCAGTTCAGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACC
751826 GAATTAAT
66 GAATTAAT
751834 TTAAAAATTA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (79 bp):
AAAAATTCGATTAATTCAGTTCAGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCGAACC
GAATTAATCGAAAC
Found at i:751840 original size:29 final size:29
Alignment explanation
Indices: 751798--751861 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
751788 ATTGAACCAA
* * * * *
751798 AATTTATTTGAAAATTATTAACCGAACTG
1 AATTAATTTAAAAATTATTAAACAAACCG
751827 AATTAATTTAAAAATTATTAAACAAACCG
1 AATTAATTTAAAAATTATTAAACAAACCG
751856 AATTAA
1 AATTAA
751862 CCGATTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.34
Consensus pattern (29 bp):
AATTAATTTAAAAATTATTAAACAAACCG
Found at i:751957 original size:98 final size:100
Alignment explanation
Indices: 751827--752068 Score: 276
Period size: 109 Copynumber: 2.3 Consensus size: 100
751817 AACCGAACTG
* * * *
751827 AATTAATTTAAAAATTATTAAACAAACCGAATTAACCGA-TTTTTT-A-ATT-ATTAATTGAAGC
1 AATTTATTTGAAAATTATT-AACGAACTGAATTAACCGATTTTTTTAATATTAATTAATTGAAG-
* *
751888 AAAACTTTGGTTAATTCGACTTGGTTAATCGAACCAA
64 AAAAATTCGGTTAATTCGACTTGGTTAATCGAACCAA
*
751925 AATTTATTTGAAAATTATTAACTGAACTGAATTAACTGATTTTTTTTAAATTATTAACCGAATTA
1 AATTTATTTGAAAATTATTAAC-GAACTGAATTAACCGA-TTTTTTT-AA-TATT-----AATTA
*
751990 ATTGAAGAAAAATTCGGTTAATTCGATTTGGTTAATCGAACCAA
57 ATTGAAGAAAAATTCGGTTAATTCGACTTGGTTAATCGAACCAA
752034 AATTTATTTGAAAATTATTAACCGAACTGAATTAA
1 AATTTATTTGAAAATTATTAA-CGAACTGAATTAA
752069 TTTGAAAATT
Statistics
Matches: 122, Mismatches: 8, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
97 3 0.02
98 30 0.25
100 6 0.05
102 1 0.01
104 3 0.02
109 67 0.55
110 12 0.10
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (100 bp):
AATTTATTTGAAAATTATTAACGAACTGAATTAACCGATTTTTTTAATATTAATTAATTGAAGAA
AAATTCGGTTAATTCGACTTGGTTAATCGAACCAA
Found at i:752022 original size:236 final size:238
Alignment explanation
Indices: 751743--752183 Score: 730
Period size: 236 Copynumber: 1.9 Consensus size: 238
751733 TTATTAACCG
* *
751743 AACCGAATTAATCGAAACAAAAATTCGGTTAATTTAGTTTGGTTAATTGAACCAAAATTTATTTG
1 AACCGAATTAATCGAAACAAAAATTCGGTTAATTGAGTTTGGTTAATCGAACCAAAATTTATTTG
751808 AAAATTATTAACCGAACTGAATTAATTTAAAAATTATTAAAC-AAACCGAATTAACCGA-TTTTT
66 AAAATTATTAACCGAACTGAATTAATTTAAAAATTATT-AACTAAACCGAATTAACCGATTTTTT
* * * *
751871 TAATTATTAATTGAAGCAAAACTTTGGTTAATTC-GACTTGGTTAATCGAACCAAAATTTATTTG
130 TAATTATTAATCGAAGCAAAACTTCGGTTAATTCAG-CTCGATTAATCGAACCAAAATTTATTTG
751935 AAAATTATTAACTGAACTGAATTAACTGATTTTTTTTAAATTATT
194 AAAATTATTAACTGAACTGAATTAACTGATTTTTTTTAAATTATT
* *
751980 AACCGAATTAATTG-AAGAAAAATTCGGTTAATTCGA-TTTGGTTAATCGAACCAAAATTTATTT
1 AACCGAATTAATCGAAACAAAAATTCGGTTAATT-GAGTTTGGTTAATCGAACCAAAATTTATTT
* *
752043 GAAAATTATTAACCGAACTGAATTAATTTGAAAATTATTAACTAAACCGAATTAACGGATTTTTT
65 GAAAATTATTAACCGAACTGAATTAATTTAAAAATTATTAACTAAACCGAATTAACCGATTTTTT
752108 TAATTATTAATCGAAGCAAAACTTCGGTTAATTCAGCTCGATTAATCGAACCAAAATTTATTTGA
130 TAATTATTAATCGAAGCAAAACTTCGGTTAATTCAGCTCGATTAATCGAACCAAAATTTATTTGA
752173 AAATTATTAAC
195 AAATTATTAAC
752184 CTAACCAAAT
Statistics
Matches: 190, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
235 3 0.02
236 97 0.51
237 89 0.47
238 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (238 bp):
AACCGAATTAATCGAAACAAAAATTCGGTTAATTGAGTTTGGTTAATCGAACCAAAATTTATTTG
AAAATTATTAACCGAACTGAATTAATTTAAAAATTATTAACTAAACCGAATTAACCGATTTTTTT
AATTATTAATCGAAGCAAAACTTCGGTTAATTCAGCTCGATTAATCGAACCAAAATTTATTTGAA
AATTATTAACTGAACTGAATTAACTGATTTTTTTTAAATTATT
Found at i:752094 original size:29 final size:29
Alignment explanation
Indices: 752034--752097 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
752024 ATCGAACCAA
* * *
752034 AATTTATTTGAAAATTATTAACCGAACTG
1 AATTAATTTGAAAATTATTAACCAAACCG
*
752063 AATTAATTTGAAAATTATTAACTAAACCG
1 AATTAATTTGAAAATTATTAACCAAACCG
752092 AATTAA
1 AATTAA
752098 CGGATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (29 bp):
AATTAATTTGAAAATTATTAACCAAACCG
Found at i:752153 original size:128 final size:128
Alignment explanation
Indices: 751986--752364 Score: 573
Period size: 128 Copynumber: 3.0 Consensus size: 128
751976 TATTAACCGA
* *
751986 ATTAATTGAAG-AAAAATTCGGTTAATTC-GATTTGGTTAATCGAACCAAAATTTATTTGAAAAT
1 ATTAATCGAAGCAAAAATTCGGTTAATTCAG-TTCGGTTAATCGAACCAAAATTTATTTGAAAAT
* ** *
752049 TATTAACCGAACTGAATTAATTTGAAAATTATTAACTAAACCGAATTAACGGATTTTTTTAATT
65 TATTAACCTAACTGAATTAATTTGAAAATTATTAACCGAACCGAATTAACCGATTTTTTTAATT
* * *
752113 ATTAATCGAAGCAAAACTTCGGTTAATTCAGCTCGATTAATCGAACCAAAATTTATTTGAAAATT
1 ATTAATCGAAGCAAAAATTCGGTTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATT
** * * *
752178 ATTAACCTAACCAAATTAATTTGAAAATTGTTAACCGAACCGATTTAACTGATTTTTTTAATT
66 ATTAACCTAACTGAATTAATTTGAAAATTATTAACCGAACCGAATTAACCGATTTTTTTAATT
* * *
752241 ATTAATCGAAGCAAAAATTCGGTTAATTCAGTTCGGTTAATCAAACTAAAATTTATCTGAAAATT
1 ATTAATCGAAGCAAAAATTCGGTTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATT
*
752306 ATTAACCTAACTGAATTAATTTGAAAATTATTCACCGAACCGAATTAACCGATTTTTTT
66 ATTAACCTAACTGAATTAATTTGAAAATTATTAACCGAACCGAATTAACCGATTTTTTT
752365 CTTTAACCAT
Statistics
Matches: 225, Mismatches: 25, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
127 10 0.04
128 214 0.95
129 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (128 bp):
ATTAATCGAAGCAAAAATTCGGTTAATTCAGTTCGGTTAATCGAACCAAAATTTATTTGAAAATT
ATTAACCTAACTGAATTAATTTGAAAATTATTAACCGAACCGAATTAACCGATTTTTTTAATT
Found at i:752202 original size:29 final size:30
Alignment explanation
Indices: 752148--752218 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
752138 ATTCAGCTCG
* *
752148 ATTAATCGAACCAAAATTTATTTGAAAATT
1 ATTAACCGAACCAAAATTAATTTGAAAATT
*
752178 ATTAACCTAACC-AAATTAATTTGAAAATT
1 ATTAACCGAACCAAAATTAATTTGAAAATT
*
752207 GTTAACCGAACC
1 ATTAACCGAACC
752219 GATTTAACTG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 26 0.72
30 10 0.28
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (30 bp):
ATTAACCGAACCAAAATTAATTTGAAAATT
Found at i:752330 original size:29 final size:29
Alignment explanation
Indices: 752298--752353 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
752288 AAAATTTATC
* *
752298 TGAAAATTATTAACCTAACTGAATTAATT
1 TGAAAATTATTAACCGAACCGAATTAATT
*
752327 TGAAAATTATTCACCGAACCGAATTAA
1 TGAAAATTATTAACCGAACCGAATTAA
752354 CCGATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (29 bp):
TGAAAATTATTAACCGAACCGAATTAATT
Found at i:752918 original size:30 final size:30
Alignment explanation
Indices: 752884--752942 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
752874 AGAATATGTA
*
752884 AATATTAAGGATCAAATATATAATTATGCC
1 AATATTAAGGACCAAATATATAATTATGCC
*
752914 AATATTATGGACCAAATATATAATTATGC
1 AATATTAAGGACCAAATATATAATTATGC
752943 AAATTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (30 bp):
AATATTAAGGACCAAATATATAATTATGCC
Found at i:761506 original size:16 final size:16
Alignment explanation
Indices: 761482--761515 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
761472 TATCGCCGAC
*
761482 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
761498 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
761514 CG
1 CG
761516 TTAATAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.32
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:770545 original size:23 final size:22
Alignment explanation
Indices: 770519--770593 Score: 57
Period size: 23 Copynumber: 3.4 Consensus size: 22
770509 TGGCTACCAG
770519 ACTCACGCACAGCAGCATAACAA
1 ACTCA-GCACAGCAGCATAACAA
* * *
770542 ACTCAGTA-AG-TG-ATTAGCAA
1 ACTCAGCACAGCAGCA-TAACAA
* *
770562 ACTCACGCACAGCAGCTTAACAG
1 ACTCA-GCACAGCAGCATAACAA
770585 ACTCAGCAC
1 ACTCAGCAC
770594 GAGATGCATT
Statistics
Matches: 39, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
19 1 0.03
20 11 0.28
21 4 0.10
22 8 0.21
23 15 0.38
ACGTcount: A:0.39, C:0.31, G:0.16, T:0.15
Consensus pattern (22 bp):
ACTCAGCACAGCAGCATAACAA
Found at i:771160 original size:22 final size:22
Alignment explanation
Indices: 771135--771198 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
771125 AAAAAATAAA
771135 AAATGAACATATAAGGAACGCT
1 AAATGAACATATAAGGAACGCT
* * *
771157 AAATAAACACTA-AACGAATGCT
1 AAATGAACA-TATAAGGAACGCT
771179 AAATGAACATATAAGCGAAC
1 AAATGAACATATAAG-GAAC
771199 ATGTAACAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.06
22 26 0.79
23 5 0.15
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.17
Consensus pattern (22 bp):
AAATGAACATATAAGGAACGCT
Found at i:772599 original size:2 final size:2
Alignment explanation
Indices: 772592--772633 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
772582 CAATTATAAA
772592 AT AT 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 AT AT
772634 TTCTGATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:779613 original size:2 final size:2
Alignment explanation
Indices: 779606--779635 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
779596 AAAATATGAA
779606 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
779636 GATAGCTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:780045 original size:12 final size:12
Alignment explanation
Indices: 780028--780077 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
780018 TTCACAAAGA
780028 TTTATATTTAAT
1 TTTATATTTAAT
780040 TTTATA-TTATAT
1 TTTATATTTA-AT
*
780052 TTGAT-TTTAAT
1 TTTATATTTAAT
780063 TTTA-ATATTAAT
1 TTTATAT-TTAAT
780075 TTT
1 TTT
780078 TTAAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 9 0.28
12 23 0.72
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (12 bp):
TTTATATTTAAT
Found at i:780185 original size:21 final size:21
Alignment explanation
Indices: 780139--780195 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 21
780129 TATTAATTTT
*
780139 TTAAATTTATTTTATATCATA
1 TTAAAATTATTTTATATCATA
780160 -T-AAATTATTTTATAT-ATTA
1 TTAAAATTATTTTATATCA-TA
780179 TTAAAATTTATATTTAT
1 TTAAAA-TTAT-TTTAT
780196 TTTAATTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 1 0.03
19 15 0.50
20 2 0.07
21 3 0.10
22 4 0.13
23 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAAATTATTTTATATCATA
Found at i:780690 original size:17 final size:17
Alignment explanation
Indices: 780668--780714 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
780658 GTTTAAAAAA
780668 TCAGTTTATTTTATATT
1 TCAGTTTATTTTATATT
780685 TCAGTTTATTTTATATT
1 TCAGTTTATTTTATATT
780702 TCAGTTTATTTTA
1 TCAGTTTATTTTA
780715 GCAGTCTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.64
Consensus pattern (17 bp):
TCAGTTTATTTTATATT
Found at i:785572 original size:23 final size:23
Alignment explanation
Indices: 785546--785597 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
785536 GATTAAAAAA
785546 TATTATAAATAT-TAATTATATAT
1 TATTATAAATATATAATTA-ATAT
* * *
785569 TATTATTATTATATCATTAATAT
1 TATTATAAATATATAATTAATAT
785592 TATTAT
1 TATTAT
785598 TACATTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TATTATAAATATATAATTAATAT
Found at i:785578 original size:20 final size:21
Alignment explanation
Indices: 785545--785599 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
785535 GGATTAAAAA
* * *
785545 ATATTATAAATATTA-ATTAT
1 ATATTATTATTATTATATCAT
785565 ATATTATTATTATTATATCAT
1 ATATTATTATTATTATATCAT
*
785586 -TAATATTATTATTA
1 ATATTATTATTATTA
785600 CATTTTGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATTATTATTATTATATCAT
Found at i:785587 original size:17 final size:16
Alignment explanation
Indices: 785553--785597 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
785543 AAATATTATA
785553 AATATTAATTATATATT
1 AATATT-ATTATATATT
*
785570 ATTATTATTATATCATT
1 AATATTATTATAT-ATT
785587 AATATTATTAT
1 AATATTATTAT
785598 TACATTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
AATATTATTATATATT
Found at i:785603 original size:17 final size:16
Alignment explanation
Indices: 785553--785603 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
785543 AAATATTATA
*
785553 AATATTAATTATATATT
1 AATATT-ATTATACATT
*
785570 ATTATTATTATATCATT
1 AATATTATTATA-CATT
785587 AATATTATTATTACATT
1 AATATTATTA-TACATT
785604 TTGTTGCAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 6 0.21
17 21 0.72
18 2 0.07
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (16 bp):
AATATTATTATACATT
Found at i:787301 original size:2 final size:2
Alignment explanation
Indices: 787289--787324 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
787279 GAAATCTTTC
787289 TA TA T- 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 T
787325 TGTATAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:790097 original size:6 final size:6
Alignment explanation
Indices: 790086--790126 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
790076 ATCGATACCT
790086 TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA TCTTTGCA TTT
1 TTTGCA TTTGCA TTTGCA TTTGCA TTTGCA --TTTGCA TTT
790127 TTACGTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.15, C:0.17, G:0.15, T:0.54
Consensus pattern (6 bp):
TTTGCA
Found at i:795565 original size:54 final size:54
Alignment explanation
Indices: 795422--795570 Score: 178
Period size: 54 Copynumber: 2.7 Consensus size: 54
795412 TGTGTTTTTC
* * *
795422 AGAAACTAAGTCCGATTTTTCGAAAGTTTCTTGATCATTTCAAATGAGTTTTCAG
1 AGAAACTAAGTCTGA-TTTTCGAAAGTTTCTTGATGATTTCAAATGAGTTTTCAA
* *
795477 AGAAA-TAAGTCTGATTTTCAAAAGTTTCTCGATGATTTTCAAAT-ATGTTTT-AA
1 AGAAACTAAGTCTGATTTTCGAAAGTTTCTTGATGA-TTTCAAATGA-GTTTTCAA
* *
795530 AGAAACTAAGTTTGATTTTCGGAAGTTTCTTGATGAATTTC
1 AGAAACTAAGTCTGATTTTCGAAAGTTTCTTGATG-ATTTC
795571 GAAGAAATTA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
53 25 0.31
54 50 0.62
55 6 0.07
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (54 bp):
AGAAACTAAGTCTGATTTTCGAAAGTTTCTTGATGATTTCAAATGAGTTTTCAA
Found at i:795695 original size:90 final size:92
Alignment explanation
Indices: 795592--795786 Score: 333
Period size: 91 Copynumber: 2.2 Consensus size: 92
795582 CCCTAATTTT
**
795592 TAGGATGTTTTCAAATGAGATTTAAGAAACTAAGCCTTC-GGGGGTTTCTTGATTTGTAAGTCTT
1 TAGGATGTTTTCAAATGAGATTTAAGAAACTAAGCCTTCAGGGGGTTTCTTGATTTGTAAGTCCC
* *
795656 TCGGGCCATCTATAAGACCTTCAGTGC
66 TCGGGCAATCCATAAGACCTTCAGTGC
795683 -AGGATGTTTTCAAATGAGATTTAAGAAACTAAGCCTTCAGGGGGTTTCTTGATTTGTAAGTCCC
1 TAGGATGTTTTCAAATGAGATTTAAGAAACTAAGCCTTCAGGGGGTTTCTTGATTTGTAAGTCCC
795747 TCGGGCAATCCATAAGACCTTCAGTGC
66 TCGGGCAATCCATAAGACCTTCAGTGC
795774 TA-GATGTTTTCAA
1 TAGGATGTTTTCAA
795787 TATTTTCGTT
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
90 38 0.39
91 59 0.60
92 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (92 bp):
TAGGATGTTTTCAAATGAGATTTAAGAAACTAAGCCTTCAGGGGGTTTCTTGATTTGTAAGTCCC
TCGGGCAATCCATAAGACCTTCAGTGC
Found at i:796042 original size:136 final size:136
Alignment explanation
Indices: 795798--796600 Score: 1193
Period size: 136 Copynumber: 5.9 Consensus size: 136
795788 ATTTTCGTTG
* * *
795798 CTCGATTCACGATATTTTGAATCAGTGACGACTCGCTTGAGGAATTGACATTTCCAATGGAGAGT
1 CTCGATTCACGATATTTCGAATCAGTGACGTCTCGCTTGAGGGATTGACATTTCCAATGGAGAGT
* * **
795863 TTATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTTAAC
66 TCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGAC
795928 CTATCA
131 CTATCA
** * *
795934 CTCGATTCACGGCATTTCGAATCAGTGACGTCTCGCTTGAGCGATTGACATTTTCAATGGAGAGT
1 CTCGATTCACGATATTTCGAATCAGTGACGTCTCGCTTGAGGGATTGACATTTCCAATGGAGAGT
* *
795999 TCATAGTGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGTTTGTTCGAC
66 TCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGAC
796064 CTATCA
131 CTATCA
* * * *
796070 CTCGATTCACGGTATTTCGAATCAGTGACGTCTCGTTTGAGGGATCGACATTTTCAATGGAGAGT
1 CTCGATTCACGATATTTCGAATCAGTGACGTCTCGCTTGAGGGATTGACATTTCCAATGGAGAGT
* *
796135 TCATAATGAGAAGAACTCATCCGACAAAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGAT
66 TCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGAC
796200 CTATCA
131 CTATCA
* * * *
796206 CTCTATTCACGATATTTCGAATCAGTGACGCCTCGTTTGAGGGATTGACATTTCCAATTGAGAGT
1 CTCGATTCACGATATTTCGAATCAGTGACGTCTCGCTTGAGGGATTGACATTTCCAATGGAGAGT
* *
796271 TCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCTAC
66 TCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGAC
796336 CTATCA
131 CTATCA
* * *
796342 CTCGATTAACGATATTTCGAATCAGTGACGCCTCGCTTGAGGGATTGACATTTCTAATGGAGAGT
1 CTCGATTCACGATATTTCGAATCAGTGACGTCTCGCTTGAGGGATTGACATTTCCAATGGAGAGT
* *
796407 TCATAATGAAAAGAACTCATCTGACAGAGGGAGAAGAAGTTCATAATGAGTAA-AGCTTGTTCGA
66 TCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAG-AAGAGCTTGTTCGA
796471 CCTATCA
130 CCTATCA
* * ** * * * *
796478 CTCAATTCATGGCATTTTGAATCAGTGACATCTCACTTGAGGGATTGACATTTCCAATGAAGAGT
1 CTCGATTCACGATATTTCGAATCAGTGACGTCTCGCTTGAGGGATTGACATTTCCAATGGAGAGT
* * *
796543 TCATAATGAGAAGAACTTATCC-A-A-AGAGA-AAGAAGTTCATAATGAGAAGAACTTGTTC
66 TCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
796601 AATCCAACAC
Statistics
Matches: 609, Mismatches: 56, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
131 2 0.00
132 25 0.04
133 4 0.01
134 1 0.00
135 1 0.00
136 574 0.94
137 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (136 bp):
CTCGATTCACGATATTTCGAATCAGTGACGTCTCGCTTGAGGGATTGACATTTCCAATGGAGAGT
TCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGAC
CTATCA
Found at i:796589 original size:18 final size:18
Alignment explanation
Indices: 796540--796590 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
796530 TCCAATGAAG
796540 AGTTCATAATGAG-AAGA
1 AGTTCATAATGAGAAAGA
* *
796557 ACTT-ATCCAAAGAGAAAGA
1 AGTTCAT--AATGAGAAAGA
796576 AGTTCATAATGAGAA
1 AGTTCATAATGAGAA
796591 GAACTTGTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
16 2 0.08
17 3 0.12
18 12 0.46
19 7 0.27
20 2 0.08
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.22
Consensus pattern (18 bp):
AGTTCATAATGAGAAAGA
Found at i:796819 original size:17 final size:17
Alignment explanation
Indices: 796769--796813 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
796759 AACTATTATA
*
796769 AATATTAATGATAT-ATT
1 AATATT-ATTATATCATT
*
796786 ATTATTATTATATCATT
1 AATATTATTATATCATT
796803 AATATTATTAT
1 AATATTATTAT
796814 TACATTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (17 bp):
AATATTATTATATCATT
Found at i:798795 original size:8 final size:8
Alignment explanation
Indices: 798782--798820 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
798772 ATGTGAATAT
798782 TTTTATTA
1 TTTTATTA
798790 TTTTATTA
1 TTTTATTA
**
798798 TTCAATATA
1 TTTTAT-TA
798807 TTTTATTA
1 TTTTATTA
798815 TTTTAT
1 TTTTAT
798821 GTAAAGGACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTTATTA
Found at i:799179 original size:16 final size:17
Alignment explanation
Indices: 799148--799185 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
799138 GCAGACCAAC
* *
799148 TTTTGTCTTAAAAATTG
1 TTTTTTCTTAAAAATTA
799165 TTTTTTCTT-AAAATTA
1 TTTTTTCTTAAAAATTA
799181 TTTTT
1 TTTTT
799186 AAAAGACGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (17 bp):
TTTTTTCTTAAAAATTA
Found at i:801851 original size:3 final size:3
Alignment explanation
Indices: 801843--801898 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
801833 GTCTTGAGGT
801843 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
801891 TTA TTA TT
1 TTA TTA TT
801899 CGTTTCACAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:805930 original size:30 final size:29
Alignment explanation
Indices: 805896--805955 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
805886 CCTAAATTAA
* *
805896 TTTGATGTCATTGCTTAAATTTAATTTAGT
1 TTTGATATCATTGCTTAAA-TCAATTTAGT
*
805926 TTTGATATCATTGCTTACATCAATTTAGT
1 TTTGATATCATTGCTTAAATCAATTTAGT
805955 T
1 T
805956 AGGTGAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.52
Consensus pattern (29 bp):
TTTGATATCATTGCTTAAATCAATTTAGT
Found at i:810584 original size:29 final size:29
Alignment explanation
Indices: 810550--810608 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
810540 CCTAAATTAA
*
810550 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGCCATTGCTTACATCAATTTAGT
810579 TTTGATGCCATTGCTTACATCAATTTAGT
1 TTTGATGCCATTGCTTACATCAATTTAGT
810608 T
1 T
810609 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (29 bp):
TTTGATGCCATTGCTTACATCAATTTAGT
Found at i:812517 original size:3 final size:3
Alignment explanation
Indices: 812509--812566 Score: 93
Period size: 3 Copynumber: 19.7 Consensus size: 3
812499 TTCAAAATTA
812509 ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
812554 ATT ATT A-T ATT AT
1 ATT ATT ATT ATT AT
812567 AGTACATATT
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.08
3 45 0.87
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:813612 original size:28 final size:28
Alignment explanation
Indices: 813572--813644 Score: 128
Period size: 28 Copynumber: 2.6 Consensus size: 28
813562 ATTTTGAATT
*
813572 TGTGAAATTTTTACCTATCTTTATAATA
1 TGTGATATTTTTACCTATCTTTATAATA
*
813600 TGTGATATTTTTACCTATCTTTATAATT
1 TGTGATATTTTTACCTATCTTTATAATA
813628 TGTGATATTTTTACCTA
1 TGTGATATTTTTACCTA
813645 AATTTTGTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.53
Consensus pattern (28 bp):
TGTGATATTTTTACCTATCTTTATAATA
Found at i:813874 original size:31 final size:32
Alignment explanation
Indices: 813839--813912 Score: 125
Period size: 31 Copynumber: 2.4 Consensus size: 32
813829 TTATTTTGAC
813839 CACTCAACTTTA-CTTTTAATTTTGTTTTAGT
1 CACTCAACTTTACCTTTTAATTTTGTTTTAGT
*
813870 CACTCAAC-TTACCTTTTATTTTTGTTTTAGT
1 CACTCAACTTTACCTTTTAATTTTGTTTTAGT
813901 CACTCAACTTTA
1 CACTCAACTTTA
813913 AAAAAAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 3 0.08
31 34 0.85
32 3 0.08
ACGTcount: A:0.23, C:0.20, G:0.05, T:0.51
Consensus pattern (32 bp):
CACTCAACTTTACCTTTTAATTTTGTTTTAGT
Found at i:815380 original size:20 final size:21
Alignment explanation
Indices: 815342--815383 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
815332 CTTTTAAATA
* *
815342 TTATTTTAAAAATTGATTTTT
1 TTATTTGAAAAAATGATTTTT
815363 TTATTTGAAAAAAT-ATTTTT
1 TTATTTGAAAAAATGATTTTT
815383 T
1 T
815384 ATAAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TTATTTGAAAAAATGATTTTT
Found at i:820744 original size:26 final size:26
Alignment explanation
Indices: 820688--820752 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
820678 TTCATCACTC
* *
820688 ATAAATTTTTATAAGTTTATATCTAT
1 ATAAAATTTTATAAATTTATATCTAT
* *
820714 TTAAAATTTTATAAATTTATCCTCTA-
1 ATAAAATTTTATAAATTTAT-ATCTAT
*
820740 ATAAAAATTTATA
1 ATAAAATTTTATA
820753 TGTATGTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (26 bp):
ATAAAATTTTATAAATTTATATCTAT
Found at i:822417 original size:29 final size:29
Alignment explanation
Indices: 822375--822431 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
822365 AGTGTTGGCC
*
822375 GTAGGTCGCCATGCACTCCGGGCGACCTT
1 GTAGGTCGCCATGCACTCCAGGCGACCTT
822404 GTAGGTCGCCATGCACTCCAGGCGACCT
1 GTAGGTCGCCATGCACTCCAGGCGACCT
822432 ACCCTTGCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.35, G:0.30, T:0.19
Consensus pattern (29 bp):
GTAGGTCGCCATGCACTCCAGGCGACCTT
Found at i:822523 original size:29 final size:29
Alignment explanation
Indices: 822490--822574 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
822480 TCCCAACACA
*
822490 TAGGTCGCCATGCCCTCAAGGTGACCTTG
1 TAGGTCGCCATGCCCTCAAGGCGACCTTG
**
822519 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCAAGGCGACCTTG
* **
822548 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCCCTCAAGGCGACCT
822575 ACCCTCGCTC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.14, C:0.35, G:0.29, T:0.21
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCAAGGCGACCTTG
Found at i:822619 original size:33 final size:33
Alignment explanation
Indices: 822578--822664 Score: 156
Period size: 33 Copynumber: 2.6 Consensus size: 33
822568 GCGACCTACC
*
822578 CTCGCTCGGCTGCCCTCGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATTCCCTCGCATAG
*
822611 CTCGCTCGGTTGCCCTTGGATTCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATTCCCTCGCATAG
822644 CTCGCTCGGTTGCCCTCGGAT
1 CTCGCTCGGTTGCCCTCGGAT
822665 AGCTCGTTCG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.08, C:0.39, G:0.25, T:0.28
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATTCCCTCGCATAG
Found at i:822685 original size:23 final size:23
Alignment explanation
Indices: 822628--822685 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
822618 GGTTGCCCTT
* *
822628 GGATTCCCTCGCATAGCTCGCTC
1 GGATGCCCTCGGATAGCTCGCTC
* *
822651 GGTTGCCCTCGGATAGCTCGTTC
1 GGATGCCCTCGGATAGCTCGCTC
*
822674 GGATGGCCTCGG
1 GGATGCCCTCGG
822686 TCGGATGGCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.26
Consensus pattern (23 bp):
GGATGCCCTCGGATAGCTCGCTC
Found at i:822689 original size:14 final size:14
Alignment explanation
Indices: 822667--822699 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
822657 CCTCGGATAG
*
822667 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
822681 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
822695 CTCGG
1 CTCGG
822700 ATGCTCTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:822699 original size:10 final size:11
Alignment explanation
Indices: 822658--822752 Score: 76
Period size: 10 Copynumber: 8.7 Consensus size: 11
822648 CTCGGTTGCC
*
822658 CTCGGATAGCT
1 CTCGGATGGCT
822669 CGTTCGGATGGCCT
1 C--TCGGATGG-CT
822683 CGGTCGGATGGC-
1 C--TCGGATGGCT
822695 CTCGGAT-GCT
1 CTCGGATGGCT
822705 CTCGGAT-GCT
1 CTCGGATGGCT
*
822715 CTCAGATGGC-
1 CTCGGATGGCT
*
822725 CTCAGAT-GCT
1 CTCGGATGGCT
822735 CTCGGATGGC-
1 CTCGGATGGCT
822745 CTCGGATG
1 CTCGGATG
822753 CTCAGCGTGT
Statistics
Matches: 73, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
9 4 0.05
10 43 0.59
11 5 0.07
12 1 0.01
13 8 0.11
14 12 0.16
ACGTcount: A:0.13, C:0.28, G:0.34, T:0.25
Consensus pattern (11 bp):
CTCGGATGGCT
Found at i:822711 original size:20 final size:20
Alignment explanation
Indices: 822686--822755 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
822676 ATGGCCTCGG
822686 TCGGATGGC-CTCGGAT-GCTC
1 TCGGAT-GCTCTCGGATGGC-C
*
822706 TCGGATGCTCTCAGATGGCC
1 TCGGATGCTCTCGGATGGCC
*
822726 TCAGATGCTCTCGGATGGCC
1 TCGGATGCTCTCGGATGGCC
822746 TCGGATGCTC
1 TCGGATGCTC
822756 AGCGTGTTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.05
20 40 0.91
21 2 0.05
ACGTcount: A:0.13, C:0.30, G:0.31, T:0.26
Consensus pattern (20 bp):
TCGGATGCTCTCGGATGGCC
Found at i:822829 original size:29 final size:29
Alignment explanation
Indices: 822792--822849 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
822782 GCAATCTCTT
*
822792 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
* * *
822821 GTAGGTCGCCCGGAAGGCATGTCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
822850 CGGCCAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.22, C:0.28, G:0.34, T:0.16
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGGCGACCTA
Found at i:823799 original size:20 final size:20
Alignment explanation
Indices: 823733--824018 Score: 257
Period size: 20 Copynumber: 14.5 Consensus size: 20
823723 CGATTTTCCA
* ** *
823733 AAATCGCAACGCGAATATGA
1 AAATCGCAACGTGAATCCGT
* * *
823753 AAATCGCAACGCGAA-ACAT
1 AAATCGCAACGTGAATCCGT
*
823772 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGTGAATCCGT
* * *
823792 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
*
823812 AAATCGCATGCGT--ATCCGT
1 AAATCGCA-ACGTGAATCCGT
* *
823831 --ATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGT
823849 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
823869 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
823889 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
823909 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
823929 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
823949 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
823969 AAATCGCAACGAT-AATCCGT
1 AAATCGCAACG-TGAATCCGT
* *
823989 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGTGAATCCGT
*
824009 AAATCACAAC
1 AAATCGCAAC
824019 ACTGAAATTT
Statistics
Matches: 221, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
16 2 0.01
17 6 0.03
18 6 0.03
19 20 0.09
20 185 0.84
21 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGTGAATCCGT
Found at i:823891 original size:40 final size:40
Alignment explanation
Indices: 823753--824018 Score: 355
Period size: 40 Copynumber: 6.8 Consensus size: 40
823743 GCGAATATGA
* * * *
823753 AAATCGCAACGCGAAAC-ATAAATCGCAACG-TGTATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGAT-AATCCGT
* * * * *
823792 ATATCGCAACGCGTATCCGTAAATCGCATGCG-T-ATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCA-ACGATAATCCGT
* * *
823831 --ATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
823869 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
823909 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
823949 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
*
823989 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCTGTAAATCGCAAC
824019 ACTGAAATTT
Statistics
Matches: 211, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
36 2 0.01
37 27 0.13
38 6 0.03
39 20 0.09
40 153 0.73
41 3 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
Found at i:823916 original size:60 final size:60
Alignment explanation
Indices: 823753--824018 Score: 294
Period size: 60 Copynumber: 4.5 Consensus size: 60
823743 GCGAATATGA
* * * * * *
823753 AAATCGCAACGCGAA-ACATAAATCGCAACG-TGTATCCGTATATCGCAACGCGT-ATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAT-AATCCGTAAATCGCAACG-ATAATCCGT
* * * *
823812 AAATCGC-ATGCGTATCCGT--ATCGCAACGCGT-ATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGTAAATCGCAACGATAATCCGT
* * *
823869 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGATAATCCGT
* * *
823929 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGATAATCCGT
* *
823989 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
824019 ACTGAAATTT
Statistics
Matches: 177, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
56 1 0.01
57 38 0.21
58 13 0.07
59 11 0.06
60 114 0.64
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGTAAATCGCAACGATAATCCGT
Found at i:824736 original size:24 final size:24
Alignment explanation
Indices: 824697--824743 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
824687 AAATTTGGTC
824697 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
824721 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
824744 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:824935 original size:12 final size:12
Alignment explanation
Indices: 824918--824942 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
824908 ATATAATCCT
824918 GAAGAAGAAAAA
1 GAAGAAGAAAAA
824930 GAAGAAGAAAAA
1 GAAGAAGAAAAA
824942 G
1 G
824943 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:826998 original size:19 final size:19
Alignment explanation
Indices: 826974--827038 Score: 87
Period size: 19 Copynumber: 3.4 Consensus size: 19
826964 TAGTTTACTT
* *
826974 TCGCAACACGAAACTTAAA
1 TCGCAACGCGAAACTAAAA
*
826993 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
827012 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
827031 TCGCAACG
1 TCGCAACG
827039 ACAGAATCGC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:827056 original size:33 final size:33
Alignment explanation
Indices: 827010--827102 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
827000 GCGAAACCAA
827010 AATCGCAACGCGAAATGAAAATCGCAAC-GACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGGA-AG
*
827043 AATCGCAATGCGAAATGAAAATCGCAACGGAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGGAAG
827076 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
827103 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 55 0.96
34 2 0.04
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGGAAG
Found at i:827067 original size:19 final size:19
Alignment explanation
Indices: 826990--827107 Score: 121
Period size: 19 Copynumber: 6.7 Consensus size: 19
826980 CACGAAACTT
**
826990 AAATCGCAACGCGAAACCA
1 AAATCGCAACGCGAAATGA
827009 AAATCGCAACGCGAAATGA
1 AAATCGCAACGCGAAATGA
*
827028 AAATCGCAA--CGACA-G-
1 AAATCGCAACGCGAAATGA
*
827043 -AATCGCAATGCGAAATGA
1 AAATCGCAACGCGAAATGA
827061 AAATCGCAACG-G-AA-G-
1 AAATCGCAACGCGAAATGA
827076 -AATCGCAACGCGAAATGA
1 AAATCGCAACGCGAAATGA
*
827094 AAATCGCAATGCGA
1 AAATCGCAACGCGA
827108 TTTTGGTTTC
Statistics
Matches: 83, Mismatches: 6, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
14 18 0.22
15 1 0.01
16 8 0.10
17 8 0.10
18 1 0.01
19 47 0.57
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.10
Consensus pattern (19 bp):
AAATCGCAACGCGAAATGA
Found at i:827125 original size:19 final size:19
Alignment explanation
Indices: 827103--827215 Score: 120
Period size: 19 Copynumber: 6.5 Consensus size: 19
827093 AAAATCGCAA
827103 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
827122 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
827136 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
827155 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
827169 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
827188 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
827207 TGCGATTTT
1 TGCGATTTT
827216 AAGTTCGTGT
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 22 0.29
15 1 0.01
16 2 0.03
17 2 0.03
18 2 0.03
19 48 0.62
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:827145 original size:33 final size:33
Alignment explanation
Indices: 827103--827194 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
827093 AAAATCGCAA
827103 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
827136 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
827169 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
827195 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:827222 original size:19 final size:18
Alignment explanation
Indices: 827103--827230 Score: 92
Period size: 19 Copynumber: 7.3 Consensus size: 18
827093 AAAATCGCAA
*
827103 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAG-TTCGCGT
*
827122 TGCGATCTT-G-T--CGT
1 TGCGATTTTAGTTCGCGT
*
827136 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAG-TTCGCGT
*
827155 TGCGATTCT-G-T--CGT
1 TGCGATTTTAGTTCGCGT
*
827169 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-AGTTCGCGT
*
827188 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAG-TTCGCGT
*
827207 TGCGATTTTAAGTTCGTGT
1 TGCGATTTT-AGTTCGCGT
827226 TGCGA
1 TGCGA
827231 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 58 0.66
20 1 0.01
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.45
Consensus pattern (18 bp):
TGCGATTTTAGTTCGCGT
Found at i:827428 original size:93 final size:93
Alignment explanation
Indices: 827271--827641 Score: 682
Period size: 93 Copynumber: 4.1 Consensus size: 93
827261 TTGAATGGAT
827271 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
827335 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
827363 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
827428 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
827456 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTT--CAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
827519 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
827547 AAATTTACTTTCAACCAAAAGACAAAAC-AAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
827611 AGTTTAGC-GAATTGGCAGC-ACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
827637 AAATT
1 AAATT
827642 ACTAAGCAAT
Statistics
Matches: 273, Mismatches: 3, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
90 27 0.10
91 84 0.31
92 60 0.22
93 102 0.37
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:829355 original size:14 final size:14
Alignment explanation
Indices: 829336--829424 Score: 79
Period size: 14 Copynumber: 5.7 Consensus size: 14
829326 TTGAAATGAA
829336 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
829350 AATCGCACGCGAGATG
1 AATCGCA-ACGAGA-G
829366 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
829382 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
829401 AATCGCAACGAGAG
1 AATCGCAACGAGAG
829415 AATCGCAACG
1 AATCGCAACG
829425 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 27 0.44
15 6 0.10
16 4 0.06
17 7 0.11
18 8 0.13
19 10 0.16
ACGTcount: A:0.42, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:829405 original size:33 final size:33
Alignment explanation
Indices: 829328--829440 Score: 194
Period size: 33 Copynumber: 3.5 Consensus size: 33
829318 TCTTTTGGTT
829328 GAAATGAAAATCGCAACGAGAGAATCGC-ACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
829360 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
829393 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
829426 GAAATG-AAATCGCAA
1 GAAATGAAAATCGCAA
829441 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
32 35 0.46
33 41 0.54
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:829406 original size:19 final size:19
Alignment explanation
Indices: 829382--829445 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 19
829372 GCAACGAGAG
829382 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
829401 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
829415 AATCGCAACGCGAAATG-A
1 AATCGCAACGCGAAATGAA
*
829433 AATCGCAATGCGA
1 AATCGCAACGCGA
829446 TTTTGGTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 2 0.05
17 2 0.05
18 13 0.35
19 9 0.24
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:829476 original size:14 final size:14
Alignment explanation
Indices: 829457--829510 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
829447 TTTGGTTTCG
829457 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
829471 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
829490 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
829504 CGTTGCG
1 CGTTGCG
829511 CTTTTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
16 3 0.09
17 3 0.09
19 10 0.30
ACGTcount: A:0.07, C:0.26, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:829489 original size:33 final size:33
Alignment explanation
Indices: 829441--829521 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
829431 GAAATCGCAA
**
829441 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
829474 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
829507 TGCGCTTTTCATTTC
1 TGCGATTTTCATTTC
829522 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.07, C:0.23, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:829544 original size:20 final size:21
Alignment explanation
Indices: 829497--829574 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 21
829487 TCGCGTTGCG
**
829497 ATTCTCTCGTTGCG-CTTTTC
1 ATTCTCTCGTTGCGACTAGTC
829517 ATTTCTCTCGTTGCGAC-AGTC
1 A-TTCTCTCGTTGCGACTAGTC
*
829538 ATTCTCTCGTTGCGA-T-TTC
1 ATTCTCTCGTTGCGACTAGTC
*
829557 ATTTATCTCGTTGCGACT
1 A-TTCTCTCGTTGCGACT
829575 CTTCTGCAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.06
20 28 0.57
21 17 0.35
22 1 0.02
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.45
Consensus pattern (21 bp):
ATTCTCTCGTTGCGACTAGTC
Found at i:829567 original size:40 final size:41
Alignment explanation
Indices: 829497--829573 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 41
829487 TCGCGTTGCG
* *
829497 ATTCTCTCGTTGCGCTTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGCATTTCATTTATCTCGTTGCGACAGTC
829538 ATTCTCTCGTTGCG-ATTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGCATTTCATTTATCTCGTTGCGAC
829574 TCTTCTGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 20 0.59
41 14 0.41
ACGTcount: A:0.12, C:0.27, G:0.17, T:0.44
Consensus pattern (41 bp):
ATTCTCTCGTTGCGCATTTCATTTATCTCGTTGCGACAGTC
Found at i:829698 original size:33 final size:33
Alignment explanation
Indices: 829651--829721 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
829641 AATACTAACT
* *
829651 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
829684 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
829717 TGAAA
1 TGAAA
829722 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:829928 original size:22 final size:22
Alignment explanation
Indices: 829876--829930 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
829866 ATATTGTGAG
**
829876 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
829898 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
829920 GGATTTCTTCG
1 GGATTTCTTCG
829931 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:830101 original size:20 final size:20
Alignment explanation
Indices: 830076--830269 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
830066 CTTTAAATAT
830076 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
830096 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
830118 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
830137 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
830157 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
830177 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
830197 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
830217 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
830237 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
830257 CGCGTTGCGATTT
1 CGCGTTGCGATTT
830270 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:830263 original size:60 final size:60
Alignment explanation
Indices: 830076--830269 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
830066 CTTTAAATAT
**
830076 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
830137 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
830197 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
830257 CGCGTTGCGATTT
1 CGCGTTGCGATTT
830270 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:830270 original size:20 final size:20
Alignment explanation
Indices: 830217--830311 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
830207 TTTACGGATA
* *
830217 CGCGTTGCGATTTAT-GTGTT
1 CGCGTTGCGATTT-TCATATT
830237 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
* * *
830257 CGCGTTGCGATTTTGGAAAAT
1 CGCGTTGCGATTTT-CATATT
**
830278 CGCAATGCGATTTTCATATT
1 CGCGTTGCGATTTTCATATT
830298 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
830312 GGAAACTGAT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.02
20 45 0.74
21 15 0.25
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (20 bp):
CGCGTTGCGATTTTCATATT
Found at i:831184 original size:28 final size:28
Alignment explanation
Indices: 831131--831199 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
831121 TAGATGAGAT
* *
831131 TAATTGATTTTTAGTTAAGTTCGAGGTC
1 TAATTGATTTTTAGTTAAATTCGAGGAC
** *
831159 TAATTGATTTTTTTTTAAATTTGAGGAC
1 TAATTGATTTTTAGTTAAATTCGAGGAC
* *
831187 TTATTTATTTTTA
1 TAATTGATTTTTA
831200 AAAATAAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.55
Consensus pattern (28 bp):
TAATTGATTTTTAGTTAAATTCGAGGAC
Found at i:836336 original size:24 final size:25
Alignment explanation
Indices: 836304--836353 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
836294 AACATAAACT
* *
836304 AAATTAAATATGA-TTTAAAAAAAA
1 AAATAAAATATGAGTATAAAAAAAA
*
836328 AAATAAAATTTGAGTATAAAAAAAA
1 AAATAAAATATGAGTATAAAAAAAA
836353 A
1 A
836354 CAAATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (25 bp):
AAATAAAATATGAGTATAAAAAAAA
Found at i:836377 original size:27 final size:27
Alignment explanation
Indices: 836319--836378 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 27
836309 AAATATGATT
836319 TAAAAAAAAAAATAAAATTTGAGTATA
1 TAAAAAAAAAAATAAAATTTGAGTATA
836346 -AAAAAAAACAAATAATAATTT-AG-ATA
1 TAAAAAAAA-AAATAA-AATTTGAGTATA
836372 CTAAAAA
1 -TAAAAA
836379 TATAATTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
26 11 0.38
27 8 0.28
28 10 0.34
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.23
Consensus pattern (27 bp):
TAAAAAAAAAAATAAAATTTGAGTATA
Found at i:843289 original size:13 final size:13
Alignment explanation
Indices: 843271--843299 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
843261 TAAATGATTT
843271 AAAGTAAGCATTA
1 AAAGTAAGCATTA
843284 AAAGTAAGCATTA
1 AAAGTAAGCATTA
843297 AAA
1 AAA
843300 TGCTCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGTAAGCATTA
Found at i:844582 original size:22 final size:23
Alignment explanation
Indices: 844540--844583 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
844530 CTGAATTATT
844540 TACCACTTCAACCAATTCCTTAG
1 TACCACTTCAACCAATTCCTTAG
844563 TACCACTTCAACC-ATTCCTTA
1 TACCACTTCAACCAATTCCTTA
844584 TTATGAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.30, C:0.36, G:0.02, T:0.32
Consensus pattern (23 bp):
TACCACTTCAACCAATTCCTTAG
Found at i:854246 original size:24 final size:24
Alignment explanation
Indices: 854219--854270 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
854209 AACGGATATA
*
854219 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
854243 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
854267 TCAA
1 TCAA
854271 GTAACAGATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:854271 original size:24 final size:24
Alignment explanation
Indices: 854239--854357 Score: 143
Period size: 24 Copynumber: 5.0 Consensus size: 24
854229 AAACATAAAT
*
854239 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCAGATCAG-AATC
*
854263 CAGGTCAAGTAACAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
* *
854287 CAAGTTAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCAGATCAGAATC
* *
854311 CATGTC-AGATATCATATCAGAATC
1 CAGGTCAAG-TATCAGATCAGAATC
*
854335 CATGTCAAGTATCAGATCAGAAT
1 CAGGTCAAGTATCAGATCAGAAT
854358 TCAAATCGAA
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
23 5 0.06
24 76 0.92
25 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.24
Consensus pattern (24 bp):
CAGGTCAAGTATCAGATCAGAATC
Found at i:866088 original size:21 final size:20
Alignment explanation
Indices: 866031--866091 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
866021 CAGACTTATT
*
866031 GAAAATAAAA-GAAACAAAA
1 GAAAATAAAATGAAATAAAA
* *
866050 GAAAATAAATATGTAATATAA
1 GAAAATAAA-ATGAAATAAAA
866071 GAAAATAAAATGACAATAAAA
1 GAAAATAAAATGA-AATAAAA
866092 AATATCGACG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
19 9 0.26
20 4 0.12
21 21 0.62
ACGTcount: A:0.70, C:0.03, G:0.10, T:0.16
Consensus pattern (20 bp):
GAAAATAAAATGAAATAAAA
Found at i:866133 original size:84 final size:85
Alignment explanation
Indices: 866033--866204 Score: 278
Period size: 84 Copynumber: 2.0 Consensus size: 85
866023 GACTTATTGA
* *
866033 AAATAAAAGAAACAAAAGAAAATAAATATGTAATATAAGAAAATAAAATGACAATAAAAAATA-T
1 AAATAAAAGAAACAAAAGAAAATAAAGATGTAATATAAGAAAATAAAAAGACAATAAAAAATACT
866097 CGACGATCGACAA-CTAACATT
66 -GACGATCGACAATC-AACATT
*
866118 AAATAATA-AAACAAAAGAAAATAAAGATGTAATATAAGAAAATAAAAAGACAATAAAAAATACT
1 AAATAAAAGAAACAAAAGAAAATAAAGATGTAATATAAGAAAATAAAAAGACAATAAAAAATACT
866182 GACGATCGACAATCAACATT
66 GACGATCGACAATCAACATT
866202 AAA
1 AAA
866205 GTTAGTGTCG
Statistics
Matches: 82, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
84 73 0.89
85 9 0.11
ACGTcount: A:0.63, C:0.09, G:0.09, T:0.18
Consensus pattern (85 bp):
AAATAAAAGAAACAAAAGAAAATAAAGATGTAATATAAGAAAATAAAAAGACAATAAAAAATACT
GACGATCGACAATCAACATT
Found at i:866178 original size:39 final size:39
Alignment explanation
Indices: 866031--866179 Score: 110
Period size: 39 Copynumber: 3.6 Consensus size: 39
866021 CAGACTTATT
* *
866031 GAAAATAAAAGAAACAAAAGAAAATAAATATGTAATATAA
1 GAAAATAAAA-AGACAAAAGAAAATAAAGATGTAATATAA
* *
866071 GAAAATAAAATGACAATAA-AAAATATCGACGATCG-ACA-ACTAA
1 GAAAATAAAAAGACAA-AAGAAAATA---AAGAT-GTA-ATA-TAA
*
866114 CATTAAATAATAAA-ACAAAAGAAAATAAAGATGTAATATAA
1 GA--AAATAA-AAAGACAAAAGAAAATAAAGATGTAATATAA
866155 GAAAATAAAAAGACAATAA-AAAATA
1 GAAAATAAAAAGACAA-AAGAAAATA
866180 CTGACGATCG
Statistics
Matches: 86, Mismatches: 8, Indels: 31
0.69 0.06 0.25
Matches are distributed among these distances:
38 3 0.03
39 26 0.30
40 14 0.16
41 6 0.07
42 11 0.13
43 6 0.07
44 2 0.02
45 16 0.19
46 2 0.02
ACGTcount: A:0.66, C:0.07, G:0.09, T:0.17
Consensus pattern (39 bp):
GAAAATAAAAAGACAAAAGAAAATAAAGATGTAATATAA
Found at i:866335 original size:2 final size:2
Alignment explanation
Indices: 866328--866417 Score: 180
Period size: 2 Copynumber: 45.0 Consensus size: 2
866318 ATCAATTACA
866328 AT AT 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 AT AT
866370 AT AT 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 AT AT
866412 AT AT AT
1 AT AT AT
866418 TGAATTTGAA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 88 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:867363 original size:24 final size:24
Alignment explanation
Indices: 867336--867459 Score: 90
Period size: 24 Copynumber: 5.2 Consensus size: 24
867326 TATATCAAAA
867336 ATCAAAACATAAAT-CAGGTCAAGT
1 ATCAAAACA-AAATCCAGGTCAAGT
* *
867360 ATCATATCAAAATCCAGGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * * *
867384 ATCAGATCAGAATCCAAGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
* * * *
867408 ATCAGATCAGAATCCATGTC-AGAT
1 ATCAAAACAAAATCCAGGTCAAG-T
* * * *
867432 ATCAGATCAGAATCCATGTCAAGT
1 ATCAAAACAAAATCCAGGTCAAGT
867456 ATCA
1 ATCA
867460 TATCAGAATT
Statistics
Matches: 91, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
23 6 0.07
24 83 0.91
25 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (24 bp):
ATCAAAACAAAATCCAGGTCAAGT
Found at i:867464 original size:24 final size:24
Alignment explanation
Indices: 867353--867468 Score: 171
Period size: 24 Copynumber: 4.8 Consensus size: 24
867343 CATAAATCAG
* * *
867353 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAGAATCCAT
*
867377 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
867401 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
867425 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
*
867449 GTCAAGTATCATATCAGAAT
1 GTCAAGTATCAGATCAGAAT
867469 TCAAATCGAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
23 2 0.02
24 81 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:867484 original size:48 final size:47
Alignment explanation
Indices: 867353--867486 Score: 169
Period size: 48 Copynumber: 2.8 Consensus size: 47
867343 CATAAATCAG
* *
867353 GTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCATATCAGAATCCAAGTCAA-TATCAGATCAGAATCCAA
* * *
867401 GTCAAGTATCAGATCAGAATCCATGTCAGATATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAAGTCA-ATATCAGATCAGAATCCAA
* * *
867449 GTCAAGTATCATATCAGAATTCAAATCGAAAATCAGAT
1 GTCAAGTATCATATCAGAATCCAAGTC-AATATCAGAT
867487 AAAATATCCA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
48 73 0.97
49 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (47 bp):
GTCAAGTATCATATCAGAATCCAAGTCAATATCAGATCAGAATCCAA
Found at i:869876 original size:18 final size:18
Alignment explanation
Indices: 869853--869888 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
869843 TACTCGGTCA
*
869853 AAACGGGTCGGGTCGGGT
1 AAACGGGACGGGTCGGGT
869871 AAACGGGACGGGTCGGGT
1 AAACGGGACGGGTCGGGT
869889 TGAAACCGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.17, G:0.50, T:0.14
Consensus pattern (18 bp):
AAACGGGACGGGTCGGGT
Found at i:874940 original size:30 final size:30
Alignment explanation
Indices: 874900--874956 Score: 98
Period size: 31 Copynumber: 1.9 Consensus size: 30
874890 ATGTATGATT
874900 AAATAAATTAA-AGTTTAGGTACTAAAATG
1 AAATAAATTAATAGTTTAGGTACTAAAATG
874929 AAATAAAATTAATAGTTTAGGTACTAAA
1 AAAT-AAATTAATAGTTTAGGTACTAAA
874957 TGTATAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 4 0.15
30 7 0.27
31 15 0.58
ACGTcount: A:0.53, C:0.04, G:0.12, T:0.32
Consensus pattern (30 bp):
AAATAAATTAATAGTTTAGGTACTAAAATG
Found at i:876861 original size:17 final size:18
Alignment explanation
Indices: 876825--876862 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
876815 TAGGATGTTG
876825 TGTTGTGTTTCGTTTGCT
1 TGTTGTGTTTCGTTTGCT
* *
876843 TGTTG-GTTTCTTTTTCT
1 TGTTGTGTTTCGTTTGCT
876860 TGT
1 TGT
876863 AAGAAAACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.00, C:0.11, G:0.24, T:0.66
Consensus pattern (18 bp):
TGTTGTGTTTCGTTTGCT
Found at i:879036 original size:172 final size:174
Alignment explanation
Indices: 878750--879095 Score: 678
Period size: 172 Copynumber: 2.0 Consensus size: 174
878740 CCGGAATGAT
878750 TAAGGTGTGAAGATCCTCCATTTGCTATAGAATAGAGGAACACCTTATAGGCCAAGGCTTTCCCC
1 TAAGGTGTGAAGATCCTCCATTTGCTATAGAATAGAGGAACACCTTATAGGCCAAGGCTTTCCCC
878815 TTCTTAATGAGTTTATTTACTGTCTTAATGAATCTCAGGTTGATCGGATTTTG-A-TCCTCAGTC
66 TTCTTAATGAGTTTATTTACTGTCTTAATGAATCTCAGGTTGATCGGATTTTGTATTCCTCAGTC
878878 GTCTATCCTCACAACTACGGTTTCATCCCTCGCACACTATGTGA
131 GTCTATCCTCACAACTACGGTTTCATCCCTCGCACACTATGTGA
878922 TAAGGTGTGAAGATCCTCCATTTGCTATAGAATAGAGGAACACCTTATAGGCCAAGGCTTTCCCC
1 TAAGGTGTGAAGATCCTCCATTTGCTATAGAATAGAGGAACACCTTATAGGCCAAGGCTTTCCCC
878987 TTCTTAATGAGTTTATTTACTGTCTTAATGAATCTCAGGTTGATCGGATTTTGTATTCCTCAGTC
66 TTCTTAATGAGTTTATTTACTGTCTTAATGAATCTCAGGTTGATCGGATTTTGTATTCCTCAGTC
879052 GTCTATCCTCACAACTACGGTTTCATCCCTCGCACACTATGTGA
131 GTCTATCCTCACAACTACGGTTTCATCCCTCGCACACTATGTGA
879096 AGACAATGAT
Statistics
Matches: 172, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
172 118 0.69
173 1 0.01
174 53 0.31
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (174 bp):
TAAGGTGTGAAGATCCTCCATTTGCTATAGAATAGAGGAACACCTTATAGGCCAAGGCTTTCCCC
TTCTTAATGAGTTTATTTACTGTCTTAATGAATCTCAGGTTGATCGGATTTTGTATTCCTCAGTC
GTCTATCCTCACAACTACGGTTTCATCCCTCGCACACTATGTGA
Found at i:882056 original size:80 final size:80
Alignment explanation
Indices: 881923--882083 Score: 286
Period size: 80 Copynumber: 2.0 Consensus size: 80
881913 TAATCAAACA
* *
881923 TAAACTTCATTTACTCCATGGATTAAGATTGAAAATCTTGTCCACAATGTCAAGTCCTAATACAA
1 TAAACTTCATTTACTCCATCGATTAAGATTGAAAAACTTGTCCACAATGTCAAGTCCTAATACAA
*
881988 CTCAAAGTCTATCTT
66 CTCAAACTCTATCTT
*
882003 TAAACTTCATTTACTCCATCTATTAAGATTGAAAAACTTGTCCACAATGTCAAGTCCTAATACAA
1 TAAACTTCATTTACTCCATCGATTAAGATTGAAAAACTTGTCCACAATGTCAAGTCCTAATACAA
882068 CTCAAACTCTATCTT
66 CTCAAACTCTATCTT
882083 T
1 T
882084 TATTCTTGAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.34
Consensus pattern (80 bp):
TAAACTTCATTTACTCCATCGATTAAGATTGAAAAACTTGTCCACAATGTCAAGTCCTAATACAA
CTCAAACTCTATCTT
Found at i:882371 original size:82 final size:83
Alignment explanation
Indices: 882224--882390 Score: 300
Period size: 82 Copynumber: 2.0 Consensus size: 83
882214 TGAACCTTGA
* *
882224 TTCGGCCCCATGACACATGGGTCCGCATGATGCATCTTGAGATGCACCAACACTTCCACCAAATT
1 TTCGGCCCCATGACACATGAGTCCGCATAATGCATCTTGAGATGCACCAACACTTCCACCAAATT
882289 GCATGCACACGCCTTTTC
66 GCATGCACACGCCTTTTC
*
882307 TTCGG-CCCGTGACACATGAGTCCGCATAATGCATCTTGAGATGCACCAACACTTCCACCAAATT
1 TTCGGCCCCATGACACATGAGTCCGCATAATGCATCTTGAGATGCACCAACACTTCCACCAAATT
882371 GCATGCACACGCCTTTTC
66 GCATGCACACGCCTTTTC
882389 TT
1 TT
882391 TTCATCTTTA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
82 76 0.94
83 5 0.06
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (83 bp):
TTCGGCCCCATGACACATGAGTCCGCATAATGCATCTTGAGATGCACCAACACTTCCACCAAATT
GCATGCACACGCCTTTTC
Found at i:882566 original size:2 final size:2
Alignment explanation
Indices: 882559--882608 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
882549 ATGGCGGAGA
882559 AT AT 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 AT AT
882601 AT AT AT AT
1 AT AT AT AT
882609 CAGATTTTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:883048 original size:18 final size:18
Alignment explanation
Indices: 883025--883062 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
883015 GAATCTCACA
883025 TGAAATAAACGATTTTAG
1 TGAAATAAACGATTTTAG
883043 TGAAATAAACGATTTTAG
1 TGAAATAAACGATTTTAG
883061 TG
1 TG
883063 GTTAAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.34
Consensus pattern (18 bp):
TGAAATAAACGATTTTAG
Found at i:883870 original size:42 final size:42
Alignment explanation
Indices: 883716--883854 Score: 212
Period size: 42 Copynumber: 3.4 Consensus size: 42
883706 AATTAAAGAA
* *
883716 CTCATCATATCGTTCATCAATGCCAG---GTTGATGTTGAAT
1 CTCATCATCTTGTTCATCAATGCCAGATTGTTGATGTTGAAT
883755 CTCATCATCTTGTTCATCAATGCCAGATTGTTGATGTTGAAT
1 CTCATCATCTTGTTCATCAATGCCAGATTGTTGATGTTGAAT
* *
883797 CTCATCAACTTGTTCATCAATGCCAGATTGTTGACGTTGAAT
1 CTCATCATCTTGTTCATCAATGCCAGATTGTTGATGTTGAAT
*
883839 CTCATCGTCTTGTTCA
1 CTCATCATCTTGTTCA
883855 GCGGTGCTAG
Statistics
Matches: 91, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 24 0.26
42 67 0.74
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.38
Consensus pattern (42 bp):
CTCATCATCTTGTTCATCAATGCCAGATTGTTGATGTTGAAT
Found at i:883946 original size:13 final size:13
Alignment explanation
Indices: 883928--883952 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
883918 CCGCAAAAGA
883928 ATGAGAAATCATC
1 ATGAGAAATCATC
883941 ATGAGAAATCAT
1 ATGAGAAATCAT
883953 AGTCTCCTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGAGAAATCATC
Found at i:885967 original size:17 final size:18
Alignment explanation
Indices: 885945--885979 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
885935 CAGCAAATAG
*
885945 TCCAATTTAAT-GAAAAA
1 TCCAATTCAATAGAAAAA
885962 TCCAATTCAATAGAAAAA
1 TCCAATTCAATAGAAAAA
885980 ACATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (18 bp):
TCCAATTCAATAGAAAAA
Found at i:886182 original size:53 final size:54
Alignment explanation
Indices: 886125--886236 Score: 174
Period size: 53 Copynumber: 2.1 Consensus size: 54
886115 AAATAAGATT
* *
886125 AAAATTGAATGATAAAAAACGTAATTTATTAAAAATAA-A-TAAGTTGGATCCCC
1 AAAATTGAATGATAAAAAACATAATTTACTAAAAA-AATATTAAGTTGGATCCCC
*
886178 AAAATTGAGTGATAAAAAACATAATTTACTAAAAAAATATTAAGTTGGATCCCC
1 AAAATTGAATGATAAAAAACATAATTTACTAAAAAAATATTAAGTTGGATCCCC
886232 AAAAT
1 AAAAT
886237 GTACACAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
52 2 0.04
53 33 0.61
54 19 0.35
ACGTcount: A:0.52, C:0.10, G:0.11, T:0.28
Consensus pattern (54 bp):
AAAATTGAATGATAAAAAACATAATTTACTAAAAAAATATTAAGTTGGATCCCC
Found at i:887654 original size:36 final size:36
Alignment explanation
Indices: 887608--887721 Score: 192
Period size: 36 Copynumber: 3.2 Consensus size: 36
887598 TTCCCGAACC
* *
887608 AGTCATTTAACAATTTCGTCAATAAGTGAAAGCCCC
1 AGTCACTTAACAATTTCGTCAATAAGTGAAAGCCCA
887644 AGTCACTTAACAATTTCGTCAATAAGTGAAAGCCCA
1 AGTCACTTAACAATTTCGTCAATAAGTGAAAGCCCA
* *
887680 AGTCACTTAACAATTTCGTCAATAAGCGAAAGCGCA
1 AGTCACTTAACAATTTCGTCAATAAGTGAAAGCCCA
887716 AGTCAC
1 AGTCAC
887722 AGATTTTAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 74 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (36 bp):
AGTCACTTAACAATTTCGTCAATAAGTGAAAGCCCA
Found at i:900994 original size:64 final size:65
Alignment explanation
Indices: 900883--901026 Score: 154
Period size: 64 Copynumber: 2.3 Consensus size: 65
900873 CATCCCTTGA
* *
900883 CAGGTGCATCGATGCACTATTCATACATCGGTGCATAAATCCTATTCGATGTTTGTAT-TTTAAG
1 CAGGTGCATCGATGCACTATTCATACATCGATGCATAAATCCTATTCGATGTTTATATATTTAAG
* * * * * * *
900947 CAGGTGCATCGATGCACTCCTT-ATGCATCGATGCACTGATTGC-ATTCGATGTTTATTTATTTG
1 CAGGTGCATCGATGCACT-ATTCATACATCGATGCA-TAAATCCTATTCGATGTTTATATATTTA
901010 AG
64 AG
901012 -A-GTGCATCGATGCAC
1 CAGGTGCATCGATGCAC
901027 ATTGAAGATG
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
63 14 0.21
64 43 0.63
65 11 0.16
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (65 bp):
CAGGTGCATCGATGCACTATTCATACATCGATGCATAAATCCTATTCGATGTTTATATATTTAAG
Found at i:902626 original size:37 final size:37
Alignment explanation
Indices: 902585--902660 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
902575 TTATTTCAGA
902585 ACGATAAAGATCCTCTAATTCTACAATTTCCAATCTT
1 ACGATAAAGATCCTCTAATTCTACAATTTCCAATCTT
*
902622 ACGATAAAGATCTTCTAATTCTACAATTTCCAATCTT
1 ACGATAAAGATCCTCTAATTCTACAATTTCCAATCTT
902659 AC
1 AC
902661 TTCAAATCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (37 bp):
ACGATAAAGATCCTCTAATTCTACAATTTCCAATCTT
Done.