Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_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: 2850692
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 12
Found at i:698408 original size:21 final size:21
Alignment explanation
Indices: 698382--698421 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
698372 GTTGGGAGCA
*
698382 TAGGTGTATTGGTACACTCTC
1 TAGGTGTATCGGTACACTCTC
698403 TAGGTGTATCGGTACACTC
1 TAGGTGTATCGGTACACTC
698422 AGTGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (21 bp):
TAGGTGTATCGGTACACTCTC
Found at i:699094 original size:13 final size:13
Alignment explanation
Indices: 699076--699100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
699066 TAGTCATTAG
699076 TTCATAATCAATA
1 TTCATAATCAATA
699089 TTCATAATCAAT
1 TTCATAATCAAT
699101 GTGAAATGGT
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
TTCATAATCAATA
Found at i:701236 original size:21 final size:21
Alignment explanation
Indices: 701212--701265 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
701202 ACTTTCATAG
*
701212 TGTATCGATACATAGCGAGGA
1 TGTACCGATACATAGCGAGGA
701233 TGTACCGATACATAGCGAGGA
1 TGTACCGATACATAGCGAGGA
701254 TGTACCGATACA
1 TGTACCGATACA
701266 CTGTGCACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (21 bp):
TGTACCGATACATAGCGAGGA
Found at i:707604 original size:21 final size:20
Alignment explanation
Indices: 707580--707623 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
707570 TTTTTTTAAA
* *
707580 TTTTGGCTTTTTTTTTTGTTT
1 TTTTGCCTTTTTTGTTT-TTT
707601 TTTTGCCTTTTTTGTTTTTT
1 TTTTGCCTTTTTTGTTTTTT
707621 TTT
1 TTT
707624 AAATAGCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.00, C:0.07, G:0.11, T:0.82
Consensus pattern (20 bp):
TTTTGCCTTTTTTGTTTTTT
Found at i:710138 original size:40 final size:38
Alignment explanation
Indices: 710094--710172 Score: 88
Period size: 38 Copynumber: 2.0 Consensus size: 38
710084 TAAAACATTT
* *
710094 ATTATGATAATTAAATTA-ATAAATAGTCATATTATATAAA
1 ATTAT-ATAATAAAATTATATAAAT-GT-AAATTATATAAA
* *
710134 ATTATTTAATAAAATTATTTAAATGTAAATTATATAAA
1 ATTATATAATAAAATTATATAAATGTAAATTATATAAA
710172 A
1 A
710173 CATGATTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
38 12 0.35
39 12 0.35
40 10 0.29
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (38 bp):
ATTATATAATAAAATTATATAAATGTAAATTATATAAA
Found at i:710145 original size:13 final size:13
Alignment explanation
Indices: 710129--710155 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
710119 GTCATATTAT
710129 ATAAAATTATTTA
1 ATAAAATTATTTA
710142 ATAAAATTATTTA
1 ATAAAATTATTTA
710155 A
1 A
710156 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:710165 original size:15 final size:14
Alignment explanation
Indices: 710129--710171 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
710119 GTCATATTAT
710129 ATAAAATTATTT-A
1 ATAAAATTATTTAA
710142 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
710156 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
710171 A
1 A
710172 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:711964 original size:24 final size:25
Alignment explanation
Indices: 711919--711965 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
711909 TGTAATTAAT
*
711919 ATTAATATAAAATATAATCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
711944 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
711966 TGTTATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:711973 original size:31 final size:31
Alignment explanation
Indices: 711912--712024 Score: 106
Period size: 31 Copynumber: 3.5 Consensus size: 31
711902 TATAATTTGT
* *
711912 AATTAATATTAATATAAAATATAAT-CTATAA
1 AATTAATATTAATATAAACTAT-ATGTTATAA
711943 AATTAATATTAATATAAACTATATGTTAT-A
1 AATTAATATTAATATAAACTATATGTTATAA
* *
711973 AATTATATAGTATAGTTTATAAACTATA-GTTAATAT
1 AATTA-ATA-T-TA--ATATAAACTATATGTT-ATAA
712009 AATTAATATTAATATA
1 AATTAATATTAATATA
712025 GTATAGTTTA
Statistics
Matches: 69, Mismatches: 5, Indels: 16
0.77 0.06 0.18
Matches are distributed among these distances:
30 8 0.12
31 31 0.45
32 1 0.01
33 4 0.06
34 4 0.06
35 16 0.23
36 5 0.07
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (31 bp):
AATTAATATTAATATAAACTATATGTTATAA
Found at i:711992 original size:14 final size:14
Alignment explanation
Indices: 711975--712036 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
711965 ATGTTATAAA
711975 TTATATAGTATAGT
1 TTATATAGTATAGT
* *
711989 TTATAAACTATAGT
1 TTATATAGTATAGT
* *
712003 TAATATAATTAATA-T
1 TTATAT-AGT-ATAGT
*
712018 TAATATAGTATAGT
1 TTATATAGTATAGT
712032 TTATA
1 TTATA
712037 AACTATATAC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 3 0.08
14 23 0.61
15 9 0.24
16 3 0.08
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.47
Consensus pattern (14 bp):
TTATATAGTATAGT
Found at i:712139 original size:21 final size:21
Alignment explanation
Indices: 712113--712158 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
712103 AGTAAATTAA
* *
712113 TATATATTATAGTTTATAAAT
1 TATATATTATAGGTTATAAAG
712134 TATATATTATAGGTTATAAAG
1 TATATATTATAGGTTATAAAG
712155 TATA
1 TATA
712159 AACTATATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (21 bp):
TATATATTATAGGTTATAAAG
Found at i:712165 original size:21 final size:21
Alignment explanation
Indices: 712120--712165 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
712110 TAATATATAT
* * * *
712120 TATAGTTTATAAATTATATAT
1 TATAGGTTATAAAGTATAAAC
712141 TATAGGTTATAAAGTATAAAC
1 TATAGGTTATAAAGTATAAAC
712162 TATA
1 TATA
712166 TAGTACACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (21 bp):
TATAGGTTATAAAGTATAAAC
Found at i:712504 original size:2 final size:2
Alignment explanation
Indices: 712499--712538 Score: 53
Period size: 2 Copynumber: 19.0 Consensus size: 2
712489 ATATATAGGT
*
712499 TA TA TA TA TA TA TA TA TA TA TA TA GTT TA TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
712539 CATAGTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 31 0.91
3 3 0.09
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:712549 original size:27 final size:27
Alignment explanation
Indices: 712488--712542 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
712478 ATATAATTTT
*
712488 TATATATAGGTTATATATATATATATA
1 TATATATAGGTTATATATATATATACA
712515 TATATATA-GTT-TATATATACTATACA
1 TATATATAGGTTATATATATA-TATACA
712541 TA
1 TA
712543 GTTTATACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.31
26 10 0.38
27 8 0.31
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (27 bp):
TATATATAGGTTATATATATATATACA
Found at i:712948 original size:15 final size:17
Alignment explanation
Indices: 712930--712963 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
712920 CTATATGTTT
712930 TATAT-ATTT-TATACA
1 TATATAATTTATATACA
712945 TATATAATTTATATACA
1 TATATAATTTATATACA
712962 TA
1 TA
712964 CATACATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 4 0.24
17 8 0.47
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATAATTTATATACA
Found at i:713080 original size:96 final size:96
Alignment explanation
Indices: 712887--713083 Score: 220
Period size: 96 Copynumber: 2.0 Consensus size: 96
712877 TTATACATAC
* * *
712887 ATATATTATATTAATATAAATTATAATTTA-AAACTATATGTTTTATATATTTTATACATATATA
1 ATATACTATATTAATATAAA-TATAGTTTATAAACTATATATTTTATATATTTTATACATATATA
* * *
712951 ATTTATATACATACATACATACCTATGTATAT
65 ATATATATACATACATACAAACATATGTATAT
*
712983 ATATACTATATTAATATAAATATAGTTTATAAACTATATATTTTTTATAGTTTATATACATAGT-
1 ATATACTATATTAATATAAATATAGTTTATAAACTATATATTTTATATA-TTT-TATACATA-TA
** * * *
713047 TTGTATATATA-ATCCATATAAACATAATTTATAT
63 TAATATATATACATACATACAAACAT-ATGTATAT
713081 ATA
1 ATA
713084 GCTTATAATA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
95 8 0.10
96 36 0.43
97 13 0.15
98 26 0.31
99 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.47
Consensus pattern (96 bp):
ATATACTATATTAATATAAATATAGTTTATAAACTATATATTTTATATATTTTATACATATATAA
TATATATACATACATACAAACATATGTATAT
Found at i:713118 original size:18 final size:18
Alignment explanation
Indices: 713079--713131 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
713069 CATAATTTAT
* **
713079 ATATAGCTTATAATAATT
1 ATATAGTTTATAATAAAA
713097 ATATAGTTTATAATAAAA
1 ATATAGTTTATAATAAAA
*
713115 ATATAATTTATATATAA
1 ATATAGTTTATA-ATAA
713132 GCTTTTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 26 0.87
19 4 0.13
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (18 bp):
ATATAGTTTATAATAAAA
Found at i:718793 original size:18 final size:19
Alignment explanation
Indices: 718761--718806 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
718751 CATTCCCAAT
718761 CTCTTCTCTCCTCGCCGTTC
1 CTCTTCTCT-CTCGCCGTTC
718781 CTCTTCTCT-TCGCCGTTC
1 CTCTTCTCTCTCGCCGTTC
*
718799 TTCTTCTC
1 CTCTTCTC
718807 CTCCGACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 16 0.64
20 9 0.36
ACGTcount: A:0.00, C:0.46, G:0.09, T:0.46
Consensus pattern (19 bp):
CTCTTCTCTCTCGCCGTTC
Found at i:725964 original size:64 final size:63
Alignment explanation
Indices: 725891--726012 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 63
725881 TAAAACATCT
*
725891 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACTTAAAAAATAATATAATATTC
1 TAAATCCTAATTAAAACAC-TAAAACCTATTTAAACTAAAATACCTAAAAAA-AATATAATATTC
* *
725955 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAATATAA
1 TAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACCTAAAAAAAATATAA
726013 AATATAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
63 12 0.22
64 42 0.78
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (63 bp):
TAAATCCTAATTAAAACACTAAAACCTATTTAAACTAAAATACCTAAAAAAAATATAATATTC
Found at i:725982 original size:19 final size:19
Alignment explanation
Indices: 725926--725988 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
725916 CTATTTAAAC
**
725926 TAAAATACTTAAAAAATAAT
1 TAAAATAC-TAAAACCTAAT
* * *
725946 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
725966 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
725985 TAAA
1 TAAA
725989 CTAAAATACC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 8 0.24
21 6 0.18
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:726013 original size:25 final size:24
Alignment explanation
Indices: 725966--726013 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
725956 AAATCCTAAT
** *
725966 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACAAATATAAAC
725990 TAAAATACCTAAAACAAATATAAA
1 TAAAATA-CTAAAACAAATATAAA
726014 ATATAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAATACTAAAACAAATATAAAC
Found at i:730568 original size:17 final size:18
Alignment explanation
Indices: 730548--730589 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
730538 AAAGATATAT
*
730548 TAAAATAAA-ATAAATAA
1 TAAAATAAAGAAAAATAA
730565 TAAAA-AAAGAAAAATAA
1 TAAAATAAAGAAAAATAA
*
730582 TATAATAA
1 TAAAATAA
730590 TAAATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 3 0.14
17 16 0.76
18 2 0.10
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
TAAAATAAAGAAAAATAA
Found at i:730681 original size:19 final size:18
Alignment explanation
Indices: 730639--730682 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
730629 AGTTGTTTTA
* *
730639 AAATAAAAAATAAGAATT
1 AAATAAAAAAAAAGAATC
*
730657 AAATAAAAGAAAAATAATC
1 AAATAAAA-AAAAAGAATC
730676 AAATAAA
1 AAATAAA
730683 CAAATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (18 bp):
AAATAAAAAAAAAGAATC
Found at i:732822 original size:19 final size:19
Alignment explanation
Indices: 732798--732842 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
732788 GTCGATAATA
732798 AATAATTTCCAATCTAGTG
1 AATAATTTCCAATCTAGTG
*
732817 AATAATTTCCAATCTATTG
1 AATAATTTCCAATCTAGTG
732836 AATAATT
1 AATAATT
732843 AGTACATCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (19 bp):
AATAATTTCCAATCTAGTG
Found at i:736932 original size:21 final size:21
Alignment explanation
Indices: 736908--737035 Score: 127
Period size: 21 Copynumber: 6.2 Consensus size: 21
736898 CGCAACTCAG
*
736908 TTTCCAAATTCAAAACGCGAT
1 TTTCCAAATTCACAACGCGAT
736929 TTTCCAAATTCACAACGCGAT
1 TTTCCAAATTCACAACGCGAT
*
736950 TTTCCAAATTCGCAACGCGA-
1 TTTCCAAATTCACAACGCGAT
* * *
736970 TTTCCAAATTCATAACACTGAA
1 TTTCCAAATTCACAACGC-GAT
* * *
736992 TTT-CAAATTCGCAACTCAAT
1 TTTCCAAATTCACAACGCGAT
** *
737012 TTT-TGAATTCACAACTCGAT
1 TTTCCAAATTCACAACGCGAT
737032 TTTC
1 TTTC
737036 GAATTCGCAA
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
20 35 0.39
21 52 0.58
22 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.33
Consensus pattern (21 bp):
TTTCCAAATTCACAACGCGAT
Found at i:736974 original size:41 final size:40
Alignment explanation
Indices: 736873--737046 Score: 152
Period size: 41 Copynumber: 4.3 Consensus size: 40
736863 AATGACCTAT
** * * *
736873 AAATTCGCAACGCGAACTCCAATTTCGCAACTC-AGTTTCC
1 AAATTCGCAACGCGATTTCCAAATTCACAACTCGA-TTTTC
** *
736913 AAATTCAAAACGCGATTTTCCAAATTCACAACGCGATTTTCC
1 AAATTCGCAACGCGA-TTTCCAAATTCACAACTCGATTTT-C
* * *
736955 AAATTCGCAACGCGATTTCCAAATTCATAACACTGAATTTC
1 AAATTCGCAACGCGATTTCCAAATTCACAACTC-GATTTTC
* * ***
736996 AAATTCGCAACTCAATTTTTGAATTCACAACTCGATTTTC
1 AAATTCGCAACGCGATTTCCAAATTCACAACTCGATTTTC
*
737036 GAATTCGCAAC
1 AAATTCGCAAC
737047 ACGTTTTATT
Statistics
Matches: 108, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
40 29 0.27
41 59 0.55
42 20 0.19
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.29
Consensus pattern (40 bp):
AAATTCGCAACGCGATTTCCAAATTCACAACTCGATTTTC
Found at i:736975 original size:20 final size:21
Alignment explanation
Indices: 736873--737046 Score: 126
Period size: 20 Copynumber: 8.5 Consensus size: 21
736863 AATGACCTAT
**
736873 AAATTCGCAACGCGA-ACTCC
1 AAATTCGCAACGCGATTTTCC
* * *
736893 AATTTCGCAACTC-AGTTTCC
1 AAATTCGCAACGCGATTTTCC
**
736913 AAATTCAAAACGCGATTTTCC
1 AAATTCGCAACGCGATTTTCC
*
736934 AAATTCACAACGCGATTTTCC
1 AAATTCGCAACGCGATTTTCC
736955 AAATTCGCAACGCGA-TTTCC
1 AAATTCGCAACGCGATTTTCC
** * *
736975 AAATTCATAACACTGAATTT-C
1 AAATTCGCAACGC-GATTTTCC
* * *
736996 AAATTCGCAACTCAATTTT-T
1 AAATTCGCAACGCGATTTTCC
* * *
737016 GAATTCACAACTCGATTTT-C
1 AAATTCGCAACGCGATTTTCC
*
737036 GAATTCGCAAC
1 AAATTCGCAAC
737047 ACGTTTTATT
Statistics
Matches: 125, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
19 1 0.01
20 68 0.54
21 53 0.42
22 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATTCGCAACGCGATTTTCC
Found at i:736999 original size:62 final size:61
Alignment explanation
Indices: 736873--737006 Score: 155
Period size: 62 Copynumber: 2.2 Consensus size: 61
736863 AATGACCTAT
* * * *
736873 AAATTCGCAACGCGAACTCCAATTTCGCAACTCAGTTTCCAAATTCAAAACGCGATTTTCC
1 AAATTCGCAACGCGAACTCCAAATTCGCAACGCAGTTTCCAAATTCAAAACACGAATTTCC
* ** *
736934 AAATTCACAACGCGATTTTCCAAATTCGCAACGC-GATTTCCAAATTCATAACACTGAATTT-C
1 AAATTCGCAACGCGA-ACTCCAAATTCGCAACGCAG-TTTCCAAATTCAAAACAC-GAATTTCC
736996 AAATTCGCAAC
1 AAATTCGCAAC
737007 TCAATTTTTG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
61 15 0.25
62 41 0.67
63 5 0.08
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.27
Consensus pattern (61 bp):
AAATTCGCAACGCGAACTCCAAATTCGCAACGCAGTTTCCAAATTCAAAACACGAATTTCC
Found at i:740300 original size:6 final size:6
Alignment explanation
Indices: 740289--740323 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
740279 AAGCAAAAGG
* *
740289 AAATCA AAATCA AAATCG CAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
740324 CCAATCACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:740313 original size:18 final size:18
Alignment explanation
Indices: 740290--740330 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
740280 AGCAAAAGGA
*
740290 AATCAAAATCAAAATCGC
1 AATCAAAATCAAAATCCC
740308 AATCAAAATCAAAATCCC
1 AATCAAAATCAAAATCCC
740326 AATCA
1 AATCA
740331 CAACCGGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.17
Consensus pattern (18 bp):
AATCAAAATCAAAATCCC
Found at i:742119 original size:21 final size:21
Alignment explanation
Indices: 742060--742119 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
742050 TGGGAGGGAT
*
742060 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* * *
742081 CTGTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
742102 CTCTTGAACGATGAGAGG
1 CTCTTGAACGATGAGAGG
742120 TGAATCGGGC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.18, G:0.40, T:0.20
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:743645 original size:20 final size:20
Alignment explanation
Indices: 743603--743651 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
743593 TTAAATTCGT
743603 AACGCGAAAATGAAAATCAC
1 AACGCGAAAATGAAAATCAC
* **
743623 AACTCGAAAATGAAAATTGC
1 AACGCGAAAATGAAAATCAC
743643 AACGCGAAA
1 AACGCGAAA
743652 CTAAATTCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.18, G:0.16, T:0.12
Consensus pattern (20 bp):
AACGCGAAAATGAAAATCAC
Found at i:744055 original size:22 final size:22
Alignment explanation
Indices: 744018--744104 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
744008 TCTGAGAGAT
* *
744018 GGAGAT-A-GACGGATTTCACC
1 GGAGATGAGGACGAATTTCGCC
*
744038 GGAGATGAGGACGAATTTCGTC
1 GGAGATGAGGACGAATTTCGCC
* *
744060 GGAGATGGGGACAAATTTCGCC
1 GGAGATGAGGACGAATTTCGCC
* * *
744082 GGAGATGGGGACGGATGTCGCC
1 GGAGATGAGGACGAATTTCGCC
744104 G
1 G
744105 TAGAGAGTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 6 0.11
21 1 0.02
22 49 0.88
ACGTcount: A:0.25, C:0.17, G:0.39, T:0.18
Consensus pattern (22 bp):
GGAGATGAGGACGAATTTCGCC
Found at i:744230 original size:19 final size:20
Alignment explanation
Indices: 744208--744245 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
744198 AATATTGTGT
744208 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
744227 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
744246 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:744316 original size:21 final size:21
Alignment explanation
Indices: 744287--744327 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
744277 AATTACAAAT
* *
744287 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGAATTTGGAAAA
744308 TCGCATTGCGAATTTGGAAA
1 TCGCATTGCGAATTTGGAAA
744328 CTGTGTTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGAATTTGGAAAA
Found at i:746977 original size:2 final size:2
Alignment explanation
Indices: 746970--747021 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
746960 ATTACAAGAA
746970 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
747012 AT AT AT AT AT
1 AT AT AT AT AT
747022 CATCTCTCCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:753025 original size:64 final size:64
Alignment explanation
Indices: 752972--753135 Score: 224
Period size: 65 Copynumber: 2.5 Consensus size: 64
752962 CGGTGCACCA
752972 AGTGTGCATCGATGCATGCAATGCATTCGATGTTTGAAAATA-GCATGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGCAATGCATTCGATGTTTGAAAATATGCA-GAGTGCATCGATGCATGG
** *
753036 CTTGTGCATCGATGCAT-CAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATG
1 AGTGTGCATCGATGCATGC-AATGCATTCGATG-TTTGAAAATATGCAGAGTGCATCGATGCATG
753100 G
64 G
** * *
753101 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATGCATGCAATGCATTCGATGTTT
753136 CAATTAATTC
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
63 1 0.01
64 31 0.36
65 53 0.61
66 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGCAATGCATTCGATGTTTGAAAATATGCAGAGTGCATCGATGCATGG
Found at i:753124 original size:17 final size:19
Alignment explanation
Indices: 753086--753132 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
753076 ATATTCAGAG
753086 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
753105 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
753122 TGCATTCGATG
1 TGCA-TCGATG
753133 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:753155 original size:65 final size:61
Alignment explanation
Indices: 752976--753182 Score: 200
Period size: 65 Copynumber: 3.2 Consensus size: 61
752966 GCACCAAGTG
* * *
752976 TGCATCGATGCATGCAATGCATTCGATGTTTGAAAATAGCATGAGTGCATCGATGCATGGCTTG-
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAT-TCAT-AGTGCATCGATGCATGG--AGA
* *
753040 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGAGAA
1 TGCATCGATGCATGAAATGCATTCGATG-TTTG-AAA-ATTCATAGTGCATCGATGCATGGAG-A
* * * * *
753105 TGCATCGGTGCATGGAATGCATTCGATGTTTCAATTAATTCACTAATGCATCGATGCATGGTTGA
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATTCA-TAGTGCATCGATGCATGG-AGA
*
753170 TGCATCGGTGCAT
1 TGCATCGATGCAT
753183 CACATCAAAT
Statistics
Matches: 122, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
63 3 0.02
64 34 0.28
65 77 0.63
66 6 0.05
67 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (61 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATTCATAGTGCATCGATGCATGGAGA
Found at i:753375 original size:20 final size:21
Alignment explanation
Indices: 753352--753391 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
753342 GAATCGAATC
753352 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
753372 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
753392 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:760568 original size:64 final size:64
Alignment explanation
Indices: 760515--760678 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 64
760505 CGGTACACCA
*
760515 AGTGTGCATCGATGCATGCAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGCAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** **
760579 CTTGTGCATCGATGCAT-CAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATG
1 AGTGTGCATCGATGCATGC-AATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATG
760643 G
64 G
** * *
760644 AGAATGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATGCATGCAATGCATTCGATGTTT
760679 CAATTAATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
63 1 0.01
64 31 0.36
65 54 0.63
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGCAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:760667 original size:17 final size:19
Alignment explanation
Indices: 760629--760675 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
760619 ATATTCAGAG
760629 TGCATCGATGCATGGAGAA
1 TGCATCGATGCATGGAGAA
*
760648 TGCATCGGTGCAT-G-GAA
1 TGCATCGATGCATGGAGAA
760665 TGCATTCGATG
1 TGCA-TCGATG
760676 TTTCAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 12 0.48
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCATGGAGAA
Found at i:760698 original size:65 final size:62
Alignment explanation
Indices: 760519--760725 Score: 195
Period size: 65 Copynumber: 3.2 Consensus size: 62
760509 ACACCAAGTG
* * *
760519 TGCATCGATGCATGCAATGCATTCGATGTTTGAAAATAGC-CTGAGTGCATCGATGCATGGCTTG
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAT-TCACT-AGTGCATCGATGCATGG--AG
760583 -
62 A
* *
760583 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGAGA
1 TGCATCGATGCATGAAATGCATTCGATG-TTTG-AAA-ATTCACTAGTGCATCGATGCATGGAG-
760647 A
62 A
* * * * *
760648 TGCATCGGTGCATGGAATGCATTCGATGTTTCAATTAATTCACTAATGCATCGATGCATGGTTGA
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATTCACTAGTGCATCGATGCATGG-AGA
*
760713 TGCATCGGTGCAT
1 TGCATCGATGCAT
760726 CACCTCAAAT
Statistics
Matches: 121, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
63 3 0.02
64 34 0.28
65 77 0.64
66 5 0.04
67 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (62 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATTCACTAGTGCATCGATGCATGGAGA
Found at i:760918 original size:20 final size:21
Alignment explanation
Indices: 760895--760934 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
760885 GAATCGAATA
760895 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
760915 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
760935 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:761035 original size:12 final size:12
Alignment explanation
Indices: 761020--761070 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
761010 CCTGAAAAAG
*
761020 ACAAGGAAAATA
1 ACAAGTAAAATA
761032 ACAAGTAAAACTA
1 ACAAGTAAAA-TA
*
761045 TACAA-AAAAATGA
1 -ACAAGTAAAAT-A
761058 ACAAGTAAAATA
1 ACAAGTAAAATA
761070 A
1 A
761071 AAATGCTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 16 0.50
13 12 0.38
14 4 0.12
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.14
Consensus pattern (12 bp):
ACAAGTAAAATA
Found at i:766910 original size:12 final size:12
Alignment explanation
Indices: 766895--766944 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
766885 CCTAAAAAAG
*
766895 ACAAGGAAAATA
1 ACAAGTAAAATA
766907 ACAAGTAAAACTA
1 ACAAGTAAAA-TA
766920 TACAA--AAAATGA
1 -ACAAGTAAAAT-A
766932 ACAAGTAAAATA
1 ACAAGTAAAATA
766944 A
1 A
766945 AAATGCTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
11 5 0.16
12 16 0.50
13 7 0.22
14 4 0.12
ACGTcount: A:0.66, C:0.10, G:0.10, T:0.14
Consensus pattern (12 bp):
ACAAGTAAAATA
Found at i:769828 original size:81 final size:81
Alignment explanation
Indices: 769693--769853 Score: 295
Period size: 81 Copynumber: 2.0 Consensus size: 81
769683 TAGCCATGGA
* *
769693 GGAAAAATAACTATGTTTTCTCTCAAGAGAATGATCGAATTAAAAGGCACATGGCCAAACAAAAT
1 GGAAAAATAACTATGTTTTCTCTAAAGAGAAGGATCGAATTAAAAGGCACATGGCCAAACAAAAT
*
769758 CAGAAGGAAAATGATT
66 CAGAAGAAAAATGATT
769774 GGAAAAATAACTATGTTTTCTCTAAAGAGAAGGATCGAATTAAAAGGCACATGGCCAAACAAAAT
1 GGAAAAATAACTATGTTTTCTCTAAAGAGAAGGATCGAATTAAAAGGCACATGGCCAAACAAAAT
769839 CAGAAGAAAAATGAT
66 CAGAAGAAAAATGAT
769854 GTTAAACTAA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (81 bp):
GGAAAAATAACTATGTTTTCTCTAAAGAGAAGGATCGAATTAAAAGGCACATGGCCAAACAAAAT
CAGAAGAAAAATGATT
Found at i:770871 original size:32 final size:32
Alignment explanation
Indices: 770835--770911 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
770825 TTGAGGCCTT
*
770835 AGAGCCTACCCAAGAGAGTAACTTAGGGAC-TA
1 AGAGCCTACCCAAGAGAGCAAC-TAGGGACTTA
* * * *
770867 AGAGCCT-CCCAAGGGAGCATCTCGGGGCTTA
1 AGAGCCTACCCAAGAGAGCAACTAGGGACTTA
770898 AGAGCCTACCCAAG
1 AGAGCCTACCCAAG
770912 GGTCACCTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
30 5 0.13
31 20 0.53
32 13 0.34
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.14
Consensus pattern (32 bp):
AGAGCCTACCCAAGAGAGCAACTAGGGACTTA
Found at i:772520 original size:183 final size:184
Alignment explanation
Indices: 772212--772579 Score: 729
Period size: 183 Copynumber: 2.0 Consensus size: 184
772202 TCATTGTAGA
772212 ATTTCATCGTAATTTGGTCATTTCAATCAATTTAGTCATACAAAGTGCTTCCAACAATTTGGTCT
1 ATTTCATCGTAATTTGGTCATTTCAATCAATTTAGTCATACAAAGTGCTTCCAACAATTTGGTCT
772277 TCATATATTTATTTAGAACTCAGAAATATCTATGTATGATGCAGTCTCAAAGGTTAGGAATCACT
66 TCATATATTTATTTAGAACTCAGAAATATCTATGTATGATGCAGTCTCAAAGGTTAGGAATCACT
772342 TATCAGGGTTTCTAGATAATTCAGGAGTTCAATCGAT-AATTTATAGTTATATC
131 TATCAGGGTTTCTAGATAATTCAGGAGTTCAATCGATAAATTTATAGTTATATC
772395 ATTTCATCGTAATTTGGTCATTTCAATCAATTTAGTCATACAAAGTGCTTCCAACAATTTGGTCT
1 ATTTCATCGTAATTTGGTCATTTCAATCAATTTAGTCATACAAAGTGCTTCCAACAATTTGGTCT
772460 TCATATATTTATTTAGAACTCAGAAATATCTATGTATGATGCAGTCTCAAAGGTTAGGAATCACT
66 TCATATATTTATTTAGAACTCAGAAATATCTATGTATGATGCAGTCTCAAAGGTTAGGAATCACT
772525 TATCAGGGTTTCTAGATAATTCAGGAGTTCAATCGATAAATTTATAGTTATATC
131 TATCAGGGTTTCTAGATAATTCAGGAGTTCAATCGATAAATTTATAGTTATATC
772579 A
1 A
772580 AGGTTAGGAA
Statistics
Matches: 184, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
183 167 0.91
184 17 0.09
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (184 bp):
ATTTCATCGTAATTTGGTCATTTCAATCAATTTAGTCATACAAAGTGCTTCCAACAATTTGGTCT
TCATATATTTATTTAGAACTCAGAAATATCTATGTATGATGCAGTCTCAAAGGTTAGGAATCACT
TATCAGGGTTTCTAGATAATTCAGGAGTTCAATCGATAAATTTATAGTTATATC
Found at i:772622 original size:70 final size:70
Alignment explanation
Indices: 772509--772651 Score: 286
Period size: 70 Copynumber: 2.0 Consensus size: 70
772499 TGCAGTCTCA
772509 AAGGTTAGGAATCACTTATCAGGGTTTCTAGATAATTCAGGAGTTCAATCGATAAATTTATAGTT
1 AAGGTTAGGAATCACTTATCAGGGTTTCTAGATAATTCAGGAGTTCAATCGATAAATTTATAGTT
772574 ATATC
66 ATATC
772579 AAGGTTAGGAATCACTTATCAGGGTTTCTAGATAATTCAGGAGTTCAATCGATAAATTTATAGTT
1 AAGGTTAGGAATCACTTATCAGGGTTTCTAGATAATTCAGGAGTTCAATCGATAAATTTATAGTT
772644 ATATC
66 ATATC
772649 AAG
1 AAG
772652 TCAAAAATGA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (70 bp):
AAGGTTAGGAATCACTTATCAGGGTTTCTAGATAATTCAGGAGTTCAATCGATAAATTTATAGTT
ATATC
Found at i:776611 original size:36 final size:36
Alignment explanation
Indices: 776568--776647 Score: 160
Period size: 36 Copynumber: 2.2 Consensus size: 36
776558 GTTCTAAAAT
776568 AACATTTGGAGAGTAAGTGATAAACTTGACATTAAA
1 AACATTTGGAGAGTAAGTGATAAACTTGACATTAAA
776604 AACATTTGGAGAGTAAGTGATAAACTTGACATTAAA
1 AACATTTGGAGAGTAAGTGATAAACTTGACATTAAA
776640 AACATTTG
1 AACATTTG
776648 AAAAATCAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.29
Consensus pattern (36 bp):
AACATTTGGAGAGTAAGTGATAAACTTGACATTAAA
Found at i:780018 original size:22 final size:22
Alignment explanation
Indices: 779993--780039 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
779983 TGGGTAAAAG
779993 AAAAAACAAATCGCATCAGAAA
1 AAAAAACAAATCGCATCAGAAA
780015 AAAAAACAAATCGCATCAGAAA
1 AAAAAACAAATCGCATCAGAAA
780037 AAA
1 AAA
780040 GACCTTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.66, C:0.17, G:0.09, T:0.09
Consensus pattern (22 bp):
AAAAAACAAATCGCATCAGAAA
Found at i:786090 original size:6 final size:6
Alignment explanation
Indices: 786081--786117 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
786071 AGAAAGTAAG
786081 AAAAGC AAAAGC AAAAGC AAAAGC AAAAGC AAAAGC A
1 AAAAGC AAAAGC AAAAGC AAAAGC AAAAGC AAAAGC A
786118 TACTTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.16, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGC
Found at i:789266 original size:81 final size:83
Alignment explanation
Indices: 789094--789293 Score: 235
Period size: 83 Copynumber: 2.4 Consensus size: 83
789084 CACAACAGAG
* * * * * *
789094 TAGTAATTTAGCGACATTTTTATACAAATACCACAATAGGGTTAACCTATAGTGGCGTTTATGAA
1 TAGTAATTTAGCGGCGTTTTTATACAAATGCCATAATAGGGTTAACCTATAATGGCATTTATGAA
789159 ATAAATGCCGCAACATAT
66 ATAAATGCCGCAACATAT
* * * * *
789177 TAGCAATTTAGCGGCGTTTTTATACAAACGCCATAGTATGGTTTAA-CTATAATGGCATTT-T-T
1 TAGTAATTTAGCGGCGTTTTTATACAAATGCCATAATA-GGGTTAACCTATAATGGCATTTATGA
*
789239 AATAAATGCTGCAACATAT
65 AATAAATGCCGCAACATAT
*
789258 TAGTAATTTAGCAGCGTTTGTGTATACAAATGCCAT
1 TAGTAATTTAGCGGCGTTT-T-TATACAAATGCCAT
789294 GATAACTCGT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
81 35 0.35
82 2 0.02
83 56 0.57
84 6 0.06
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (83 bp):
TAGTAATTTAGCGGCGTTTTTATACAAATGCCATAATAGGGTTAACCTATAATGGCATTTATGAA
ATAAATGCCGCAACATAT
Found at i:790695 original size:17 final size:17
Alignment explanation
Indices: 790673--790707 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
790663 CCGGTCTGAC
*
790673 CCGACCCGACCCGTTGA
1 CCGACCCGACCCGGTGA
790690 CCGACCCGACCCGGTGA
1 CCGACCCGACCCGGTGA
790707 C
1 C
790708 ATTCTGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.49, G:0.26, T:0.09
Consensus pattern (17 bp):
CCGACCCGACCCGGTGA
Found at i:790746 original size:29 final size:29
Alignment explanation
Indices: 790702--790861 Score: 196
Period size: 29 Copynumber: 5.6 Consensus size: 29
790692 GACCCGACCC
790702 GGTGACATTCTGGGAAATATTTTGAAATA
1 GGTGACATTCTGGGAAATATTTTGAAATA
* *
790731 GGTGTCATTCTAGGAAATATTTTGAAATA
1 GGTGACATTCTGGGAAATATTTTGAAATA
* * *
790760 GGTGATATTCTGAGAAATATTTTGAAAAA
1 GGTGACATTCTGGGAAATATTTTGAAATA
** * *
790789 TATGACATTTTGGGAATTATTTTGAAATA
1 GGTGACATTCTGGGAAATATTTTGAAATA
*
790818 GGTGACATTCTGGGAATTATTTTGAAA-A
1 GGTGACATTCTGGGAAATATTTTGAAATA
* * *
790846 AGTGATATTTTGGGAA
1 GGTGACATTCTGGGAA
790862 TTTTCTAATT
Statistics
Matches: 111, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 14 0.13
29 97 0.87
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.38
Consensus pattern (29 bp):
GGTGACATTCTGGGAAATATTTTGAAATA
Found at i:790810 original size:58 final size:57
Alignment explanation
Indices: 790702--790863 Score: 216
Period size: 58 Copynumber: 2.8 Consensus size: 57
790692 GACCCGACCC
* * * * *
790702 GGTGACATTCTGGGAAATATTTTGAAATAGGTGTCATTCTAGGAAATATTTTGAAATA
1 GGTGACATTCTGGGAAATATTTTGAAA-AAGTGACATTTTGGGAATTATTTTGAAATA
* * *
790760 GGTGATATTCTGAGAAATATTTTGAAAAATATGACATTTTGGGAATTATTTTGAAATA
1 GGTGACATTCTGGGAAATATTTTGAAAAA-GTGACATTTTGGGAATTATTTTGAAATA
* *
790818 GGTGACATTCTGGGAATTATTTTGAAAAAGTGATATTTTGGGAATT
1 GGTGACATTCTGGGAAATATTTTGAAAAAGTGACATTTTGGGAATT
790864 TTCTAATTTT
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 16 0.18
58 74 0.82
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (57 bp):
GGTGACATTCTGGGAAATATTTTGAAAAAGTGACATTTTGGGAATTATTTTGAAATA
Found at i:791932 original size:26 final size:26
Alignment explanation
Indices: 791879--791932 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
791869 AGGGTAACTC
*
791879 TTTTATGAGATTTACTGCAGTATAAT
1 TTTTATGAGATTTACTGCACTATAAT
* *
791905 TTTTATGAGATTTACTGGACTATGAT
1 TTTTATGAGATTTACTGCACTATAAT
791931 TT
1 TT
791933 GTTTAGTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (26 bp):
TTTTATGAGATTTACTGCACTATAAT
Found at i:798028 original size:27 final size:27
Alignment explanation
Indices: 798006--798065 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
797996 TTGACCGGTT
798006 TGACCCAACCCGACCCGTTGACCGACC
1 TGACCCAACCCGACCCGTTGACCGACC
** *
798033 TGACCTGACCCGACCCGTTAACCGACC
1 TGACCCAACCCGACCCGTTGACCGACC
*
798060 CGACCC
1 TGACCC
798066 GGTAACATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.48, G:0.18, T:0.12
Consensus pattern (27 bp):
TGACCCAACCCGACCCGTTGACCGACC
Found at i:798061 original size:17 final size:17
Alignment explanation
Indices: 798039--798071 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
798029 GACCTGACCT
*
798039 GACCCGACCCGTTAACC
1 GACCCGACCCGGTAACC
798056 GACCCGACCCGGTAAC
1 GACCCGACCCGGTAAC
798072 ATTTTGGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.45, G:0.21, T:0.09
Consensus pattern (17 bp):
GACCCGACCCGGTAACC
Found at i:798169 original size:60 final size:59
Alignment explanation
Indices: 798070--798202 Score: 187
Period size: 60 Copynumber: 2.2 Consensus size: 59
798060 CGACCCGGTA
* * * *
798070 ACATTTTGGGAAATATTTTGAAAAAGGTGATATTTTGGGAAATATTTT-AAAAAAATGTG
1 ACATTTTGGGAATTATTTTGAAAAAGGTGACATTGTGGGAAATATTTTGAAAAAAA-ATG
*
798129 ACATTTTGGGAATTATTTTTGAAAAAGGTGACATTGTGGGAATTATTTTGAAAAAAAATG
1 ACATTTTGGGAATTA-TTTTGAAAAAGGTGACATTGTGGGAAATATTTTGAAAAAAAATG
*
798189 ATATTTTGGGAATT
1 ACATTTTGGGAATT
798203 TTCTAATTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
59 14 0.21
60 45 0.68
61 7 0.11
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (59 bp):
ACATTTTGGGAATTATTTTGAAAAAGGTGACATTGTGGGAAATATTTTGAAAAAAAATG
Found at i:798201 original size:30 final size:29
Alignment explanation
Indices: 798070--798202 Score: 158
Period size: 30 Copynumber: 4.5 Consensus size: 29
798060 CGACCCGGTA
* *
798070 ACATTTTGGGAAATATTTTGAAAAAGGTG
1 ACATTTTGGGAATTATTTTGAAAAAAGTG
* * *
798099 ATATTTTGGGAAATATTTTAAAAAAATGTG
1 ACATTTTGGGAATTATTTTGAAAAAA-GTG
*
798129 ACATTTTGGGAATTATTTTTGAAAAAGGTG
1 ACATTTTGGGAATTA-TTTTGAAAAAAGTG
* *
798159 ACATTGTGGGAATTATTTTGAAAAAAAATG
1 ACATTTTGGGAATTATTTTG-AAAAAAGTG
*
798189 ATATTTTGGGAATT
1 ACATTTTGGGAATT
798203 TTCTAATTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
29 28 0.31
30 52 0.58
31 9 0.10
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (29 bp):
ACATTTTGGGAATTATTTTGAAAAAAGTG
Found at i:799270 original size:26 final size:26
Alignment explanation
Indices: 799218--799271 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
799208 GGGTAACTCC
* *
799218 TTTATGAGATTTACTGTAGTATAATT
1 TTTATGAGATTTACTGGACTATAATT
*
799244 TTTATGAGATTTACTGGACTATGATT
1 TTTATGAGATTTACTGGACTATAATT
799270 TT
1 TT
799272 ATAGTAATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (26 bp):
TTTATGAGATTTACTGGACTATAATT
Found at i:808785 original size:40 final size:39
Alignment explanation
Indices: 808740--808854 Score: 103
Period size: 40 Copynumber: 2.9 Consensus size: 39
808730 TTTAAATAAT
*
808740 AAATTATAATATTAATATGAAATAATTTAAGAAATTTAAA
1 AAATTATAATGTTAATATGAAATAATTTAAGAAA-TTAAA
* * *
808780 AAATTAGAATGTT-ATAATAGCAA-AATTTAAGAAATTAAG
1 AAATTATAATGTTAAT-AT-GAAATAATTTAAGAAATTAAA
* * *
808819 AATTTATAACGTTGAAT-TGAAATAATTTGA-AAATTA
1 AAATTATAATGTT-AATATGAAATAATTTAAGAAATTA
808855 TAAATAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
38 9 0.15
39 23 0.38
40 24 0.39
41 5 0.08
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.36
Consensus pattern (39 bp):
AAATTATAATGTTAATATGAAATAATTTAAGAAATTAAA
Found at i:810215 original size:7 final size:7
Alignment explanation
Indices: 810203--810227 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
810193 GTAGTTTCTT
810203 ATTTAGC
1 ATTTAGC
810210 ATTTAGC
1 ATTTAGC
810217 ATTTAGC
1 ATTTAGC
810224 ATTT
1 ATTT
810228 TGGATTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (7 bp):
ATTTAGC
Found at i:816941 original size:35 final size:35
Alignment explanation
Indices: 816902--816981 Score: 160
Period size: 35 Copynumber: 2.3 Consensus size: 35
816892 TAATGCACAC
816902 AAGTATTTCAAAGATGGATGGGTTCAATTTTTAAT
1 AAGTATTTCAAAGATGGATGGGTTCAATTTTTAAT
816937 AAGTATTTCAAAGATGGATGGGTTCAATTTTTAAT
1 AAGTATTTCAAAGATGGATGGGTTCAATTTTTAAT
816972 AAGTATTTCA
1 AAGTATTTCA
816982 TAAATAGAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (35 bp):
AAGTATTTCAAAGATGGATGGGTTCAATTTTTAAT
Found at i:819852 original size:36 final size:35
Alignment explanation
Indices: 819750--819870 Score: 118
Period size: 35 Copynumber: 3.4 Consensus size: 35
819740 ACCATAGATT
* * *
819750 CGTAAGGGATTACCAACTCGATCGGTCTGAACCTA
1 CGTAAGGAATTACCAACTTGACCGGTCTGAACCTA
* * * * *
819785 CATAAGAAATTACCAATTTGACCAAG-ATGAACCTA
1 CGTAAGGAATTACCAACTTGACC-GGTCTGAACCTA
*
819820 CCGTAAGGAATTACCAGCTTGACCGGTCTGAACCTA
1 -CGTAAGGAATTACCAACTTGACCGGTCTGAACCTA
**
819856 TTTAAGGAATTACCA
1 CGTAAGGAATTACCA
819871 GTTTGATTGA
Statistics
Matches: 67, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
35 39 0.58
36 28 0.42
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (35 bp):
CGTAAGGAATTACCAACTTGACCGGTCTGAACCTA
Found at i:821029 original size:27 final size:27
Alignment explanation
Indices: 820997--821056 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
820987 ATTATTATCT
*
820997 TTTTACAATATAAGGATATTTTCATAA
1 TTTTACAACATAAGGATATTTTCATAA
**
821024 TTTTACCCCATAAGGATATTTTCATAA
1 TTTTACAACATAAGGATATTTTCATAA
821051 TTTTAC
1 TTTTAC
821057 CCAACTGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (27 bp):
TTTTACAACATAAGGATATTTTCATAA
Found at i:821057 original size:27 final size:27
Alignment explanation
Indices: 821006--821058 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
820996 TTTTTACAAT
821006 ATAAGGATATTTTCATAATTTTACCCC
1 ATAAGGATATTTTCATAATTTTACCCC
821033 ATAAGGATATTTTCATAATTTTACCC
1 ATAAGGATATTTTCATAATTTTACCC
821059 AACTGATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.42
Consensus pattern (27 bp):
ATAAGGATATTTTCATAATTTTACCCC
Found at i:821657 original size:16 final size:16
Alignment explanation
Indices: 821636--821677 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
821626 TTTCTCAAAG
821636 TCAACGGTCAGACCGA
1 TCAACGGTCAGACCGA
* *
821652 TCAACGGTTAGACCGG
1 TCAACGGTCAGACCGA
821668 TCAACGGTCA
1 TCAACGGTCA
821678 AGTTAAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (16 bp):
TCAACGGTCAGACCGA
Found at i:822503 original size:22 final size:22
Alignment explanation
Indices: 822478--822525 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
822468 ACTTTTTTGG
*
822478 TCAAAGTCAACGGTTAGACTGA
1 TCAAAGTCAACGGTCAGACTGA
*
822500 TCAAAGTCAACGGTCAGACTGG
1 TCAAAGTCAACGGTCAGACTGA
822522 TCAA
1 TCAA
822526 CGGTCAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (22 bp):
TCAAAGTCAACGGTCAGACTGA
Found at i:823002 original size:854 final size:847
Alignment explanation
Indices: 821362--823066 Score: 2545
Period size: 854 Copynumber: 2.0 Consensus size: 847
821352 GTAATAATGT
* * **
821362 GTCACATCAATTTTTGTACTCTACTGATAGAACATTTAAACTCCATTCGATCACTCACGAACTTG
1 GTCACATCAATTTTCGTACTCCACCAATAGAACATTTAAACTCCATTCGATCACTCACGAACTTG
*
821427 AATCTAACATCAAATAATTTCTCGAATACATAACAAACGAATTTACGTAAGAAACTGACCTTAAT
66 AATCTAACATCAAATAATTTCTCGAATACATAACAAACGAATTTACGTAAGAAACTGACCATAAT
* * *
821492 TGAGAAACCAAATTGATTCCGAAGGTAAAACACTAAAAAAAAGTTACCGAGTGCGAATTTGGCAA
131 TGAGAAACCAAATTGAATCCGAAGGTAAAACACTAAAAAAAACTTACCGAGTGCGAATTTGGAAA
* * * **
821557 ACGAACTTTAGATTCGGAAACAAGACTTTGAAAAACATAGAATAAGACTTTTTCGGAAAATTTAA
196 ACGAACTTCAGATTCAGAAACAAGACTTTGAAAAACATAAAATAAGACTTTTTCAAAAAATTTAA
* *
821622 CTTTTTTCTCAAAGTCAACGGTCAGACCGATCAACGGTTAGACCGGTCAACGGTCAAGTTAAACT
261 CTTTTTTCTCAAAGTCAACGGTCAGACCAATCAACGGTCAGACCGGTCAACGGTCAAGTTAAACT
*
821687 CAACAGGTCGGGTCAAAGTCAATAGGTCTAGTCGACTTGACTCAGTTCGGGTCAGATTGACTAGG
326 CAACAGGTCGGGTCAAAGTCAATAGGTCGAGTCGACTTGACTCAGTTCGGGTCAGATTGACTAGG
** **
821752 TTTAAACTGATTTGGGCCGATTCAAATTGGTACAGACCGACTGGACCAGTTCTAGAAGAAACCAG
391 TTTAAACTGATTTGGGCCGATTCAAACCGGTACAGACCGACTAAACCAGTTCTAGAAGAAACCAG
* * *
821817 AGTAGGGGAATAAGCCCCACGCATACACGACGGTGTGTGGTGTAGTGTGGTAGTGGCAACAGGCT
456 AGTAGGGGAATAAGCCCCACGCATACACGACGGCGTGTGGTGGAGTGTGGCAGTGGCAACAGGCT
*
821882 CGGGGTGATCGATCAACTCTTCCGAGAGCATCTACACATCATTTTCAACCAATATTTAACCAAAA
521 CGGGGTGATCGATCAACTCTTCCGAGAGCATCTACACATCATTTGCAACCAATATTTAACCAAAA
* *
821947 ATAGCCATCAATAATACCAAATAACCAAAAATAAAACTGAACTTACCCAACGACAGTCGGCTGAG
586 ATAGCCATCAATAATACCAAATAACCAAAAATAAAACTGAACTTACCCAACGACAGTCGACTAAG
* * *
822012 GAAACGATGATGCAGAGATGACCCACATGTCGGGTTTTTATTGGAATTGGTCGGGGAACACAACG
651 AAAACGACGATGCAGAGATGACCCACAGGTCGGGTTTTTATTGGAATTGGTCGGGGAACACAACG
* * *
822077 TTGGGGGTGGTGAGACACGACGGTCGACGGTTTGGAAAAAATCGACATAAAAGCAAGACGATCAG
716 CTAGGGGTGGTGAGACACGACGGTCGACGGTTTGGAAAAAATCAACATAAAAGCAAGACGATCAG
*
822142 GGGTGGAGACGACGAAGCTTTACGATAGGTTTTATGACGAACGTCATTGTCCCACGGTGGAATGG
781 GGGTGGAGACGACGAAGCTTTACGATAGGTTTTATGACGAACGTCATCGTCCCACGGTGGAATGG
822207 TG
846 TG
* * * *
822209 GTCACATCGATTTTCGTACTCCACCAATCGAACATTTTAACTCTATTCGATCACTCACGAACTTG
1 GTCACATCAATTTTCGTACTCCACCAATAGAACATTTAAACTCCATTCGATCACTCACGAACTTG
* *
822274 AATCTAACGTCAAATAATTTCTCGAATACATAGCAAACGAATTTACGTAAGAAACTGACCATAAT
66 AATCTAACATCAAATAATTTCTCGAATACATAACAAACGAATTTACGTAAGAAACTGACCATAAT
* *
822339 TGAGAAACCAAATTGAATCCGAAGGTAAAACACTAAAAAACGACTTACCGAGTGTGAATTTGGAA
131 TGAGAAACCAAATTGAATCCGAAGGTAAAACACTAAAAAA-AACTTACCGAGTGCGAATTTGGAA
* * ** **
822404 AACGTACTTCATATTCAGACTCGTGACTTTGAAAAACATAAAATAAGAC-TTTTCAAAAAATTTA
195 AACGAACTTCAGATTCAGAAACAAGACTTTGAAAAACATAAAATAAGACTTTTTCAAAAAATTTA
* * *
822468 ACTTTTTTGGTCAAAGTCAACGGTTAGACTGATCAAAGTCAACGGTCAGACTGGTCAACGGTCAA
260 ACTTTTTT-CTCAAAGTCAACGGTCAGAC----C-AA-TCAACGGTCAGACCGGTCAACGGTCAA
* ** *
822533 GTTAAATTCAACAGGTCGGGTCAAAGTCAATAGGTCGAGTCGGGTTGACTCAGTTCGGGTCGGAT
318 GTTAAACTCAACAGGTCGGGTCAAAGTCAATAGGTCGAGTCGACTTGACTCAGTTCGGGTCAGAT
* * * * * * **
822598 TGACTCA-GTTTAGATTGATTTGGGTCTATTCAAACCGGTGCAGACTGGTTAAACCAGTTCTAGA
383 TGACT-AGGTTTAAACTGATTTGGGCCGATTCAAACCGGTACAGACCGACTAAACCAGTTCTAGA
* * * *
822662 AGAAACCAGAGTAGGGGAATAAGCCCTACGCGTACACGGCGGCGTGTGGTGGGGTGTGGCAGTGG
447 AGAAACCAGAGTAGGGGAATAAGCCCCACGCATACACGACGGCGTGTGGTGGAGTGTGGCAGTGG
* **
822727 CAATAGGCTCGGGGTGATCGATCGTCTCTTCC-AGGAGCATCTACACATCATTTGCAACCAATAT
512 CAACAGGCTCGGGGTGATCGATCAACTCTTCCGA-GAGCATCTACACATCATTTGCAACCAATAT
*
822791 TTAACCAAAAATAGCCATCAATCATACCAAATAACCAAAAATAAAACTGAACTTACCCAACGACA
576 TTAACCAAAAATAGCCATCAATAATACCAAATAACCAAAAATAAAACTGAACTTACCCAACGACA
* * * * *
822856 TTCGACTAAGAAAACGACGATGTAGCGATGACCTATAGGTCGGGTTTTTATTGGAATTGGTCGGG
641 GTCGACTAAGAAAACGACGATGCAGAGATGACCCACAGGTCGGGTTTTTATTGGAATTGGTCGGG
** **
822921 GAACACAACGCTAGGGGTGGTGAGACACGGTGGTCGACGGTTTGGCCAAAATCAACATAAAAGCA
706 GAACACAACGCTAGGGGTGGTGAGACACGACGGTCGACGGTTTGGAAAAAATCAACATAAAAGCA
* * *
822986 AGGCGATC-GAGGGTGGAGACGATGAAGCTTTACGATAGGTTTTATGACGAACGTCGTCGTCCCA
771 AGACGATCAG-GGGTGGAGACGACGAAGCTTTACGATAGGTTTTATGACGAACGTCATCGTCCCA
823050 CGGTGGAATGGTG
835 CGGTGGAATGGTG
823063 GTCA
1 GTCA
823067 GGCTTTGGTC
Statistics
Matches: 765, Mismatches: 82, Indels: 15
0.89 0.10 0.02
Matches are distributed among these distances:
847 179 0.23
848 78 0.10
852 1 0.00
853 3 0.00
854 503 0.66
855 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (847 bp):
GTCACATCAATTTTCGTACTCCACCAATAGAACATTTAAACTCCATTCGATCACTCACGAACTTG
AATCTAACATCAAATAATTTCTCGAATACATAACAAACGAATTTACGTAAGAAACTGACCATAAT
TGAGAAACCAAATTGAATCCGAAGGTAAAACACTAAAAAAAACTTACCGAGTGCGAATTTGGAAA
ACGAACTTCAGATTCAGAAACAAGACTTTGAAAAACATAAAATAAGACTTTTTCAAAAAATTTAA
CTTTTTTCTCAAAGTCAACGGTCAGACCAATCAACGGTCAGACCGGTCAACGGTCAAGTTAAACT
CAACAGGTCGGGTCAAAGTCAATAGGTCGAGTCGACTTGACTCAGTTCGGGTCAGATTGACTAGG
TTTAAACTGATTTGGGCCGATTCAAACCGGTACAGACCGACTAAACCAGTTCTAGAAGAAACCAG
AGTAGGGGAATAAGCCCCACGCATACACGACGGCGTGTGGTGGAGTGTGGCAGTGGCAACAGGCT
CGGGGTGATCGATCAACTCTTCCGAGAGCATCTACACATCATTTGCAACCAATATTTAACCAAAA
ATAGCCATCAATAATACCAAATAACCAAAAATAAAACTGAACTTACCCAACGACAGTCGACTAAG
AAAACGACGATGCAGAGATGACCCACAGGTCGGGTTTTTATTGGAATTGGTCGGGGAACACAACG
CTAGGGGTGGTGAGACACGACGGTCGACGGTTTGGAAAAAATCAACATAAAAGCAAGACGATCAG
GGGTGGAGACGACGAAGCTTTACGATAGGTTTTATGACGAACGTCATCGTCCCACGGTGGAATGG
TG
Found at i:832287 original size:21 final size:19
Alignment explanation
Indices: 832259--832304 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
832249 TCATTGAATC
832259 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
832279 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
832298 ACTTAGT
1 A-TTAGT
832305 GGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:846280 original size:22 final size:20
Alignment explanation
Indices: 846229--846301 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
846219 CGATATAGCG
*
846229 TGGTATCGATACCCTCATC-A
1 TGGTATCGATACCC-CCTCTA
846249 TGGTATCGATACCCCTCTGCTA
1 TGGTATCGATACCCC-CT-CTA
*
846271 TGGTACCGATACCCCCTCTA
1 TGGTATCGATACCCCCTCTA
846291 -GGTATCGATAC
1 TGGTATCGATAC
846302 ACAATTTAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
19 11 0.23
20 18 0.38
21 3 0.06
22 15 0.32
ACGTcount: A:0.22, C:0.32, G:0.18, T:0.29
Consensus pattern (20 bp):
TGGTATCGATACCCCCTCTA
Found at i:848173 original size:17 final size:17
Alignment explanation
Indices: 848130--848208 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
848120 AATGTTTACA
*
848130 TTATCAGATGATTTTTAG
1 TTATCAGAT-ATTTATAG
* *
848148 TAATTAGATATTTATAG
1 TTATCAGATATTTATAG
*
848165 TTATAAGATTATTT-TCAG
1 TTATCAGA-TATTTAT-AG
* *
848183 TTATCAGATGTTTACAG
1 TTATCAGATATTTATAG
*
848200 TTCTCAGAT
1 TTATCAGAT
848209 GTTTTACAGT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
17 28 0.57
18 21 0.43
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.47
Consensus pattern (17 bp):
TTATCAGATATTTATAG
Found at i:848216 original size:18 final size:17
Alignment explanation
Indices: 848176--848224 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
848166 TATAAGATTA
848176 TTTT-CAGTTATCAGATG
1 TTTTACAGTT-TCAGATG
848193 -TTTACAGTTCTCAGATG
1 TTTTACAGTT-TCAGATG
848210 TTTTACAGTTTCAGA
1 TTTTACAGTTTCAGA
848225 CATATATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 3 0.10
17 17 0.59
18 9 0.31
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.45
Consensus pattern (17 bp):
TTTTACAGTTTCAGATG
Found at i:849966 original size:14 final size:14
Alignment explanation
Indices: 849947--849976 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
849937 AAGGGAGTAC
849947 TTATCAATTATCAG
1 TTATCAATTATCAG
*
849961 TTATCAATTATTAG
1 TTATCAATTATCAG
849975 TT
1 TT
849977 CAACTTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (14 bp):
TTATCAATTATCAG
Found at i:856187 original size:17 final size:18
Alignment explanation
Indices: 856165--856209 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
856155 AATGATTTTC
856165 AGTTATTAGA-TGTTTAT
1 AGTTATTAGATTGTTTAT
*
856182 AGTTATTAGATTTTTTAT
1 AGTTATTAGATTGTTTAT
856200 AGTTATTAGA
1 AGTTATTAGA
856210 CGTATATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (18 bp):
AGTTATTAGATTGTTTAT
Found at i:859655 original size:24 final size:24
Alignment explanation
Indices: 859628--859675 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
859618 GCATGACATG
*
859628 GTACATAGATGTTTTATACATCAT
1 GTACATAGATGGTTTATACATCAT
859652 GTACATAGATGGTTTATACATCAT
1 GTACATAGATGGTTTATACATCAT
859676 CAGGAAGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (24 bp):
GTACATAGATGGTTTATACATCAT
Found at i:864425 original size:17 final size:17
Alignment explanation
Indices: 864403--864440 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
864393 ACGGTCAACA
*
864403 GTCAACGGTCGGGTCGG
1 GTCAACGGTCAGGTCGG
864420 GTCAACGGTCAGGTCGG
1 GTCAACGGTCAGGTCGG
864437 GTCA
1 GTCA
864441 GATCAGACCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.24, G:0.42, T:0.18
Consensus pattern (17 bp):
GTCAACGGTCAGGTCGG
Found at i:875854 original size:24 final size:24
Alignment explanation
Indices: 875827--875872 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
875817 GCATGACATG
875827 GTACATAAATGTTTTATACATCGT
1 GTACATAAATGTTTTATACATCGT
*
875851 GTACATAGATGTTTTATACATC
1 GTACATAAATGTTTTATACATC
875873 ATCAGGAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (24 bp):
GTACATAAATGTTTTATACATCGT
Found at i:882374 original size:81 final size:81
Alignment explanation
Indices: 882273--882684 Score: 592
Period size: 81 Copynumber: 5.1 Consensus size: 81
882263 ATTCCTTTAG
* * * * * * **
882273 TCTTTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCATGATTGACACTTTTCTGTCAAATTA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGC
* *
882338 ACAACTAGGACATTAA
66 ACAGCTAGGCCATTAA
*
882354 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGC
* *
882419 ACAACTAGACCATTAA
66 ACAGCTAGGCCATTAA
* *
882435 TCTTTTACTCGAAGGTATTTAACATTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGC
882500 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * *
882516 TCTTTTACTCAAAGGTATTTAACCCTTCATATAACTGGCATAATTGACACATTTT-TTCCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-TTTTCTGCCAAATG
*
882580 CGCAGCTAGGCCATTAA
65 CACAGCTAGGCCATTAA
* * * *
882597 TCTTTTACTTAAAGGTATTTAACATTTCATCTAACTAGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGC
*
882662 ACAGCTATGCCATTAA
66 ACAGCTAGGCCATTAA
882678 TCTTTTA
1 TCTTTTA
882685 TTTTAGAATA
Statistics
Matches: 298, Mismatches: 31, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
80 3 0.01
81 291 0.98
82 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGC
ACAGCTAGGCCATTAA
Found at i:901880 original size:15 final size:13
Alignment explanation
Indices: 901845--901887 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
901835 AATCTTGATA
*
901845 ATTAACATATTTC
1 ATTAAAATATTTC
*
901858 ATTGAAATATCTTCC
1 ATTAAAATAT-TT-C
901873 ATTAAAATATTTC
1 ATTAAAATATTTC
901886 AT
1 AT
901888 AGTCGAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 11 0.44
14 4 0.16
15 10 0.40
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTAAAATATTTC
Found at i:902596 original size:23 final size:24
Alignment explanation
Indices: 902570--902620 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 24
902560 AAATTCTTCT
902570 AACATTCATAGAAACC-AAACATA
1 AACATTCATAGAAACCAAAACATA
*
902593 AACATTCATAGAAACCAAAACATG
1 AACATTCATAGAAACCAAAACATA
902617 AACA
1 AACA
902621 ATAAATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.57, C:0.22, G:0.06, T:0.16
Consensus pattern (24 bp):
AACATTCATAGAAACCAAAACATA
Found at i:902957 original size:20 final size:21
Alignment explanation
Indices: 902918--902960 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
902908 TATAATATAT
*
902918 ATATATATATTGGATGGATGG
1 ATATATATAATGGATGGATGG
*
902939 ATATAT-TAATGGGTGGATGG
1 ATATATATAATGGATGGATGG
902959 AT
1 AT
902961 GCTGCGGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (21 bp):
ATATATATAATGGATGGATGG
Found at i:904001 original size:23 final size:23
Alignment explanation
Indices: 903971--904014 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
903961 TGCAAAAAAA
903971 ATATAGTTTAATTTATATAAATT
1 ATATAGTTTAATTTATATAAATT
*
903994 ATATAGTTTAATTTATGTAAA
1 ATATAGTTTAATTTATATAAA
904015 GAAAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
ATATAGTTTAATTTATATAAATT
Found at i:904591 original size:17 final size:17
Alignment explanation
Indices: 904571--904604 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
904561 AAGGCATCAA
*
904571 CAGGCAGCAGGCGACAG
1 CAGGCAGCAGGCAACAG
*
904588 CAGGCGGCAGGCAACAG
1 CAGGCAGCAGGCAACAG
904605 GCAGTATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.41, T:0.00
Consensus pattern (17 bp):
CAGGCAGCAGGCAACAG
Found at i:904987 original size:26 final size:25
Alignment explanation
Indices: 904958--905035 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 25
904948 AATTAAAATA
904958 ATTAAGAAACAGTTTGAAATATTGAG
1 ATTAAGAAACAGTTTGAAATATT-AG
**
904984 ATTAA-AATTA-AAATT-AAA-A-TA-
1 ATTAAGAA--ACAGTTTGAAATATTAG
905005 ATTAAGAAACAGTTTGAAATATTTAG
1 ATTAAGAAACAGTTTGAAATA-TTAG
905031 ATTAA
1 ATTAA
905036 AATTAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
20 1 0.03
21 8 0.21
22 6 0.15
23 2 0.05
24 1 0.03
25 7 0.18
26 13 0.33
27 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.33
Consensus pattern (25 bp):
ATTAAGAAACAGTTTGAAATATTAG
Found at i:904994 original size:47 final size:47
Alignment explanation
Indices: 904940--905055 Score: 205
Period size: 47 Copynumber: 2.5 Consensus size: 47
904930 AACACCCTAA
904940 AAAATTAAAATTAAAATAATTAAGAAACAGTTTGAAATATTGAGATT
1 AAAATTAAAATTAAAATAATTAAGAAACAGTTTGAAATATTGAGATT
*
904987 AAAATTAAAATTAAAATAATTAAGAAACAGTTTGAAATATTTAGATT
1 AAAATTAAAATTAAAATAATTAAGAAACAGTTTGAAATATTGAGATT
* *
905034 AAAATTAAAAATAAAACAATTA
1 AAAATTAAAATTAAAATAATTA
905056 TATCATACCT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (47 bp):
AAAATTAAAATTAAAATAATTAAGAAACAGTTTGAAATATTGAGATT
Found at i:907514 original size:12 final size:12
Alignment explanation
Indices: 907499--907554 Score: 85
Period size: 12 Copynumber: 4.7 Consensus size: 12
907489 TAGGTTCGGA
907499 TTTGGGTTCAAG
1 TTTGGGTTCAAG
*
907511 TTTGAGTTCAAG
1 TTTGGGTTCAAG
907523 TTTGGGTTCAAG
1 TTTGGGTTCAAG
**
907535 TTTGGGTTCGGG
1 TTTGGGTTCAAG
907547 TTTGGGTT
1 TTTGGGTT
907555 TGGGTTCGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.12, C:0.07, G:0.36, T:0.45
Consensus pattern (12 bp):
TTTGGGTTCAAG
Found at i:907558 original size:30 final size:30
Alignment explanation
Indices: 907522--907599 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 30
907512 TTGAGTTCAA
* *
907522 GTTTGGGTTCAAGTTTGGGTTCGGGTTTGG
1 GTTTGGGTTCAAGTTTAGATTCGGGTTTGG
* * *
907552 GTTTGGGTTCGATTTTAGATTTGGGTTTGG
1 GTTTGGGTTCAAGTTTAGATTCGGGTTTGG
*
907582 GTTAGGGTT-AGAGTTTAG
1 GTTTGGGTTCA-AGTTTAG
907600 GTTTAGGGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.12, C:0.04, G:0.40, T:0.45
Consensus pattern (30 bp):
GTTTGGGTTCAAGTTTAGATTCGGGTTTGG
Found at i:907649 original size:23 final size:23
Alignment explanation
Indices: 907581--907638 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 23
907571 TTTGGGTTTG
* *
907581 GGTTAGGGTTAGAGTTTAGGTTTA
1 GGTTCGGGTTAGAG-TTAGGTTCA
907605 GGGTTCGGGTTAGAGTTAGGTTCA
1 -GGTTCGGGTTAGAGTTAGGTTCA
907629 GGTTCGGGTT
1 GGTTCGGGTT
907639 GATGTTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 10 0.32
24 8 0.26
25 13 0.42
ACGTcount: A:0.16, C:0.05, G:0.41, T:0.38
Consensus pattern (23 bp):
GGTTCGGGTTAGAGTTAGGTTCA
Found at i:907661 original size:13 final size:13
Alignment explanation
Indices: 907643--907696 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
907633 CGGGTTGATG
*
907643 TTTGGTTTTGGGT
1 TTTGGTTTAGGGT
*
907656 TTTGGTTTAGGGC
1 TTTGGTTTAGGGT
*
907669 TTGGGTTTAGGGT
1 TTTGGTTTAGGGT
**
907682 TTTAATTTAGGGT
1 TTTGGTTTAGGGT
907695 TT
1 TT
907697 AAGTTAGGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.09, C:0.02, G:0.35, T:0.54
Consensus pattern (13 bp):
TTTGGTTTAGGGT
Found at i:907697 original size:7 final size:6
Alignment explanation
Indices: 907534--907683 Score: 61
Period size: 6 Copynumber: 24.7 Consensus size: 6
907524 TTGGGTTCAA
* * * * * *
907534 GTTTGG GTTCGG GTTTGG GTTTGG GTTCGA TTTTAG ATTTGG GTTTGG
1 GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG GTTTGG
* * * * * * * * **
907582 GTTAGG GTTAGA GTTTAG GTTTAGG GTTCGG GTTAGA G-TTAG GTTCAG
1 GTTTGG GTTTGG GTTTGG GTTT-GG GTTTGG GTTTGG GTTTGG GTTTGG
* * * * *
907630 GTTCGG G-TTGAT GTTTGG TTTTGG GTTTTG GTTTAGG GCTTGG GTTTAGG
1 GTTTGG GTTTG-G GTTTGG GTTTGG GTTTGG GTTT-GG GTTTGG GTTT-GG
907680 GTTT
1 GTTT
907684 TAATTTAGGG
Statistics
Matches: 104, Mismatches: 34, Indels: 11
0.70 0.23 0.07
Matches are distributed among these distances:
5 4 0.04
6 83 0.80
7 17 0.16
ACGTcount: A:0.10, C:0.04, G:0.41, T:0.45
Consensus pattern (6 bp):
GTTTGG
Found at i:908455 original size:13 final size:15
Alignment explanation
Indices: 908439--908476 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
908429 ATTAATAAAC
908439 TATT-TAAAATTA-A
1 TATTATAAAATTATA
908452 TATTATAATAATTATA
1 TATTATAA-AATTATA
908468 TATTATAAA
1 TATTATAAA
908477 TACTATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.18
14 3 0.14
15 6 0.27
16 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTATAAAATTATA
Found at i:908472 original size:16 final size:15
Alignment explanation
Indices: 908421--908503 Score: 57
Period size: 15 Copynumber: 5.4 Consensus size: 15
908411 CATCCCTATA
*
908421 TAAT-TTATATTAAT
1 TAATATTATAATAAT
*
908435 AAACTATT-TAA-AAT
1 TAA-TATTATAATAAT
908449 TAATATTATAATAAT
1 TAATATTATAATAAT
908464 TATATATTATAAATACTAT
1 TA-ATATTAT-AATA--AT
*
908483 TAATATAATTAAT-AT
1 TAATATTA-TAATAAT
908498 TAATAT
1 TAATAT
908504 AACTTATATT
Statistics
Matches: 56, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
13 4 0.07
14 10 0.18
15 16 0.29
16 9 0.16
17 4 0.07
18 8 0.14
19 5 0.09
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATATTATAATAAT
Found at i:908498 original size:15 final size:15
Alignment explanation
Indices: 908446--908520 Score: 79
Period size: 15 Copynumber: 5.1 Consensus size: 15
908436 AACTATTTAA
908446 AATTAATATT-ATAAT
1 AATTAATATTAAT-AT
908461 AATTATATATT-ATA-
1 AATTA-ATATTAATAT
*
908475 AA-TACTATTAATAT
1 AATTAATATTAATAT
908489 AATTAATATTAATAT
1 AATTAATATTAATAT
908504 AACTT-ATATTAATAT
1 AA-TTAATATTAATAT
908519 AA
1 AA
908521 AATATAGTCT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
12 4 0.08
13 5 0.09
14 4 0.08
15 31 0.58
16 9 0.17
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAATATTAATAT
Found at i:908526 original size:15 final size:15
Alignment explanation
Indices: 908447--908558 Score: 68
Period size: 15 Copynumber: 7.1 Consensus size: 15
908437 ACTATTTAAA
*
908447 ATTAATATTATAATA-
1 ATTAATA-TAAAATAT
908462 ATTATATATTATAAATACT
1 ATTA-ATA-TA-AAATA-T
*
908481 ATTAATAT-AATTAAT
1 ATTAATATAAAAT-AT
**
908496 ATTAATATAACTTAT
1 ATTAATATAAAATAT
908511 ATTAATATAAAATAT
1 ATTAATATAAAATAT
* * *
908526 AGT-CTATAACATTAAT
1 ATTAATATAA-AAT-AT
908542 ATTAATATAAAATAT
1 ATTAATATAAAATAT
908557 AT
1 AT
908559 GTTATAAATT
Statistics
Matches: 77, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
14 5 0.06
15 39 0.51
16 16 0.21
17 10 0.13
18 3 0.04
19 4 0.05
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (15 bp):
ATTAATATAAAATAT
Found at i:908547 original size:31 final size:31
Alignment explanation
Indices: 908447--908569 Score: 102
Period size: 31 Copynumber: 4.1 Consensus size: 31
908437 ACTATTTAAA
* *
908447 ATTAATATT-ATA-ATAATTATATATTATAA-
1 ATTAATATTAATATA-AAATATATGTTATAAC
* **
908476 A-TACTATTAATATAATTAATAT-TAATATAAC
1 ATTAATATTAATATAA--AATATATGTTATAAC
908507 -TT-ATATTAATATAAAATATA-GTCTATAAC
1 ATTAATATTAATATAAAATATATGT-TATAAC
908536 ATTAATATTAATATAAAATATATGTTATAA-
1 ATTAATATTAATATAAAATATATGTTATAAC
908566 ATTA
1 ATTA
908570 TAGAGTATAG
Statistics
Matches: 77, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
28 11 0.14
29 11 0.14
30 25 0.32
31 28 0.36
32 2 0.03
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (31 bp):
ATTAATATTAATATAAAATATATGTTATAAC
Found at i:908724 original size:23 final size:23
Alignment explanation
Indices: 908692--908735 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
908682 TAGTACATTA
*
908692 ATATAAACTATAGTTTATAAATT
1 ATATAAACTATAGGTTATAAATT
*
908715 ATATATACTATAGGTTATAAA
1 ATATAAACTATAGGTTATAAA
908736 GTACAAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (23 bp):
ATATAAACTATAGGTTATAAATT
Found at i:908845 original size:2 final size:2
Alignment explanation
Indices: 908838--908876 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
908828 TACTAGAAGT
*
908838 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
908877 CTATGCATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:909056 original size:7 final size:7
Alignment explanation
Indices: 908966--909057 Score: 69
Period size: 7 Copynumber: 13.1 Consensus size: 7
908956 TGTTTATGTG
908966 TAGGGTT
1 TAGGGTT
*
908973 TAGGATT
1 TAGGGTT
*
908980 TAAGGTT
1 TAGGGTT
* *
908987 TACGATT
1 TAGGGTT
908994 TAGGGTT
1 TAGGGTT
***
909001 TACAATT
1 TAGGGTT
909008 TAGGGTT
1 TAGGGTT
*
909015 TAAGGTT
1 TAGGGTT
909022 TAGGGTT
1 TAGGGTT
*
909029 TAAGGTT
1 TAGGGTT
**
909036 TATGATTT
1 TA-GGGTT
909044 TA-GGTT
1 TAGGGTT
909050 TAGGGTT
1 TAGGGTT
909057 T
1 T
909058 TTATAAACTA
Statistics
Matches: 62, Mismatches: 21, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
6 4 0.06
7 54 0.87
8 4 0.06
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.46
Consensus pattern (7 bp):
TAGGGTT
Found at i:909058 original size:14 final size:14
Alignment explanation
Indices: 908966--909057 Score: 89
Period size: 14 Copynumber: 6.6 Consensus size: 14
908956 TGTTTATGTG
908966 TAGGGTTT-AGGATT
1 TAGGGTTTAAGG-TT
* * *
908980 TAAGGTTTACGATT
1 TAGGGTTTAAGGTT
*
908994 TAGGGTTTACA-ATT
1 TAGGGTTTA-AGGTT
909008 TAGGGTTTAAGGTT
1 TAGGGTTTAAGGTT
909022 TAGGGTTTAAGGTT
1 TAGGGTTTAAGGTT
* * *
909036 TATGATTTTAGGTT
1 TAGGGTTTAAGGTT
909050 TAGGGTTT
1 TAGGGTTT
909058 TTATAAACTA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
13 1 0.02
14 62 0.97
15 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.46
Consensus pattern (14 bp):
TAGGGTTTAAGGTT
Found at i:909193 original size:35 final size:36
Alignment explanation
Indices: 909152--909225 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
909142 ATATATATAC
*
909152 ATAGTTT-ATACATACATGTACTATAAGTTACATAT
1 ATAGTTTAATACATACATATACTATAAGTTACATAT
* *
909187 ATAGTTTACATGCATACATATACTATAGGTTACATAT
1 ATAGTTTA-ATACATACATATACTATAAGTTACATAT
909224 AT
1 AT
909226 TAACTATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 7 0.21
37 27 0.79
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (36 bp):
ATAGTTTAATACATACATATACTATAAGTTACATAT
Found at i:909388 original size:21 final size:21
Alignment explanation
Indices: 909350--909390 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
909340 ATTTATGGTT
* * *
909350 TAGGATTTATGTTTTAGGGTA
1 TAGGATTTAGGATATAGGGTA
909371 TAGGATTTAGGATATAGGGT
1 TAGGATTTAGGATATAGGGT
909391 TTTTATAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (21 bp):
TAGGATTTAGGATATAGGGTA
Found at i:909559 original size:28 final size:26
Alignment explanation
Indices: 909507--909585 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 26
909497 ATACTATATT
* *
909507 AATGTTTATACATACATAGTTTATATAC
1 AATGTTTAT--ATATATAGTTTATAAAC
909535 AATGTTTATATATATAGTTCGTATAAAC
1 AATGTTTATATATATAGTT--TATAAAC
*
909563 -ATAATTTATATATATAGTTTATA
1 AAT-GTTTATATATATAGTTTATA
909586 TATAAACTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
26 13 0.29
27 2 0.04
28 30 0.67
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.46
Consensus pattern (26 bp):
AATGTTTATATATATAGTTTATAAAC
Found at i:909576 original size:2 final size:2
Alignment explanation
Indices: 909569--909623 Score: 53
Period size: 2 Copynumber: 28.0 Consensus size: 2
909559 AAACATAATT
* *
909569 TA TA TA TA TA GTT TA TA TA TA AA CT- TA TA T- TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
909611 TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA
909624 ATTGTTTTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
1 3 0.07
2 40 0.91
3 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:909583 original size:13 final size:13
Alignment explanation
Indices: 909522--909618 Score: 72
Period size: 13 Copynumber: 7.2 Consensus size: 13
909512 TTATACATAC
*
909522 ATAGTTTATATAC
1 ATAGTTTATATAT
909535 A-ATGTTTATATAT
1 ATA-GTTTATATAT
* *
909548 ATAGTTCGTATAAAC
1 ATAGTT--TATATAT
*
909563 ATAATTTATATAT
1 ATAGTTTATATAT
909576 ATAGTTTATATAT
1 ATAGTTTATATAT
* *
909589 AAACTTATATTATAT
1 ATAGTT-TA-TATAT
*
909604 ATA-TATATATAT
1 ATAGTTTATATAT
909616 ATA
1 ATA
909619 TTATAATTGT
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
12 9 0.13
13 37 0.55
14 4 0.06
15 17 0.25
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (13 bp):
ATAGTTTATATAT
Found at i:909587 original size:28 final size:28
Alignment explanation
Indices: 909522--909618 Score: 83
Period size: 28 Copynumber: 3.4 Consensus size: 28
909512 TTATACATAC
* *
909522 ATAGTTTATATACA-AT-GTTTATATAT
1 ATAGTTTATATAAACATAATTTATATAT
**
909548 ATAGTTCGTATAAACATAATTTATATAT
1 ATAGTTTATATAAACATAATTTATATAT
*
909576 ATAGTTTATATATAAACTTATATTATATATAT
1 ATAG-TT-TATATAAACATA-ATT-TATATAT
*
909608 ATA-TATATATA
1 ATAGTTTATATA
909619 TTATAATTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
26 11 0.19
27 2 0.04
28 13 0.23
29 8 0.14
30 10 0.18
31 3 0.05
32 10 0.18
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (28 bp):
ATAGTTTATATAAACATAATTTATATAT
Found at i:909589 original size:17 final size:17
Alignment explanation
Indices: 909569--909623 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
909559 AAACATAATT
909569 TATATATATAGT-TTATA
1 TATATATATA-TATTATA
*
909586 TATAAACT-TATATTATA
1 TATATA-TATATATTATA
909603 TATATATATATA-TATA
1 TATATATATATATTATA
909619 T-TATA
1 TATATA
909624 ATTGTTTTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 4 0.12
16 7 0.21
17 21 0.64
18 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TATATATATATATTATA
Found at i:909590 original size:30 final size:31
Alignment explanation
Indices: 909539--909619 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 31
909529 ATATACAATG
**
909539 TTTATATATATAG-TT-CGTATAAACATA-A
1 TTTATATATATAGTTTATATATAAACATATA
*
909567 TTTATATATATAGTTTATATATAAACTTATA
1 TTTATATATATAGTTTATATATAAACATATA
*
909598 TTATATATATATA-TATATATAT
1 TT-TATATATATAGTTTATATAT
909620 TATAATTGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 13 0.29
29 2 0.04
30 9 0.20
31 11 0.24
32 10 0.22
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (31 bp):
TTTATATATATAGTTTATATATAAACATATA
Found at i:909606 original size:21 final size:21
Alignment explanation
Indices: 909582--909623 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
909572 ATATATAGTT
909582 TATATATAAACT-TATATTATA
1 TATATATAAA-TATATATTATA
*
909603 TATATATATATATATATTATA
1 TATATATAAATATATATTATA
909624 ATTGTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TATATATAAATATATATTATA
Found at i:910953 original size:18 final size:18
Alignment explanation
Indices: 910930--910968 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
910920 CGGTCATAAT
*
910930 CCGACCCGTTGACCCGAC
1 CCGACCCGTTGACCCAAC
*
910948 CCGACCCTTTGACCCAAC
1 CCGACCCGTTGACCCAAC
910966 CCG
1 CCG
910969 TTTACCGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.51, G:0.18, T:0.13
Consensus pattern (18 bp):
CCGACCCGTTGACCCAAC
Found at i:912950 original size:175 final size:175
Alignment explanation
Indices: 912659--913011 Score: 706
Period size: 175 Copynumber: 2.0 Consensus size: 175
912649 CTCAGATCTA
912659 GATCGTATTCAGTACTAGGAATTGGACTTTTGTTCGACAAATCAACCACGAAGACCAAATTGAAT
1 GATCGTATTCAGTACTAGGAATTGGACTTTTGTTCGACAAATCAACCACGAAGACCAAATTGAAT
912724 GGAATGGAAGTACAACATGTATCTGAAATTCAGGAACGTTTAAATTATTCTGGAAAATCCCAAAG
66 GGAATGGAAGTACAACATGTATCTGAAATTCAGGAACGTTTAAATTATTCTGGAAAATCCCAAAG
912789 TAACTGGATTGGACTTGAATGTTAAATGAACTAAGTAACCTCAAT
131 TAACTGGATTGGACTTGAATGTTAAATGAACTAAGTAACCTCAAT
912834 GATCGTATTCAGTACTAGGAATTGGACTTTTGTTCGACAAATCAACCACGAAGACCAAATTGAAT
1 GATCGTATTCAGTACTAGGAATTGGACTTTTGTTCGACAAATCAACCACGAAGACCAAATTGAAT
912899 GGAATGGAAGTACAACATGTATCTGAAATTCAGGAACGTTTAAATTATTCTGGAAAATCCCAAAG
66 GGAATGGAAGTACAACATGTATCTGAAATTCAGGAACGTTTAAATTATTCTGGAAAATCCCAAAG
912964 TAACTGGATTGGACTTGAATGTTAAATGAACTAAGTAACCTCAAT
131 TAACTGGATTGGACTTGAATGTTAAATGAACTAAGTAACCTCAAT
913009 GAT
1 GAT
913012 TGAGGATTAA
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 178 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (175 bp):
GATCGTATTCAGTACTAGGAATTGGACTTTTGTTCGACAAATCAACCACGAAGACCAAATTGAAT
GGAATGGAAGTACAACATGTATCTGAAATTCAGGAACGTTTAAATTATTCTGGAAAATCCCAAAG
TAACTGGATTGGACTTGAATGTTAAATGAACTAAGTAACCTCAAT
Found at i:913672 original size:24 final size:24
Alignment explanation
Indices: 913578--913677 Score: 85
Period size: 24 Copynumber: 4.2 Consensus size: 24
913568 GAATTTTATC
* *
913578 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * * *
913602 TGACATCTTATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * * *
913626 TGAT-TCCTAACCTGGATTCTGTTA
1 TGATAT-CTGATCTGAATTCTGTTT
*
913650 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
913674 TGAT
1 TGAT
913678 TTTTGATATC
Statistics
Matches: 57, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
23 1 0.02
24 55 0.96
25 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.48
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:913851 original size:2 final size:2
Alignment explanation
Indices: 913844--913872 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
913834 GGGATGGGGG
913844 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
913873 GTTTTAAAAA
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:915658 original size:18 final size:18
Alignment explanation
Indices: 915635--915695 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
915625 GGTCATAACT
915635 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
915653 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
**
915671 CGACCCGACCATTTGACC
1 CGACCCGACCCGTTGACC
*
915689 CAACCCG
1 CGACCCG
915696 TTGACCGACG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.20, C:0.49, G:0.20, T:0.11
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:915712 original size:31 final size:33
Alignment explanation
Indices: 915654--915721 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 33
915644 CCGTTGACCC
*
915654 GACCCGACCCGTTGACCCGACCCGACCA-T-TT
1 GACCCAACCCGTTGACCCGACCCGACCACTGTT
**
915685 GACCCAACCCGTTGA-CCGACGTTGACCACTGTT
1 GACCCAACCCGTTGACCCGAC-CCGACCACTGTT
915718 GACC
1 GACC
915722 AAAACTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 5 0.16
31 19 0.61
32 1 0.03
33 6 0.19
ACGTcount: A:0.21, C:0.41, G:0.21, T:0.18
Consensus pattern (33 bp):
GACCCAACCCGTTGACCCGACCCGACCACTGTT
Found at i:918276 original size:24 final size:24
Alignment explanation
Indices: 918170--918276 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
918160 ATATTTTATC
* *
918170 TGATTTCTGATTTGAATTCTGTTT
1 TGATTTCTGATCTGAATTATGTTT
** * * *
918194 TGACATCTGATCTGAAATCTGTTC
1 TGATTTCTGATCTGAATTATGTTT
* * * * *
918218 TGATTCCTAACCTGGATTATGTTA
1 TGATTTCTGATCTGAATTATGTTT
*
918242 TGATATCTGATCTGAATTATGTTT
1 TGATTTCTGATCTGAATTATGTTT
*
918266 TGATTTTTGAT
1 TGATTTCTGAT
918277 ATCTCCGTTT
Statistics
Matches: 61, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.49
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTATGTTT
Found at i:919133 original size:16 final size:15
Alignment explanation
Indices: 919112--919145 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
919102 TAGTCTTTAT
919112 CTGTTTCGGACCTGAA
1 CTGTTT-GGACCTGAA
*
919128 CTGTTTTGACCTGAA
1 CTGTTTGGACCTGAA
919143 CTG
1 CTG
919146 ACATCAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (15 bp):
CTGTTTGGACCTGAA
Done.