Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007888.1 Hibiscus syriacus cultivar Beakdansim tig00110270_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: 1558302
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:906026 original size:30 final size:30
Alignment explanation
Indices: 905967--906055 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
905957 CCCGAATGAC
* * *
905967 CTATCCAGAGGTCACACAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
905996 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
906026 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
906056 ACTGTCCATA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
29 18 0.33
30 37 0.67
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:906091 original size:31 final size:31
Alignment explanation
Indices: 906051--906151 Score: 132
Period size: 31 Copynumber: 3.2 Consensus size: 31
906041 AAAGATCCTC
*
906051 GGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAAACTGTCCATATGTTCCATAGAACATA
* * *
906082 GGTATACTGTCCATATGTCTCGAAAG-ACATA
1 GGTAAACTGTCCATATGT-TCCATAGAACATA
*
906113 GGTAAAACTGTCCATATGTTCCGTAGAACATA
1 GGT-AAACTGTCCATATGTTCCATAGAACATA
906145 GGTAAAC
1 GGTAAAC
906152 CCTCGACTCT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 33 0.56
32 26 0.44
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (31 bp):
GGTAAACTGTCCATATGTTCCATAGAACATA
Found at i:906477 original size:21 final size:21
Alignment explanation
Indices: 906453--906492 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
906443 CATATGTCTG
*
906453 TCTTATCTCATATCCTATAAT
1 TCTTAGCTCATATCCTATAAT
* *
906474 TCTTAGCTTATATCTTATA
1 TCTTAGCTCATATCCTATA
906493 TCACATGTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.20, G:0.03, T:0.50
Consensus pattern (21 bp):
TCTTAGCTCATATCCTATAAT
Found at i:906948 original size:29 final size:29
Alignment explanation
Indices: 906894--906949 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
906884 TTTCTCTTGT
* *
906894 TATCATATAAATCATTGCCATATAACACA
1 TATCATATAAATCATTACCACATAACACA
*
906923 TATCATATAAATTCA-TACCACCTAACA
1 TATCATATAAA-TCATTACCACATAACA
906950 TGTAATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.87
30 3 0.13
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (29 bp):
TATCATATAAATCATTACCACATAACACA
Found at i:907369 original size:21 final size:21
Alignment explanation
Indices: 907339--907383 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
907329 ATTCTGTCGT
* *
907339 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
907360 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
907381 TTG
1 TTG
907384 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:910576 original size:30 final size:30
Alignment explanation
Indices: 910517--910605 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
910507 CCCGAAGGAC
* * *
910517 CTATCCAGAGGTCACACAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
910546 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
910576 CTGTCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
910606 ACTGTCCATA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
29 18 0.33
30 37 0.67
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:910641 original size:31 final size:31
Alignment explanation
Indices: 910601--910701 Score: 123
Period size: 31 Copynumber: 3.2 Consensus size: 31
910591 AAAGATCCTC
*
910601 GGTAAACTGTCCATATGTTCCTTAGAACATA
1 GGTAAACTGTCCATATGTTCCATAGAACATA
* * *
910632 GGTATACTGTCCATATGTCTCAAAAG-ACATA
1 GGTAAACTGTCCATATGT-TCCATAGAACATA
* *
910663 GGTAAAATTGTCCATATGTTCCGTAGAACATA
1 GGT-AAACTGTCCATATGTTCCATAGAACATA
910695 GGTAAAC
1 GGTAAAC
910702 CCTCGACTCT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
31 32 0.56
32 25 0.44
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (31 bp):
GGTAAACTGTCCATATGTTCCATAGAACATA
Found at i:910694 original size:32 final size:32
Alignment explanation
Indices: 910604--910700 Score: 117
Period size: 32 Copynumber: 3.1 Consensus size: 32
910594 GATCCTCGGT
*
910604 AAACTGTCCATATGTTCCTTAGAACATAGGT-
1 AAACTGTCCATATGTTCCATAGAACATAGGTA
* * *
910635 ATACTGTCCATATGTCTCAAAAG-ACATAGGTA
1 AAACTGTCCATATGT-TCCATAGAACATAGGTA
* *
910667 AAATTGTCCATATGTTCCGTAGAACATAGGTA
1 AAACTGTCCATATGTTCCATAGAACATAGGTA
910699 AA
1 AA
910701 CCCTCGACTC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
31 26 0.48
32 28 0.52
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (32 bp):
AAACTGTCCATATGTTCCATAGAACATAGGTA
Found at i:911501 original size:29 final size:29
Alignment explanation
Indices: 911447--911502 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
911437 TTTCTCTTGT
* *
911447 TATCATATAAATCATTGCCATATAACACA
1 TATCATATAAATCATTACCACATAACACA
*
911476 TATCATATAAATTCA-TACCACCTAACA
1 TATCATATAAA-TCATTACCACATAACA
911503 TGTAATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.87
30 3 0.13
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (29 bp):
TATCATATAAATCATTACCACATAACACA
Found at i:911921 original size:21 final size:21
Alignment explanation
Indices: 911891--911935 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
911881 ATTCTGTCGT
*
911891 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
911912 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
911933 TTG
1 TTG
911936 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:915753 original size:19 final size:19
Alignment explanation
Indices: 915681--915887 Score: 79
Period size: 19 Copynumber: 10.4 Consensus size: 19
915671 TAAAAATATT
*
915681 AGATAACAAATAATAAAAAA
1 AGATAA-AAAAAATAAAAAA
915701 TA-A-AAAAATAAAGTAAAAAA
1 -AGATAAAAA-AAA-TAAAAAA
* *
915721 A-ATGAAAATGAAAATGAAAAT
1 AGAT-AAAA--AAAATAAAAAA
915742 AGATAAAAAAAATAAAAAA
1 AGATAAAAAAAATAAAAAA
* * *
915761 ATATAAAAAATATTAAAATGAC
1 AGATAAAAAA-AATAAAA--AA
*
915783 A-ATAATAAAAAATAAAGATA
1 AGATAA-AAAAAATAAA-AAA
** *
915803 AG-TGAAATTAAGT-AAAAA
1 AGAT-AAAAAAAATAAAAAA
915821 A-ATAAAATAAAATAAAAAA
1 AGATAAAA-AAAATAAAAAA
*
915840 ATA-AAAAAAAATAAAAAA
1 AGATAAAAAAAATAAAAAA
* *
915858 AAACAAGATAGAAAATAAAAAA
1 AGATAA-A-A-AAAATAAAAAA
*
915880 AAATAAAA
1 AGATAAAA
915888 GGGTTAAATT
Statistics
Matches: 144, Mismatches: 20, Indels: 45
0.69 0.10 0.22
Matches are distributed among these distances:
17 3 0.02
18 23 0.16
19 38 0.26
20 23 0.16
21 28 0.19
22 28 0.19
23 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.16
Consensus pattern (19 bp):
AGATAAAAAAAATAAAAAA
Found at i:915771 original size:30 final size:30
Alignment explanation
Indices: 915671--915772 Score: 86
Period size: 31 Copynumber: 3.3 Consensus size: 30
915661 TCTAAAAAGG
*
915671 TAAAAATATTAGATAACAAATAAT-AAAAAATA
1 TAAAAA-A-TAGATAA-AAAAAATAAAAAAATA
*
915703 -AAAAAATAAAGTAAAAAAAATGAAAATGAAA-A
1 TAAAAAATAGA-TAAAAAAAAT-AAAA--AAATA
*
915735 T-GAAAATAGATAAAAAAAATAAAAAAATA
1 TAAAAAATAGATAAAAAAAATAAAAAAATA
915764 TAAAAAATA
1 TAAAAAATA
915773 TTAAAATGAC
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
28 3 0.05
29 11 0.19
30 14 0.25
31 18 0.32
32 8 0.14
33 3 0.05
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.19
Consensus pattern (30 bp):
TAAAAAATAGATAAAAAAAATAAAAAAATA
Found at i:915798 original size:50 final size:53
Alignment explanation
Indices: 915683--915858 Score: 142
Period size: 50 Copynumber: 3.5 Consensus size: 53
915673 AAAATATTAG
*
915683 ATAACAAATAATAAAAAATAAAAAAATAAAGTAAAAAAAATGAAAATGAAAATGA
1 ATAAAAAATAA-AAAAAATAAAAAAAT-AAGTAAAAAAAATGAAAATGAAAATGA
* * * * *
915738 A-AATAGATAAAAAAAATAAAAAAAT-A-TAAAAAATATTAAAATGACAAT-A
1 ATAAAAAATAAAAAAAATAAAAAAATAAGTAAAAAAAATGAAAATGAAAATGA
* * * *
915787 ATAAAAAATAAAGATAAGT--GAAATTAAGT-AAAAAAAT-AAAAT-AAAAT--
1 ATAAAAAATAAA-AAAAATAAAAAAATAAGTAAAAAAAATGAAAATGAAAATGA
915834 A-AAAAAATAAAAAAAAATAAAAAAA
1 ATAAAAAAT-AAAAAAAATAAAAAAA
915859 AACAAGATAG
Statistics
Matches: 97, Mismatches: 17, Indels: 21
0.72 0.13 0.16
Matches are distributed among these distances:
46 11 0.11
47 4 0.04
48 7 0.07
49 11 0.11
50 35 0.36
51 6 0.06
53 15 0.15
54 7 0.07
55 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.18
Consensus pattern (53 bp):
ATAAAAAATAAAAAAAATAAAAAAATAAGTAAAAAAAATGAAAATGAAAATGA
Found at i:915886 original size:10 final size:10
Alignment explanation
Indices: 915688--915887 Score: 102
Period size: 10 Copynumber: 18.8 Consensus size: 10
915678 ATTAGATAAC
*
915688 AAATAATAAA
1 AAATAAAAAA
915698 AAATAAAAAA
1 AAATAAAAAA
915708 ATAA-AGTAAAAA
1 A-AATA--AAAAA
*
915720 AAATGAAAATGA
1 AAAT-AAAA-AA
* *
915732 AAATGAAAAT
1 AAATAAAAAA
*
915742 AGAT-AAAAA
1 AAATAAAAAA
915751 AAATAAAAAA
1 AAATAAAAAA
*
915761 ATATAAAAAA
1 AAATAAAAAA
* * *
915771 TATTAAAATGA
1 AAATAAAA-AA
* *
915782 CAATAATAAA
1 AAATAAAAAA
915792 AAATAAAGATAA
1 AAATAAA-A-AA
915804 GTGAAATTAAGTAAAA
1 ---AAA-TAA--AAAA
*
915820 AAATAAAATA
1 AAATAAAAAA
915830 AAAT--AAAA
1 AAATAAAAAA
915838 AAATAAAAAA
1 AAATAAAAAA
915848 AAATAAAAAA
1 AAATAAAAAA
* *
915858 AAACAAGATAGA
1 AAATAA-A-AAA
915870 AAATAAAAAA
1 AAATAAAAAA
915880 AAATAAAA
1 AAATAAAA
915888 GGGTTAAATT
Statistics
Matches: 145, Mismatches: 25, Indels: 40
0.69 0.12 0.19
Matches are distributed among these distances:
8 7 0.05
9 7 0.05
10 75 0.52
11 19 0.13
12 23 0.16
13 4 0.03
15 3 0.02
16 5 0.03
17 1 0.01
18 1 0.01
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.17
Consensus pattern (10 bp):
AAATAAAAAA
Found at i:917618 original size:11 final size:11
Alignment explanation
Indices: 917602--917626 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
917592 AGGAAATGTG
917602 GGTTAATATAC
1 GGTTAATATAC
917613 GGTTAATATAC
1 GGTTAATATAC
917624 GGT
1 GGT
917627 AGTACCGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (11 bp):
GGTTAATATAC
Found at i:918362 original size:227 final size:228
Alignment explanation
Indices: 917873--918590 Score: 1341
Period size: 227 Copynumber: 3.1 Consensus size: 228
917863 GTTATATTGT
* *
917873 AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTATT
917937 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
*
918002 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
918067 AAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAATTGAAACATAAATTACATAACTTTAAAA
*
918100 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTATT
918165 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
* *
918230 TAATTTTTTATGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
918295 AAAAATTGAAACATAAATTACATAACTTT-AAA
196 AAAAATTGAAACATAAATTACATAACTTTAAAA
*
918327 AAAGTATATATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTGGAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTATT
918392 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
918457 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-A
918522 AAAAAATTGAAACATAAATTACATAACTTTAAAAA
195 AAAAAATTGAAACATAAATTACATAACTTT-AAAA
918557 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
918591 GTATAAAAGT
Statistics
Matches: 476, Mismatches: 11, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
227 236 0.50
228 204 0.43
230 36 0.08
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAATATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:918662 original size:20 final size:19
Alignment explanation
Indices: 918639--918685 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
918629 CGATATACCA
918639 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
918659 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
918679 GGTAAAA
1 GGTAAAA
918686 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:918843 original size:20 final size:19
Alignment explanation
Indices: 918820--918866 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
918810 CGATATAACA
918820 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
918840 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
918860 GGTAAAA
1 GGTAAAA
918867 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:918868 original size:17 final size:19
Alignment explanation
Indices: 918829--918871 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
918819 AGGTAAAAAT
918829 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
918849 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
918866 ATGATA
1 ATGATA
918872 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:921111 original size:21 final size:21
Alignment explanation
Indices: 921087--921130 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
921077 AAGACAATCA
921087 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
921108 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
921129 AG
1 AG
921131 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:921206 original size:33 final size:33
Alignment explanation
Indices: 921164--921229 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
921154 AAATAGATGG
*
921164 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
921197 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
921230 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:923043 original size:19 final size:19
Alignment explanation
Indices: 923019--923067 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
923009 AATGTAGGGT
923019 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
923038 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
923057 TATTTTTGTAT
1 TAATTTTGTAT
923068 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:923786 original size:199 final size:200
Alignment explanation
Indices: 923186--924154 Score: 1768
Period size: 199 Copynumber: 4.9 Consensus size: 200
923176 CAATATGGCC
*
923186 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
923251 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTATCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
* *
923316 GAATATGTCTAAATAATGTGTCGACACTAATTTAGATTGTGTCGATATTGTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
923381 TGGAA
196 TGGAA
* *
923386 AACATGGTGCAACCATAAAGTGTCGATCCATGTATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
923451 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
*
923516 GAATATGTCTAAATAATGTATCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
923581 TGGAA
196 TGGAA
923586 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
923651 CCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
923715 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
923780 TGGAA
196 TGGAA
* * *
923785 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAATCATCG-AAT
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
923849 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
923914 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
923979 TGGAA
196 TGGAA
* *
923984 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
924048 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
924113 GAATATGTCTAAATAATGTGTCGACACGT--TTTAGTTTGTGTC
131 GAATATGTCTAAATAATGTGTCGACAC-TAATTTAGTTTGTGTC
924155 AATACTAATT
Statistics
Matches: 749, Mismatches: 18, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
198 39 0.05
199 429 0.57
200 281 0.38
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
TGGAA
Found at i:925645 original size:6 final size:6
Alignment explanation
Indices: 925621--925724 Score: 82
Period size: 6 Copynumber: 17.3 Consensus size: 6
925611 AGCGGTCGCA
* * * * *
925621 GAAGAT GAAGCT GACGAT GAAGAT GATGAT GAAGAT GACGAT GATGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * ** * * * * *
925669 GACGAT GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
925717 GAAGAT GA
1 GAAGAT GA
925725 TGATCCAAAC
Statistics
Matches: 78, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 78 1.00
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:925650 original size:3 final size:3
Alignment explanation
Indices: 925636--925728 Score: 87
Period size: 3 Copynumber: 31.0 Consensus size: 3
925626 TGAAGCTGAC
* * * * * * **
925636 GAT GAA GAT GAT GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * *
925684 GAT GAA GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
925729 CCAAACAAGT
Statistics
Matches: 69, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.37, C:0.05, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:925727 original size:18 final size:18
Alignment explanation
Indices: 925621--925724 Score: 91
Period size: 18 Copynumber: 5.8 Consensus size: 18
925611 AGCGGTCGCA
* *
925621 GAAGATGAAGCTGACGAT
1 GAAGATGATGATGACGAT
*
925639 GAAGATGATGATGAAGAT
1 GAAGATGATGATGACGAT
*
925657 GACGATGATGATGACGAT
1 GAAGATGATGATGACGAT
* ** *
925675 GAAGCTGGCGATGAAGAT
1 GAAGATGATGATGACGAT
* * *
925693 GATGACGATGATGATGAT
1 GAAGATGATGATGACGAT
* *
925711 GATGATGAAGATGA
1 GAAGATGATGATGA
925725 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGATGATGACGAT
Found at i:925728 original size:12 final size:12
Alignment explanation
Indices: 925624--925724 Score: 103
Period size: 12 Copynumber: 8.4 Consensus size: 12
925614 GGTCGCAGAA
*
925624 GATGAAGCTGAC
1 GATGAAGATGAC
*
925636 GATGAAGATGAT
1 GATGAAGATGAC
925648 GATGAAGATGAC
1 GATGAAGATGAC
*
925660 GATGATGATGAC
1 GATGAAGATGAC
* *
925672 GATGAAGCTGGC
1 GATGAAGATGAC
*
925684 GATGAAGATGAT
1 GATGAAGATGAC
* * *
925696 GACGATGATGAT
1 GATGAAGATGAC
* *
925708 GATGATGATGAA
1 GATGAAGATGAC
925720 GATGA
1 GATGA
925725 TGATCCAAAC
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 75 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:927512 original size:183 final size:182
Alignment explanation
Indices: 927223--927712 Score: 808
Period size: 182 Copynumber: 2.7 Consensus size: 182
927213 GCAATGCTAT
* *
927223 CGGTATAAATATACCGGTTTTATGCGTGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
927288 GTGTC-GTACTTTATGTCCAGATTGGAAAAAAAATGTGTCGATACATTGTTTAAAAAGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACA-T-TTTAAAAAGTGTCGAC
*
927352 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAAATTTGTAATATAAC
129 ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAAATTTGTAATATAAC
927406 C-GTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* * *
927470 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTTAAAAAGTGTCGACA
* *
927535 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAAATTTGTAATATAAC
* * *
927588 CGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
927653 GTGTCGGTACTTTATGTCCAGATTGGAAG-AAAATGTGTCGATACCA-TTTAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTTAAAAAGTGTCG
927713 GTAATTTTAA
Statistics
Matches: 288, Mismatches: 15, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
181 12 0.04
182 147 0.51
183 128 0.44
184 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTTAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAAATTTGTAATATAAC
Found at i:930205 original size:25 final size:25
Alignment explanation
Indices: 930177--930236 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
930167 TTATCATTAA
930177 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
930202 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
930227 ATTTAGGTAT
1 ATTTAGGTAT
930237 ATATATCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:930614 original size:23 final size:23
Alignment explanation
Indices: 930583--930655 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
930573 ATAGGTAAAC
*
930583 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
930606 ATATAATGTAATAAGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
930629 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
930652 ATAT
1 ATAT
930656 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:931104 original size:18 final size:18
Alignment explanation
Indices: 931083--931119 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
931073 GTAATTGGAG
931083 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
931101 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
931119 T
1 T
931120 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:931127 original size:24 final size:24
Alignment explanation
Indices: 931075--931121 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
931065 TTTCATATGT
* *
931075 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
931099 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
931122 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:931421 original size:39 final size:39
Alignment explanation
Indices: 931378--931464 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
931368 TCTGATGCTC
* *
931378 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAACAAAAGGAA
* *
931417 ATCAAAATTCAAATCTCATATGATGCCAAACAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAACAAAAGGAA
931456 ATCAAAATC
1 ATCAAAATC
931465 TACATCTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.49, C:0.20, G:0.13, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAACAAAAGGAA
Found at i:931912 original size:23 final size:23
Alignment explanation
Indices: 931881--931953 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
931871 ATAGGTAAAA
*
931881 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
931904 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
931927 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
931950 ATAT
1 ATAT
931954 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:932335 original size:23 final size:23
Alignment explanation
Indices: 932309--932381 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
932299 AATAGGTAAA
*
932309 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
932332 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
932355 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
932378 ATAT
1 ATAT
932382 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:932702 original size:427 final size:428
Alignment explanation
Indices: 931680--932729 Score: 2027
Period size: 427 Copynumber: 2.5 Consensus size: 428
931670 GTTAATGTTG
931680 TTAAATTAAAAATTCTAAATAATA-TTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
931744 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
* *
931808 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATGAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
931873 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
931938 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
932003 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
932068 TCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 TCTAATGATTTATTTTTTACGTTACGA-ATATATTATTA
932107 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
932172 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
932237 AATTACATAACTTTAAAAGAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
932302 AGGT-AAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
932366 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCC-TTTTATAAAAGTGTCCATACTTTTTTCACTGT
932431 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
325 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
932496 GTCTAATGATTTATTTTTTACGTTACG-ATATATTATTA
390 GTCTAATGATTTATTTTTTACGTTACGAATATATTATTA
932534 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
932599 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
932664 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
932729 A
196 A
932730 TAATGTAATA
Statistics
Matches: 616, Mismatches: 4, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
427 230 0.37
428 179 0.29
429 207 0.34
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (428 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
TCTAATGATTTATTTTTTACGTTACGAATATATTATTA
Found at i:942514 original size:19 final size:19
Alignment explanation
Indices: 942490--942526 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
942480 CTACCGCAAT
942490 GCGATTTTCCAAATTCGCA
1 GCGATTTTCCAAATTCGCA
*
942509 GCGATTTTCCAAGTTCGC
1 GCGATTTTCCAAATTCGC
942527 GTTGCGATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (19 bp):
GCGATTTTCCAAATTCGCA
Found at i:942550 original size:19 final size:20
Alignment explanation
Indices: 942516--942602 Score: 106
Period size: 19 Copynumber: 4.2 Consensus size: 20
942506 GCAGCGATTT
942516 TCCAAGTTCGCGTTGCGATAG
1 TCCAAGTTC-CGTTGCGATAG
942537 TCCAAGTT-CGTTGCGATAG
1 TCCAAGTTCCGTTGCGATAG
* *
942556 TCGAAGTTCGCGTTGCGATTTAT
1 TCCAAGTTC-CGTTGCGA--TAG
942579 TCCAAGTT-CGTTGCGATAG
1 TCCAAGTTCCGTTGCGATAG
942598 TCCAA
1 TCCAA
942603 AATCGCAACA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
19 25 0.43
21 24 0.41
23 9 0.16
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (20 bp):
TCCAAGTTCCGTTGCGATAG
Found at i:942553 original size:40 final size:41
Alignment explanation
Indices: 942516--942602 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 41
942506 GCAGCGATTT
942516 TCCAAGTTCGCGTTGCGA-TAGTCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGCGTTGCGATTAGTCCAAGTTCGTTGCGATAG
* *
942556 TCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGCGTTGCGA-TTAGTCCAAGTTCGTTGCGATAG
942598 TCCAA
1 TCCAA
942603 AATCGCAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
40 17 0.40
42 25 0.60
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (41 bp):
TCCAAGTTCGCGTTGCGATTAGTCCAAGTTCGTTGCGATAG
Found at i:942705 original size:6 final size:6
Alignment explanation
Indices: 942694--942718 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
942684 CACGTATTAT
942694 CACGAC CACGAC CACGAC CACGAC C
1 CACGAC CACGAC CACGAC CACGAC C
942719 CAGACGAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
CACGAC
Found at i:943384 original size:21 final size:21
Alignment explanation
Indices: 943360--943400 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
943350 GTTCGTCTCG
*
943360 TCTCGTCTCGGGTCGTGGTTA
1 TCTCGTCTCGAGTCGTGGTTA
*
943381 TCTCGTCTCGATTCGTGGTT
1 TCTCGTCTCGAGTCGTGGTT
943401 GTGGTAATAC
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:0.05, C:0.24, G:0.29, T:0.41
Consensus pattern (21 bp):
TCTCGTCTCGAGTCGTGGTTA
Found at i:943528 original size:21 final size:21
Alignment explanation
Indices: 943502--943573 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
943492 ATTTTGGACT
943502 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
943523 ATCGCAATGTGAACTTT-GACT--
1 ATCGCAA--CGAA-TTTGGAATAA
*
943544 ATCGCAACGAATTTGTAATAA
1 ATCGCAACGAATTTGGAATAA
943565 ATCGCAACG
1 ATCGCAACG
943574 CGAACTTCGA
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 3 0.08
19 5 0.12
21 23 0.57
23 6 0.15
24 3 0.08
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:943545 original size:42 final size:42
Alignment explanation
Indices: 943498--943594 Score: 149
Period size: 42 Copynumber: 2.3 Consensus size: 42
943488 TGCGATTTTG
* * *
943498 GACTATCGCAACGAATTTGGAATAAATCGCAATGTGAACTTT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
943540 GACTATCGCAACGAATTTGTAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
943582 GATTATCGCAACG
1 GACTATCGCAACG
943595 CGAACTTGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:943589 original size:21 final size:21
Alignment explanation
Indices: 943565--943618 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
943555 TTTGTAATAA
*
943565 ATCGCAACGCGAACTTCGATT
1 ATCGCAACGCGAACTTCGACT
*
943586 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
*
943607 ATCGCAATGCGA
1 ATCGCAACGCGA
943619 TAGTCGAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:947108 original size:2 final size:2
Alignment explanation
Indices: 947101--947131 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
947091 TTAAAATTAC
947101 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
947132 AATACATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:948890 original size:18 final size:19
Alignment explanation
Indices: 948837--948919 Score: 52
Period size: 18 Copynumber: 4.4 Consensus size: 19
948827 TATTACACAC
*
948837 ATATATATCTAA-TAATAT
1 ATATATATCAAACTAATAT
* *
948855 ATATATGAGCATAGCTAATA-
1 ATATAT-ATCA-AACTAATAT
948875 ATATATATCAAACTAATGAT
1 ATATATATCAAACTAAT-AT
948895 A-ATA-A-CAATGA-TAATAT
1 ATATATATCAA--ACTAATAT
948912 ATATATAT
1 ATATATAT
948920 ATATATATAG
Statistics
Matches: 50, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
17 6 0.12
18 20 0.40
19 11 0.22
20 8 0.16
21 5 0.10
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (19 bp):
ATATATATCAAACTAATAT
Found at i:955072 original size:2 final size:2
Alignment explanation
Indices: 955065--955090 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
955055 AAGATTAGTC
955065 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
955091 TGTGATTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:957116 original size:5 final size:5
Alignment explanation
Indices: 957106--957131 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
957096 AATTTTTTCA
957106 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
957132 CAGTCTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:959403 original size:6 final size:6
Alignment explanation
Indices: 959392--959428 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
959382 ATATTTGGGG
959392 GACAGA GACAGA GACAGA GACAGA GACAGA GA-AGA GA
1 GACAGA GACAGA GACAGA GACAGA GACAGA GACAGA GA
959429 GGGGTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.51, C:0.14, G:0.35, T:0.00
Consensus pattern (6 bp):
GACAGA
Found at i:961332 original size:69 final size:70
Alignment explanation
Indices: 961200--961332 Score: 227
Period size: 68 Copynumber: 1.9 Consensus size: 70
961190 ATCCGGCTCC
961200 CGGTCTGAATAATGCATAGTCGTTCCCTGGTGACAACATGTAAACGTAAATTTTTAAGGAAAAAA
1 CGGTCTGAATAATGCA-AGTCGTTCCCTGGTGACAACATGTAAACGTAAATTTTTAAGGAAAAAA
961265 AGCCCT
65 AGCCCT
961271 CGGTCTGAAATAATGC-A-TCGTTCCCTGGTGACAACATGT-AACGTAAATTTTTAAGGAAAAAA
1 CGGTCTG-AATAATGCAAGTCGTTCCCTGGTGACAACATGTAAACGTAAATTTTTAAGGAAAAAA
961333 GCCAAGACTC
Statistics
Matches: 61, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
68 23 0.38
69 22 0.36
70 1 0.02
71 7 0.11
72 8 0.13
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (70 bp):
CGGTCTGAATAATGCAAGTCGTTCCCTGGTGACAACATGTAAACGTAAATTTTTAAGGAAAAAAA
GCCCT
Found at i:963324 original size:125 final size:126
Alignment explanation
Indices: 963161--963635 Score: 854
Period size: 125 Copynumber: 3.8 Consensus size: 126
963151 CTATAATCGG
*
963161 TTCACTATTCACATGAAGGCGCGTTCCCAGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
963226 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
963287 TTCACTATTCACATG-AGGCGCGTTCCCGGGGGGGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
963351 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
*
963412 TTCACTATTCACATGAAGGTGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
*
963477 TCATTTCCCTATTATGTCA-TCA--TCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
963535 TTCACTATTCACATGAAGGCGCGTTCCC-GGGG-GCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATA--T
963598 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
64 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
963636 ATAACTTAAA
Statistics
Matches: 336, Mismatches: 7, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
121 28 0.08
122 4 0.01
123 84 0.25
124 3 0.01
125 126 0.38
126 91 0.27
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:964099 original size:31 final size:33
Alignment explanation
Indices: 964012--964114 Score: 131
Period size: 32 Copynumber: 3.2 Consensus size: 33
964002 TAAGTTGAAA
*
964012 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAAT-TTAAATTTCGAATAATATAATTTATAT
*
964046 TTTAAATTTAAATTT-GAATAATAT-ATTTTTAT
1 TTT-AATTTAAATTTCGAATAATATAATTTATAT
* *
964078 TTT-TTTTAAATTTCGAATAATATAATTTGTAT
1 TTTAATTTAAATTTCGAATAATATAATTTATAT
964110 TTTAA
1 TTTAA
964115 AAACATTTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
30 9 0.15
31 9 0.15
32 20 0.33
33 8 0.13
34 11 0.18
35 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (33 bp):
TTTAATTTAAATTTCGAATAATATAATTTATAT
Found at i:964113 original size:28 final size:28
Alignment explanation
Indices: 964052--964115 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
964042 ATATTTTAAA
* *
964052 TTTAAATTT-GAATAATATATTTTTATTTTT
1 TTTAAATTTCGAATAATATA-ATTTA--TAT
*
964082 TTTAAATTTCGAATAATATAATTTGTAT
1 TTTAAATTTCGAATAATATAATTTATAT
964110 TTTAAA
1 TTTAAA
964116 AACATTTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 8 0.27
30 12 0.40
31 10 0.33
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTAAATTTCGAATAATATAATTTATAT
Found at i:964707 original size:21 final size:21
Alignment explanation
Indices: 964620--964712 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
964610 ATATGGTATA
*
964620 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
964641 AA-CCTG-GCGGCTAGGCATGT
1 AACCCTGCG-GGCTAGGAATGT
964661 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
964682 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
964703 AACCCTGCGG
1 AACCCTGCGG
964713 AGATGGCATA
Statistics
Matches: 66, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
19 1 0.02
20 21 0.32
21 40 0.61
22 4 0.06
ACGTcount: A:0.20, C:0.27, G:0.34, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:964742 original size:21 final size:21
Alignment explanation
Indices: 964716--964763 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
964706 CCTGCGGAGA
*
964716 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
964737 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
964758 GGGCAT
1 TGGCAT
964764 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:966551 original size:33 final size:34
Alignment explanation
Indices: 966476--966560 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
966466 TTAATAATTC
* * * *
966476 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATATTTACATAAATATTATTATAA
966510 TAAAAAAATAATATTTACATAAATA-TATTA-ATA
1 TAAAAAAATAATATTTACATAAATATTATTATA-A
966543 TAAAAAAATAACTATTTA
1 TAAAAAAATAA-TATTTA
966561 AAAAAATACT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
32 1 0.02
33 16 0.36
34 28 0.62
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (34 bp):
TAAAAAAATAATATTTACATAAATATTATTATAA
Found at i:966564 original size:16 final size:15
Alignment explanation
Indices: 966510--966568 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
966500 ATTATTTTAA
966510 TAAAAAAATAATATT
1 TAAAAAAATAATATT
* * *
966525 TACATAAATATATTAATA
1 TA-A-AAAAATAAT-ATT
966543 TAAAAAAATAACTATT
1 TAAAAAAATAA-TATT
966559 TAAAAAAATA
1 TAAAAAAATA
966569 CTAACATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 2 0.06
16 19 0.56
17 9 0.26
18 4 0.12
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAAAAATAATATT
Found at i:978937 original size:18 final size:18
Alignment explanation
Indices: 978914--978948 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
978904 TAACTATAAT
* *
978914 TTTAATTGATTATTTTAA
1 TTTAATTAATAATTTTAA
978932 TTTAATTAATAATTTTA
1 TTTAATTAATAATTTTA
978949 TTGTTTATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTAATTAATAATTTTAA
Found at i:978957 original size:30 final size:30
Alignment explanation
Indices: 978901--978957 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
978891 ATTTAAAAAT
978901 ATTTAACTATAATTTTAATTGATTATTTTA
1 ATTTAACTATAATTTTAATTGATTATTTTA
* *
978931 ATTTAATTAATAATTTT-ATTGTTTATT
1 ATTTAACT-ATAATTTTAATTGATTATT
978958 AAATATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (30 bp):
ATTTAACTATAATTTTAATTGATTATTTTA
Found at i:979081 original size:22 final size:22
Alignment explanation
Indices: 979046--979100 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
979036 ATTAATATTT
* *
979046 AAAATATATTAATATTTTAAT-A
1 AAAATAT-TTAATATATAAATAA
979068 AAAATATTTAAATATATAAATAA
1 AAAATATTT-AATATATAAATAA
979091 ATAAATATTT
1 A-AAATATTT
979101 GTATTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 16 0.57
23 2 0.07
24 8 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATATTTAATATATAAATAA
Found at i:979115 original size:10 final size:10
Alignment explanation
Indices: 979100--979126 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
979090 AATAAATATT
979100 TGTATTTAAA
1 TGTATTTAAA
979110 TGTATTTAAA
1 TGTATTTAAA
979120 TGTATTT
1 TGTATTT
979127 TTATTCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (10 bp):
TGTATTTAAA
Found at i:979160 original size:22 final size:23
Alignment explanation
Indices: 979112--979160 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
979102 TATTTAAATG
* *
979112 TATTTAAATGTATTTTTATTCATA
1 TATTTAAA-GTATTTTTATTAAAA
*
979136 TATTTAAA-TATTTTTGTTAAAA
1 TATTTAAAGTATTTTTATTAAAA
979158 TAT
1 TAT
979161 ATTTTATTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 14 0.64
24 8 0.36
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TATTTAAAGTATTTTTATTAAAA
Found at i:979201 original size:2 final size:2
Alignment explanation
Indices: 979194--979219 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
979184 ATTTAAATAA
979194 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
979220 TTGTATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:990321 original size:181 final size:183
Alignment explanation
Indices: 990017--990382 Score: 718
Period size: 181 Copynumber: 2.0 Consensus size: 183
990007 TAATGAAAAG
990017 TTAATTTTTATTTTAATTTAAATTTCAAAACAAAAGAATTGGATCAATTGCTTTATTTTTTTAAA
1 TTAATTTTTATTTTAATTTAAATTTCAAAACAAAAGAATTGGATCAATTGCTTTATTTTTTTAAA
990082 CATCAGACTCCTATTAGGAATCTCAAAATATTATTATGATATCTCAAATAGCAGCCTTTTAGTTG
66 CATCAGACTCCTATTAGGAATCTCAAAATATTATTATGATATCTCAAATAGCAGCCTTTTAGTTG
990147 TAAAG-AGCATAGTTAGAGTATAGAT-AACCAATTATATTTGGTTAACTACAC
131 TAAAGAAGCATAGTTAGAGTATAGATAAACCAATTATATTTGGTTAACTACAC
990198 TTAATTTTTATTTTAATTTAAATTTCAAAACAAAAGAATTGGATCAATTGCTTTATTTTTTTAAA
1 TTAATTTTTATTTTAATTTAAATTTCAAAACAAAAGAATTGGATCAATTGCTTTATTTTTTTAAA
990263 CATCAGACTCCTATTAGGAATCTCAAAATATTATTATGATATCTCAAATAGCAGCCTTTTAGTTG
66 CATCAGACTCCTATTAGGAATCTCAAAATATTATTATGATATCTCAAATAGCAGCCTTTTAGTTG
990328 TAAAGAAGCATAGTTAGAGTATAGATAAACCAATTATATTTGGTTAACTACAC
131 TAAAGAAGCATAGTTAGAGTATAGATAAACCAATTATATTTGGTTAACTACAC
990381 TT
1 TT
990383 TGCATGCATC
Statistics
Matches: 183, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
181 135 0.74
182 20 0.11
183 28 0.15
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (183 bp):
TTAATTTTTATTTTAATTTAAATTTCAAAACAAAAGAATTGGATCAATTGCTTTATTTTTTTAAA
CATCAGACTCCTATTAGGAATCTCAAAATATTATTATGATATCTCAAATAGCAGCCTTTTAGTTG
TAAAGAAGCATAGTTAGAGTATAGATAAACCAATTATATTTGGTTAACTACAC
Found at i:993032 original size:20 final size:20
Alignment explanation
Indices: 993007--993046 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
992997 TTAAACTTAA
* *
993007 TCCTAAAAATAAAAGATAAT
1 TCCTAAAAACAAAAAATAAT
993027 TCCTAAAAACAAAAAATAAT
1 TCCTAAAAACAAAAAATAAT
993047 ATTGATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (20 bp):
TCCTAAAAACAAAAAATAAT
Found at i:996353 original size:15 final size:15
Alignment explanation
Indices: 996333--996362 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
996323 GGTATCCGGG
996333 TTTTTGGGTACTCGA
1 TTTTTGGGTACTCGA
*
996348 TTTTTGGGTATTCGA
1 TTTTTGGGTACTCGA
996363 AACTTTCGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.27, T:0.50
Consensus pattern (15 bp):
TTTTTGGGTACTCGA
Found at i:1000342 original size:26 final size:24
Alignment explanation
Indices: 1000313--1000384 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
1000303 GAGTCCAAAC
1000313 AAATTTAACAAAATAAAGTAAGTATT
1 AAATTTAACAAAATAAAGTAA--ATT
*
1000339 AAA-TGAGA-AATAATAAA--AAATT
1 AAATTTA-ACAA-AATAAAGTAAATT
1000361 ACAATTTAACAAAATAAAGTAAAT
1 A-AATTTAACAAAATAAAGTAAAT
1000385 ACAAATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 9 0.24
24 6 0.16
25 8 0.22
26 10 0.27
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.26
Consensus pattern (24 bp):
AAATTTAACAAAATAAAGTAAATT
Found at i:1002605 original size:17 final size:18
Alignment explanation
Indices: 1002583--1002623 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1002573 AAATTATATT
1002583 AGTAAAAT-ATTAAATAA
1 AGTAAAATGATTAAATAA
*
1002600 AGTAAAATGCTTAAATAA
1 AGTAAAATGATTAAATAA
*
1002618 ATTAAA
1 AGTAAA
1002624 TACATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (18 bp):
AGTAAAATGATTAAATAA
Found at i:1006096 original size:25 final size:25
Alignment explanation
Indices: 1006062--1006112 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
1006052 TAGTAGAGAT
1006062 TACGAACTATTCTTACCTTTGACTA
1 TACGAACTATTCTTACCTTTGACTA
1006087 TACGAACTATTCTTACCTTTGACTA
1 TACGAACTATTCTTACCTTTGACTA
1006112 T
1 T
1006113 CACCGGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (25 bp):
TACGAACTATTCTTACCTTTGACTA
Found at i:1011354 original size:18 final size:18
Alignment explanation
Indices: 1011331--1011365 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1011321 TTCCGTCCGG
*
1011331 ACTTATTATTTAATTCAA
1 ACTTATCATTTAATTCAA
*
1011349 ACTTATCATTTACTTCA
1 ACTTATCATTTAATTCA
1011366 GTCCTTTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ACTTATCATTTAATTCAA
Found at i:1012352 original size:10 final size:10
Alignment explanation
Indices: 1012337--1012382 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
1012327 AAATGTCCGA
1012337 TCAACGGTAG
1 TCAACGGTAG
**
1012347 TCAACGGCGG
1 TCAACGGTAG
1012357 TCAACGGTCAG
1 TCAACGGT-AG
1012368 TCAACGG--G
1 TCAACGGTAG
1012376 TCAACGG
1 TCAACGG
1012383 GTTAGGTCGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 8 0.26
10 15 0.48
11 8 0.26
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.15
Consensus pattern (10 bp):
TCAACGGTAG
Found at i:1012379 original size:19 final size:20
Alignment explanation
Indices: 1012337--1012382 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
1012327 AAATGTCCGA
1012337 TCAACGGTAGTCAACGGCGG
1 TCAACGGTAGTCAACGGCGG
1012357 TCAACGGTCAGTCAAC-G-GG
1 TCAACGGT-AGTCAACGGCGG
1012376 TCAACGG
1 TCAACGG
1012383 GTTAGGTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.26, C:0.26, G:0.33, T:0.15
Consensus pattern (20 bp):
TCAACGGTAGTCAACGGCGG
Found at i:1016697 original size:26 final size:24
Alignment explanation
Indices: 1016651--1016707 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
1016641 TATAAGGTAT
*
1016651 TTTATATTTCATAAAACTATTATCTA
1 TTTATATTGCATAAAACTATTA--TA
*
1016677 TTTATATTGCGATATAA-TATTATA
1 TTTATATTGC-ATAAAACTATTATA
1016701 TTTATAT
1 TTTATAT
1016708 CATGTCCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 9 0.32
26 14 0.50
27 5 0.18
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTATATTGCATAAAACTATTATA
Found at i:1017832 original size:35 final size:35
Alignment explanation
Indices: 1017786--1017855 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
1017776 TGAGAGACTC
* *
1017786 ACCAAAATCAAATATGTGACATGAATCGATTCAAA
1 ACCAAAATCAAATATGTGACACGAATCAATTCAAA
1017821 ACCAAAATCAAATATGTGACACGAATCAATTCAAA
1 ACCAAAATCAAATATGTGACACGAATCAATTCAAA
1017856 TTAACCAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.50, C:0.19, G:0.10, T:0.21
Consensus pattern (35 bp):
ACCAAAATCAAATATGTGACACGAATCAATTCAAA
Found at i:1020074 original size:12 final size:12
Alignment explanation
Indices: 1020040--1020087 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
1020030 GAGCGAGTTG
* *
1020040 ATAAACAAGCCT
1 ATAAACGAGCTT
1020052 ATAAA-GTAGCTT
1 ATAAACG-AGCTT
*
1020064 ATAAACGAGCTC
1 ATAAACGAGCTT
1020076 ATAAACGAGCTT
1 ATAAACGAGCTT
1020088 GTTCGTGAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 29 0.97
13 1 0.03
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.23
Consensus pattern (12 bp):
ATAAACGAGCTT
Found at i:1024146 original size:19 final size:20
Alignment explanation
Indices: 1024109--1024149 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1024099 TTTAAATATT
* *
1024109 ATTTTAAAAATATATTTATA
1 ATTTCAAAAATATAATTATA
1024129 ATTTCAAAAATA-AATTATA
1 ATTTCAAAAATATAATTATA
1024148 AT
1 AT
1024150 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTCAAAAATATAATTATA
Found at i:1027001 original size:623 final size:621
Alignment explanation
Indices: 1025818--1027061 Score: 2438
Period size: 623 Copynumber: 2.0 Consensus size: 621
1025808 CATAACTTCA
1025818 TCGGAAAAACTTGCGGATCATCAATCTATATTAATCTCAATAGATGTGATCGATAAGAATGCAAG
1 TCGGAAAAACTTGCGGATCATCAATCTATATTAATCTCAATAGATGTGATCGATAAGAATGCAAG
1025883 CAACAACATCTAGATGAATAAATAATTAAAGAACCTTGCAGAGTGCAAATAGAGTATCATACTAA
66 CAACAACATCTAGATGAATAAATAATTAAAGAACCTTGCAGAGTGCAAATAGAGTATCATACTAA
1025948 TTACTCCCTCTCTCTCTTTCTCACATTTGTTTGAGATCAATAATTAACAATGACAAGAGCCTAAC
131 TTACTCCCTCTCTCTCTTTCTCACATTTGTTTGAGATCAATAATTAACAATGACAAGAGCCTAAC
1026013 CCTATGAACTTTAATACGTGCTCTGGAGCCAACATCTTATCAAACCTCAATGCCCTGTCTCAGGA
196 CCTATGAACTTTAATACGTGCTCTGGAGCCAACATCTTATCAAACCTCAATGCCCTGTCTCAGGA
1026078 AGGATTACGTAAATTCACAAATTCATTTGCAAACTATTTGCATGCAATAAAATTCCAATATAAAT
261 AGGATTACGTAAATTCACAAATTCATTTGCAAACTATTTGCATGCAATAAAATTCCAATATAAAT
1026143 GTTCACATTAATAAGGAACTATAATATCTAGCAGTTTGAAGATTCATTTTACCTTTGAACAATCG
326 GTTCACATTAATAAGGAACTATAATATCTAGCAGTTTGAAGATTCATTTTACCTTTGAACAATCG
1026208 GCTACAGCCTTCTTATACTCACCGACCTCTTTATAACATGAAGCCCTACATGATAAAACCTCCAT
391 GCTACAGCCTTCTTATACTCACCGACCTCTTTATAACATGAAGCCCTACATGATAAAACCTCCAT
1026273 GGTGGCAGCCTTGTCGTTATTCTTTTCAAGCAGAACCACTGCCCAAGCCAGCCACTTAATGGCAT
456 GGTGGCAGCCTTGTCGTTATTCTTTTCAAGCAGAACCACTGCCCAAGCCAGCCACTTAATGGCAT
1026338 CAGCATACTGGCCTTGTTTCTGGTTGTTGATACCCTTGCTCTTTGCAG-AGA-GCAGTGACACCA
521 CAGCATACTGGCCTTGTTTCTGGTTGTTGATACCCTTGCTCTTTGCAGAAGATGCAGTGACACCA
1026401 GCCGGGGGGTGGAGGAAGCCCATCAAGCTCCGTTGTT
586 GCC-GGGGGTGGAGGAAGCCCATCAAGCTCCGTTGTT
1026438 TCGGAAAAACTTGCGGATCATCAATCTATATTAATCTCAATAGATGTGATCGATAAGAATGCAAG
1 TCGGAAAAACTTGCGGATCATCAATCTATATTAATCTCAATAGATGTGATCGATAAGAATGCAAG
1026503 CAACAACATCTAGATGAATAAATAATTAAAGAACCTTGCAGAGTGCAAATAGAGTATCATACTAA
66 CAACAACATCTAGATGAATAAATAATTAAAGAACCTTGCAGAGTGCAAATAGAGTATCATACTAA
1026568 TTACTCCCTCTCTCTCTTTCTCACATTTGTTTGAGATCAATAATTAACAATGACAAGGAGCCTAA
131 TTACTCCCTCTCTCTCTTTCTCACATTTGTTTGAGATCAATAATTAACAATGACAA-GAGCCTAA
1026633 CCCTATGAACTTTTAAATACGTGCTCTGGAGCCAACATCTTATCAAACCTCAATGCCCTGTCTCA
195 CCCTATGAAC-TTT-AATACGTGCTCTGGAGCCAACATCTTATCAAACCTCAATGCCCTGTCTCA
1026698 GGAAGGATTACGTAAATTCACAAATTCATTTGCAAACTATTTGCATGCAATAAAATTCCAATATA
258 GGAAGGATTACGTAAATTCACAAATTCATTTGCAAACTATTTGCATGCAATAAAATTCCAATATA
1026763 AATGTTCACATTAATAAGGAACTATAATATCTAGCAGTTTGAAGATTCATTTTACCTTTGAACAA
323 AATGTTCACATTAATAAGGAACTATAATATCTAGCAGTTTGAAGATTCATTTTACCTTTGAACAA
1026828 TCGGCTACAGCCTTCTTATACTCACCGACCTCTTTATAACATGAAGCCCTACATGATAAAACCTC
388 TCGGCTACAGCCTTCTTATACTCACCGACCTCTTTATAACATGAAGCCCTACATGATAAAACCTC
1026893 CATGGTGGCAGCCTTGTCGTTATTCTTTTCAAGCAGAACCACTGCCCAAGCCAGCCACTTAATGG
453 CATGGTGGCAGCCTTGTCGTTATTCTTTTCAAGCAGAACCACTGCCCAAGCCAGCCACTTAATGG
1026958 CATCAGCATACTGGCCTTGTTTCTGGTTGTTGATACCCTTGCTCTTTGCAGAAGATGCAGTGACA
518 CATCAGCATACTGGCCTTGTTTCTGGTTGTTGATACCCTTGCTCTTTGCAGAAGATGCAGTGACA
1027023 CCAGCCGGGGGTGGAGGAAGCCCATCAAGCTCCGTTGTT
583 CCAGCCGGGGGTGGAGGAAGCCCATCAAGCTCCGTTGTT
1027062 GAGCTGCCAT
Statistics
Matches: 619, Mismatches: 0, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
620 186 0.30
621 18 0.03
622 3 0.00
623 361 0.58
624 36 0.06
625 15 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (621 bp):
TCGGAAAAACTTGCGGATCATCAATCTATATTAATCTCAATAGATGTGATCGATAAGAATGCAAG
CAACAACATCTAGATGAATAAATAATTAAAGAACCTTGCAGAGTGCAAATAGAGTATCATACTAA
TTACTCCCTCTCTCTCTTTCTCACATTTGTTTGAGATCAATAATTAACAATGACAAGAGCCTAAC
CCTATGAACTTTAATACGTGCTCTGGAGCCAACATCTTATCAAACCTCAATGCCCTGTCTCAGGA
AGGATTACGTAAATTCACAAATTCATTTGCAAACTATTTGCATGCAATAAAATTCCAATATAAAT
GTTCACATTAATAAGGAACTATAATATCTAGCAGTTTGAAGATTCATTTTACCTTTGAACAATCG
GCTACAGCCTTCTTATACTCACCGACCTCTTTATAACATGAAGCCCTACATGATAAAACCTCCAT
GGTGGCAGCCTTGTCGTTATTCTTTTCAAGCAGAACCACTGCCCAAGCCAGCCACTTAATGGCAT
CAGCATACTGGCCTTGTTTCTGGTTGTTGATACCCTTGCTCTTTGCAGAAGATGCAGTGACACCA
GCCGGGGGTGGAGGAAGCCCATCAAGCTCCGTTGTT
Found at i:1032831 original size:11 final size:11
Alignment explanation
Indices: 1032815--1032839 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1032805 TTGTTATGCC
1032815 TGTTTGTCCTG
1 TGTTTGTCCTG
1032826 TGTTTGTCCTG
1 TGTTTGTCCTG
1032837 TGT
1 TGT
1032840 GGACACTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.28, T:0.56
Consensus pattern (11 bp):
TGTTTGTCCTG
Found at i:1042957 original size:25 final size:27
Alignment explanation
Indices: 1042922--1043121 Score: 95
Period size: 26 Copynumber: 7.7 Consensus size: 27
1042912 TATAGATATT
*
1042922 AATTTTAATATTAATTTTTTAA-AATA
1 AATTATAATATTAATTTTTTAATAATA
*
1042948 AATTA-AATATTAATTTTTTTAATATTA
1 AATTATAATATTAA-TTTTTTAATAATA
* *
1042975 TATTATAGATATTAA--TTTTAATATTA
1 AATTATA-ATATTAATTTTTTAATAATA
* * * *
1043001 ATTTTTTAA-A-TAA--ATTTAATATTA
1 A-ATTATAATATTAATTTTTTAATAATA
* * * * *
1043025 ATTTTTTAATATT-ATATTATAGAT-ATT
1 A-ATTATAATATTAATTTTTTA-ATAATA
*
1043052 AATTTTAATATTAA-TTTTT-A-AATA
1 AATTATAATATTAATTTTTTAATAATA
*
1043076 AATTA-AATATTAATTTTTTAATATTA
1 AATTATAATATTAATTTTTTAATAATA
*
1043102 TATTATAGATATTTAATTTT
1 AATTATA-ATA-TTAATTTT
1043122 ATATCATATA
Statistics
Matches: 138, Mismatches: 18, Indels: 33
0.73 0.10 0.17
Matches are distributed among these distances:
23 8 0.06
24 34 0.25
25 12 0.09
26 45 0.33
27 18 0.13
28 6 0.04
29 15 0.11
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (27 bp):
AATTATAATATTAATTTTTTAATAATA
Found at i:1043023 original size:24 final size:26
Alignment explanation
Indices: 1042965--1043065 Score: 104
Period size: 26 Copynumber: 4.0 Consensus size: 26
1042955 TATTAATTTT
* * *
1042965 TTTAATATT-ATATTATAGATATTAAT
1 TTTAATATTAATTTTTTA-ATATTAAA
1042991 TTTAATATTAATTTTTTAA-A-TAAA
1 TTTAATATTAATTTTTTAATATTAAA
*
1043015 TTTAATATTAATTTTTTAATATTATA
1 TTTAATATTAATTTTTTAATATTAAA
1043041 TTATAGATATTAA--TTTTAATATTAA
1 TT-TA-ATATTAATTTTTTAATATTAA
1043066 TTTTTAAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
24 22 0.34
25 2 0.03
26 26 0.40
27 8 0.12
28 7 0.11
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
TTTAATATTAATTTTTTAATATTAAA
Found at i:1043058 original size:90 final size:85
Alignment explanation
Indices: 1042925--1043096 Score: 204
Period size: 90 Copynumber: 1.9 Consensus size: 85
1042915 AGATATTAAT
1042925 TTTAATATTAATTTTTTAAAATAAATTAAATATTAATTTTTTTAATATT-ATATTATAGATATTA
1 TTTAATATTAATTTTTTAAAATAAATTAAATATTAA--TTTTTAATATTAAT-TTATA-A-A-TA
* *
1042989 ATTTTAATATTAATTTTTTAAATAAA
60 AATTAAATATTAATTTTTTAAATAAA
* * *
1043015 TTTAATATTAATTTTTTAATATTATATTATAGATATTAA-TTTTAATATTAATTTTTAAATAAAT
1 TTTAATATTAATTTTTTAA-AATAAATTA-A-ATATTAATTTTTAATATTAATTTATAAATAAAT
1043079 TAAATATTAATTTTTTAA
63 TAAATATTAATTTTTTAA
1043097 TATTATATTA
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
87 21 0.29
88 1 0.01
89 1 0.01
90 33 0.45
91 9 0.12
92 1 0.01
93 7 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (85 bp):
TTTAATATTAATTTTTTAAAATAAATTAAATATTAATTTTTAATATTAATTTATAAATAAATTAA
ATATTAATTTTTTAAATAAA
Found at i:1043085 original size:63 final size:64
Alignment explanation
Indices: 1042899--1043122 Score: 396
Period size: 64 Copynumber: 3.5 Consensus size: 64
1042889 AGGTTTTATA
*
1042899 TTTAATTTTATATTATAGATATTAATTTTAATATTAATTTTTTAAAATAAATTAAATATTAATTT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTT-AAATAAATTAAATATTAA-TT
1042964 T
64 T
*
1042965 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTTAATATTAATTT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTT
1043029 TTTAATATTATATTATAGATATTAATTTTAATATTAA-TTTTTAAATAAATTAAATATTAATTT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTT
1043092 TTTAATATTATATTATAGATATTTAATTTTA
1 TTTAATATTATATTATAGATA-TTAATTTTA
1043123 TATCATATAA
Statistics
Matches: 154, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
63 46 0.30
64 49 0.32
65 17 0.11
66 42 0.27
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (64 bp):
TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTT
Found at i:1043177 original size:20 final size:19
Alignment explanation
Indices: 1043117--1043178 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
1043107 TAGATATTTA
*
1043117 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
1043136 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
1043154 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
1043174 ATTTT
1 ATTTT
1043179 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:1043820 original size:31 final size:31
Alignment explanation
Indices: 1043785--1043844 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1043775 TAGTTGTATG
* *
1043785 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
1043816 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
1043845 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:1047896 original size:13 final size:13
Alignment explanation
Indices: 1047871--1047903 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1047861 TATTTTTGTC
1047871 AAAAAAAGAAAAG
1 AAAAAAAGAAAAG
1047884 AAAAAGAAG-AAAG
1 AAAAA-AAGAAAAG
1047897 AAAAAAA
1 AAAAAAA
1047904 ATAGGAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 14 0.74
14 3 0.16
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAAG
Found at i:1052280 original size:3 final size:3
Alignment explanation
Indices: 1052274--1052304 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1052264 ATGTTAGTTA
1052274 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1052305 GAGTTTAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1053497 original size:32 final size:32
Alignment explanation
Indices: 1053449--1053517 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
1053439 ATTCCAACTC
*
1053449 AAGGGGCAAAATATAATTAACCAT-CAAAATG
1 AAGGGGCAAAATATAATTAACCATAAAAAATG
*
1053480 AAGGGGACAAAGTATAATTAACCATAAAAAATG
1 AAGGGG-CAAAATATAATTAACCATAAAAAATG
1053513 -AGGGG
1 AAGGGG
1053518 TAATTTCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 6 0.18
32 22 0.65
33 6 0.18
ACGTcount: A:0.51, C:0.10, G:0.22, T:0.17
Consensus pattern (32 bp):
AAGGGGCAAAATATAATTAACCATAAAAAATG
Found at i:1059169 original size:50 final size:49
Alignment explanation
Indices: 1059092--1059190 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 49
1059082 AGTAGATGCA
*
1059092 GACTTCATTGAGGAAGTTGAACTACTCTATATCTTGTATCAAAATTTCAT
1 GACTTCATTGAGGAAGTTGAACCACTCTATAT-TTGTATCAAAATTTCAT
1059142 GACTTCATTGAGGAAGTTGAACCACTCTATATTTGTATCAAAATTTCAT
1 GACTTCATTGAGGAAGTTGAACCACTCTATATTTGTATCAAAATTTCAT
1059191 ATCCTTTCTC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 17 0.35
50 31 0.65
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.37
Consensus pattern (49 bp):
GACTTCATTGAGGAAGTTGAACCACTCTATATTTGTATCAAAATTTCAT
Found at i:1065711 original size:61 final size:60
Alignment explanation
Indices: 1065616--1065743 Score: 229
Period size: 61 Copynumber: 2.1 Consensus size: 60
1065606 TTAACTCCTT
*
1065616 TTGAGTTGAAACCATTCAGTTAAGCATAGCTAAATACAGTTTAGTATTTACCCATCTCTGA
1 TTGAGTCGAAACCATTCAGTTAAGCATAGCTAAATACAGTTTAGTATTTACCCATCTC-GA
*
1065677 TTGAGTCGAAACCATTCAGTTAAGCATAGCTAAATACGGTTTAGTATTTACCCATCTCGA
1 TTGAGTCGAAACCATTCAGTTAAGCATAGCTAAATACAGTTTAGTATTTACCCATCTCGA
1065737 TTGAGTC
1 TTGAGTC
1065744 AGCACCAGGG
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
60 9 0.14
61 56 0.86
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (60 bp):
TTGAGTCGAAACCATTCAGTTAAGCATAGCTAAATACAGTTTAGTATTTACCCATCTCGA
Found at i:1076496 original size:11 final size:11
Alignment explanation
Indices: 1076480--1076505 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1076470 AAACCAAACG
1076480 AATTATTTAAT
1 AATTATTTAAT
1076491 AATTATTTAAT
1 AATTATTTAAT
1076502 AATT
1 AATT
1076506 TAAAATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
AATTATTTAAT
Found at i:1077108 original size:17 final size:18
Alignment explanation
Indices: 1077073--1077111 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1077063 TATTAATTAA
*
1077073 TTATTTTATTAATTGTAT
1 TTATTTTATAAATTGTAT
*
1077091 TTATTTTA-AAATTTTAT
1 TTATTTTATAAATTGTAT
1077108 TTAT
1 TTAT
1077112 ACACATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TTATTTTATAAATTGTAT
Found at i:1077120 original size:29 final size:30
Alignment explanation
Indices: 1077088--1077150 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 30
1077078 TTATTAATTG
** *
1077088 TATTTATTTTAAAATTTTAT-TTATACACA
1 TATTTATACTAAAATTTTATGTTATAAACA
*
1077117 TA-TTATACTAAAATTTTATGTTATAAATA
1 TATTTATACTAAAATTTTATGTTATAAACA
1077146 TATTT
1 TATTT
1077151 GTATCTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
28 15 0.54
29 11 0.39
30 2 0.07
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (30 bp):
TATTTATACTAAAATTTTATGTTATAAACA
Found at i:1086806 original size:27 final size:25
Alignment explanation
Indices: 1086776--1086832 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 25
1086766 TAAAAATAAA
*
1086776 AATAAAATATTTTTATATTAAGTTAAT
1 AATAAAATATATTTA-A-TAAGTTAAT
1086803 AATAAAATATATTTAATAAGTTAAT
1 AATAAAATATATTTAATAAGTTAAT
1086828 -ATAAA
1 AATAAA
1086833 CAAATACTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 5 0.17
25 9 0.31
26 1 0.03
27 14 0.48
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
AATAAAATATATTTAATAAGTTAAT
Found at i:1086828 original size:25 final size:27
Alignment explanation
Indices: 1086776--1086871 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 27
1086766 TAAAAATAAA
*
1086776 AATAAAATATTTTTATATTAAGTTAAT
1 AATAAAATATATTTATATTAAGTTAAT
1086803 AATAAAATATATTTA-A-TAAGTTAAT
1 AATAAAATATATTTATATTAAGTTAAT
* *
1086828 -ATAAACAAATACTT-T-TTAAGTTAAT
1 AATAAA-ATATATTTATATTAAGTTAAT
* *
1086853 ATATATATATATATATATA
1 A-ATA-AAATATATTTATA
1086872 ATACTATGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
24 5 0.09
25 24 0.44
26 1 0.02
27 22 0.41
28 2 0.04
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (27 bp):
AATAAAATATATTTATATTAAGTTAAT
Found at i:1090632 original size:18 final size:18
Alignment explanation
Indices: 1090609--1090652 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
1090599 GAAGTAAGTG
1090609 ATAAGATCAAATTAAATA
1 ATAAGATCAAATTAAATA
1090627 ATAAGATCAAATTAAATA
1 ATAAGATCAAATTAAATA
1090645 ATAAGATC
1 ATAAGATC
1090653 GGACGGAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (18 bp):
ATAAGATCAAATTAAATA
Found at i:1093702 original size:18 final size:18
Alignment explanation
Indices: 1093679--1093721 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1093669 GTTTGAGATA
*
1093679 ACCTAAAGAAAATAAAAT
1 ACCTAAAGAAAATAAAAC
*
1093697 ACCTAAAGGAAATAAAAC
1 ACCTAAAGAAAATAAAAC
1093715 ACCTAAA
1 ACCTAAA
1093722 AATAATCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.63, C:0.16, G:0.07, T:0.14
Consensus pattern (18 bp):
ACCTAAAGAAAATAAAAC
Found at i:1095528 original size:11 final size:10
Alignment explanation
Indices: 1095504--1095529 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1095494 ATCTTGATTC
1095504 AAAAAACTTG
1 AAAAAACTTG
1095514 AAAAAACTTG
1 AAAAAACTTG
1095524 AAAAAA
1 AAAAAA
1095530 TGAAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (10 bp):
AAAAAACTTG
Found at i:1096378 original size:33 final size:33
Alignment explanation
Indices: 1096265--1096390 Score: 108
Period size: 36 Copynumber: 3.6 Consensus size: 33
1096255 CCCTAATTTG
* * *
1096265 TTTTAAGAACAATAATCTCAAATGAGATAAAATATG
1 TTTTAAGAAAAATAATCTCAAATGAGAT---ATCTA
* * ** *
1096301 TTTTAAGAAAAAAAATATCTAGTTTGATGAAATCTA
1 TTTTAAGAAAAATAATCTC-A-AATGA-GATATCTA
* *
1096337 TTTAAAGAAAAATAATCTCAAATGAGATATCTT
1 TTTTAAGAAAAATAATCTCAAATGAGATATCTA
1096370 TTTTAAGAAAAATAATCTCAA
1 TTTTAAGAAAAATAATCTCAA
1096391 GTTAGATAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
33 26 0.37
34 3 0.04
35 1 0.01
36 35 0.49
37 1 0.01
38 3 0.04
39 2 0.03
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (33 bp):
TTTTAAGAAAAATAATCTCAAATGAGATATCTA
Found at i:1097946 original size:421 final size:421
Alignment explanation
Indices: 1097159--1098001 Score: 1551
Period size: 421 Copynumber: 2.0 Consensus size: 421
1097149 CATGCCCTGC
*
1097159 TTTAAAGTAATGATTGTTATGTGGTTTGGGCTCCTCGATTCTTAAAGTTCTACCACTCTAAATAT
1 TTTAAAGTAATGATTGTTATGTGGTTTGGGCTCCTCAATTCTTAAAGTTCTACCACTCTAAATAT
*
1097224 ATTTCCCTCCATTTGAAGCATGAATTCTAATTTGCTTTTCTTTCTCTTCTTTTCTTAGAAGATAT
66 ATTTCCCTCCATTTGAAGCATGAATTCTAATTTGCTTTTCTTTCTCTTCTTTTCTTAGAAGAGAT
*
1097289 ATAAGAATTGTACATCTATGTATGAAAATATGAATGCAATTAAATGCATTGCATGATGTTCTTAT
131 ATAAGAATTGTACATCTATGTATGAAAATATGAATGCAATTAAATGCATCGCATGATGTTCTTAT
1097354 ATGCAAAAATGTCGATCATTAATCTTCTTCTGACTTTAAAGGTTAGAGAACTTGATCTTCCTTCA
196 ATGCAAAAATGTCGATCATTAATCTTCTTCTGACTTTAAAGGTTAGAGAACTTGATCTTCCTTCA
*
1097419 CTTGACCATTCTGGAATAAAGCTTGCCCCAATATCAGCATGACAACTTGATATTTTAGGCTTGCA
261 CTTGACCATTCTGGAATAAAGCTTGCCCCAATATCAGCATGACAACTTGATATTTCAGGCTTGCA
**
1097484 TCTTCAGGAGAACACTCTGATCATCTTTTGTCATTATGTCTTCTTTATCTCTTATCTTTAAGAAG
326 TCTTCAGGAGAACACTCTGATCATCTTTTGTCAACATGTCTTCTTTATCTCTTATCTTTAAGAAG
1097549 CGTTTTCTTTCTTGAAATCTTGTTATGATCA
391 CGTTTTCTTTCTTGAAATCTTGTTATGATCA
*
1097580 TTTAAAGTAATGATTGTTATGTGGTTTGGGCTCCTCAATTCTTAAAGTTCTACCACTCTAAATGT
1 TTTAAAGTAATGATTGTTATGTGGTTTGGGCTCCTCAATTCTTAAAGTTCTACCACTCTAAATAT
* *
1097645 ATTTCCCTCCATTTGAAGCATGAATTCTAATTTTCTTTTCTTTCTCTTCTTTTCTTAGAAGAGCT
66 ATTTCCCTCCATTTGAAGCATGAATTCTAATTTGCTTTTCTTTCTCTTCTTTTCTTAGAAGAGAT
1097710 ATAAGAATTGTACATCTATGTATGAAAATATGAATGCAATTAAATGCATCGCATGATGTTCTTAT
131 ATAAGAATTGTACATCTATGTATGAAAATATGAATGCAATTAAATGCATCGCATGATGTTCTTAT
*
1097775 ATGCAAAAATGTCGATCATTAATCTTCTTCTGACTTTAAAGGTTAGAGAACTTGATCTTCTTTCA
196 ATGCAAAAATGTCGATCATTAATCTTCTTCTGACTTTAAAGGTTAGAGAACTTGATCTTCCTTCA
* * *
1097840 CTTGACCATTCTGGAATAAAGCTTGCCCCAATATCAGCGTGAGAACTTTATATTTCAGGCTTGCA
261 CTTGACCATTCTGGAATAAAGCTTGCCCCAATATCAGCATGACAACTTGATATTTCAGGCTTGCA
*
1097905 TCTTCTGGAGAACACTCTGATCATCTTTTGTCAACATGTCTTCTTTATCTCTTATCTTTAAGAAG
326 TCTTCAGGAGAACACTCTGATCATCTTTTGTCAACATGTCTTCTTTATCTCTTATCTTTAAGAAG
*
1097970 CGTTTTCTTTCTTGAATTCTTGTTATGATCA
391 CGTTTTCTTTCTTGAAATCTTGTTATGATCA
1098001 T
1 T
1098002 GTATATAGTC
Statistics
Matches: 407, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
421 407 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (421 bp):
TTTAAAGTAATGATTGTTATGTGGTTTGGGCTCCTCAATTCTTAAAGTTCTACCACTCTAAATAT
ATTTCCCTCCATTTGAAGCATGAATTCTAATTTGCTTTTCTTTCTCTTCTTTTCTTAGAAGAGAT
ATAAGAATTGTACATCTATGTATGAAAATATGAATGCAATTAAATGCATCGCATGATGTTCTTAT
ATGCAAAAATGTCGATCATTAATCTTCTTCTGACTTTAAAGGTTAGAGAACTTGATCTTCCTTCA
CTTGACCATTCTGGAATAAAGCTTGCCCCAATATCAGCATGACAACTTGATATTTCAGGCTTGCA
TCTTCAGGAGAACACTCTGATCATCTTTTGTCAACATGTCTTCTTTATCTCTTATCTTTAAGAAG
CGTTTTCTTTCTTGAAATCTTGTTATGATCA
Found at i:1100204 original size:20 final size:20
Alignment explanation
Indices: 1100168--1100205 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1100158 ATCCTATTCC
**
1100168 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
1100188 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
1100206 GTGAACCAAA
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1101055 original size:60 final size:60
Alignment explanation
Indices: 1100991--1101116 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 60
1100981 AATAATATAA
* * * *
1100991 AATGAGGA-CCATAGTTTGGGGAGTG-ATTTGGAATGTTTAAAAGTTTAGAGACCAATTTAG
1 AATGAGGAGCCATAGTTTAGGGA-TGAATTT-AAATATTCAAAAGTTTAGAGACCAATTTAG
* *
1101051 AATGA-GAGTCATAGTTTAGGGATGAAATTTAAATATTCAAAAGTTTAGAGATCAATTTAG
1 AATGAGGAGCCATAGTTTAGGGATG-AATTTAAATATTCAAAAGTTTAGAGACCAATTTAG
1101111 AATGAG
1 AATGAG
1101117 AAACATAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
59 4 0.07
60 48 0.86
61 4 0.07
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (60 bp):
AATGAGGAGCCATAGTTTAGGGATGAATTTAAATATTCAAAAGTTTAGAGACCAATTTAG
Found at i:1107896 original size:21 final size:21
Alignment explanation
Indices: 1107872--1107920 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1107862 TATATTCGTA
**
1107872 TTGCGATAGTTTAAGTTCGCG
1 TTGCGATAGTCGAAGTTCGCG
1107893 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTCGCG
1107914 TTGCGAT
1 TTGCGAT
1107921 TTATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.16, G:0.31, T:0.35
Consensus pattern (21 bp):
TTGCGATAGTCGAAGTTCGCG
Found at i:1107943 original size:42 final size:41
Alignment explanation
Indices: 1107892--1108026 Score: 153
Period size: 42 Copynumber: 3.2 Consensus size: 41
1107882 TTAAGTTCGC
* ** *
1107892 GTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTTTAAATTT
1 GTTGCGATAGT-GAAATTCGCGTTATGATTTATTTTAAGTTT
* * *
1107934 GTTGTGATAGTTGAAATTCGTGTTATGATTTATTTTAAGTTC
1 GTTGCGATAG-TGAAATTCGCGTTATGATTTATTTTAAGTTT
*
1107976 GTTGCGATAGTTAAATATCGCGTTATGATTTATTTTAAGTTT
1 GTTGCGATAGTGAAAT-TCGCGTTATGATTTATTTTAAGTTT
* *
1108018 ATTGTGATA
1 GTTGCGATA
1108027 TATCGATCGT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 5 0.06
42 72 0.92
43 1 0.01
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.47
Consensus pattern (41 bp):
GTTGCGATAGTGAAATTCGCGTTATGATTTATTTTAAGTTT
Found at i:1108791 original size:38 final size:37
Alignment explanation
Indices: 1108714--1108791 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
1108704 TTTTTATATT
*
1108714 TTTAATTTTGTAAAAAATATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAATATTATATAAATATTATCAA
*
1108751 TTTAATTTTTGTAAAGAAA-A-TATATAAATATTTTACAA
1 TTTAA-TTTTGTAAA-AAATATTATATAAATATTAT-CAA
1108789 TTT
1 TTT
1108792 GTAATATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
37 18 0.50
38 15 0.42
39 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAATATTATATAAATATTATCAA
Found at i:1110208 original size:2 final size:2
Alignment explanation
Indices: 1110201--1110235 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1110191 AACTTATAAC
1110201 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1110236 CACACTAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1115953 original size:25 final size:26
Alignment explanation
Indices: 1115905--1115954 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
1115895 ACTATTGGGG
*
1115905 CAGTTTAACCCAGTTTTGACTCGACT
1 CAGTTTAACCCAGGTTTGACTCGACT
*
1115931 CAGTTTGACCC-GGTTTGACTCGAC
1 CAGTTTAACCCAGGTTTGACTCGAC
1115955 CCAAAGACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (26 bp):
CAGTTTAACCCAGGTTTGACTCGACT
Found at i:1118762 original size:17 final size:17
Alignment explanation
Indices: 1118740--1118789 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
1118730 AAATTCTTCT
1118740 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
*
1118757 AACA-T--T-GATACTCA
1 AACATTCATAGAAAC-CA
1118771 AACATTCATAGAAACCA
1 AACATTCATAGAAACCA
1118788 AA
1 AA
1118790 ACATGAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 4 0.15
14 7 0.27
15 1 0.04
16 1 0.04
17 9 0.35
18 4 0.15
ACGTcount: A:0.52, C:0.22, G:0.06, T:0.20
Consensus pattern (17 bp):
AACATTCATAGAAACCA
Found at i:1120634 original size:4 final size:4
Alignment explanation
Indices: 1120625--1120667 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
1120615 TTCAACTATG
*
1120625 TATT TATT TATT TATT TATT TATT TATT TATT TATT TAAT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
1120668 ACATGCATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:1122446 original size:29 final size:28
Alignment explanation
Indices: 1122384--1122448 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
1122374 ACTCAATGTA
* *
1122384 TAAAATTGAGTGAGTAAATTAAGAAAAT
1 TAAAGTTGAGTGAGTAAATTAAGAAAAG
*
1122412 TGAAAGTTGAGTGAGTGAATTAAGAGAAAG
1 T-AAAGTTGAGTGAGTAAATTAAGA-AAAG
1122442 TAAAGTT
1 TAAAGTT
1122449 CAATGAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 27 0.84
30 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.25, T:0.28
Consensus pattern (28 bp):
TAAAGTTGAGTGAGTAAATTAAGAAAAG
Found at i:1122455 original size:29 final size:29
Alignment explanation
Indices: 1122394--1122455 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
1122384 TAAAATTGAG
* * *
1122394 TGAGTAAATTAAGAAAATTGAAAGTTGAG
1 TGAGTAAATTAAGAAAAGTGAAAGTTCAA
*
1122423 TGAGTGAATTAAGAGAAAGT-AAAGTTCAA
1 TGAGTAAATTAAGA-AAAGTGAAAGTTCAA
1122452 TGAG
1 TGAG
1122456 AAACAATGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.26, T:0.26
Consensus pattern (29 bp):
TGAGTAAATTAAGAAAAGTGAAAGTTCAA
Found at i:1128714 original size:21 final size:22
Alignment explanation
Indices: 1128685--1128737 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
1128675 ATTCTGACTA
1128685 TCGCATTGCGATTTTCC-AAAT
1 TCGCATTGCGATTTTCCTAAAT
*
1128706 TCGCGTTGCGATTTTCCTAAA-
1 TCGCATTGCGATTTTCCTAAAT
*
1128727 TCGCAATGCGA
1 TCGCATTGCGA
1128738 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (22 bp):
TCGCATTGCGATTTTCCTAAAT
Found at i:1128748 original size:20 final size:20
Alignment explanation
Indices: 1128723--1128819 Score: 167
Period size: 20 Copynumber: 4.8 Consensus size: 20
1128713 GCGATTTTCC
1128723 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
1128743 TAAATCGCAATGCGAATATG
1 TAAATCGCAATGCGAATACG
1128763 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
1128783 TAAATCGCAATACGAATACG
1 TAAATCGCAATGCGAATACG
*
1128803 TAAATCGCAACGCGAAT
1 TAAATCGCAATGCGAAT
1128820 CTGACTATCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:1128829 original size:20 final size:20
Alignment explanation
Indices: 1128806--1128892 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
1128796 GAATACGTAA
* *
1128806 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
*
1128826 ATCGCAACGAGATTTTGACT
1 ATCGCAACGAGATTCTGACT
1128846 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
1128866 ATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACT
1128886 ATCGCAA
1 ATCGCAA
1128893 TACTGAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:1129761 original size:24 final size:24
Alignment explanation
Indices: 1129734--1129787 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
1129724 GTATTCGAAA
1129734 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCGGAC
*
1129758 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
1129782 TTTGAT
1 TTTGAT
1129788 GATTTTTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:1136392 original size:14 final size:16
Alignment explanation
Indices: 1136361--1136397 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
1136351 AACCTGAATC
1136361 GAGAGAGCAGAGATTA
1 GAGAGAGCAGAGATTA
1136377 GAGAGAG-AGAGA-TA
1 GAGAGAGCAGAGATTA
1136391 GAGAGAG
1 GAGAGAG
1136398 GGAATGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 9 0.43
15 5 0.24
16 7 0.33
ACGTcount: A:0.46, C:0.03, G:0.43, T:0.08
Consensus pattern (16 bp):
GAGAGAGCAGAGATTA
Found at i:1154630 original size:31 final size:32
Alignment explanation
Indices: 1154538--1154631 Score: 95
Period size: 31 Copynumber: 3.0 Consensus size: 32
1154528 ACATTGAACT
* *
1154538 TTAAAAGTATAAATATTACATTAAATATTTTA
1 TTAAAAGAATAAATATCACATTAAATATTTTA
* **
1154570 TT-AAAGAATAAATACCGA-ATTTGATATTTTA
1 TTAAAAGAATAAATATC-ACATTAAATATTTTA
* *
1154601 TTAAAAG-ATAACTATCACATTAAACATTTTA
1 TTAAAAGAATAAATATCACATTAAATATTTTA
1154632 AAAGTGCAGG
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
30 1 0.02
31 41 0.84
32 7 0.14
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.39
Consensus pattern (32 bp):
TTAAAAGAATAAATATCACATTAAATATTTTA
Found at i:1156714 original size:28 final size:26
Alignment explanation
Indices: 1156659--1156721 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 26
1156649 AGACATATAA
*
1156659 TTTTTTTTT-CATTGCACAATCTCTC
1 TTTTTTTTTCCTTTGCACAATCTCTC
*
1156684 TTTCTTTATTTCCTTTGCACAAT-TTTGC
1 TTT-TTT-TTTCCTTTGCACAATCTCT-C
1156712 TTTTTTTTTC
1 TTTTTTTTTC
1156722 TTCTCTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
25 3 0.09
26 7 0.22
27 8 0.25
28 14 0.44
ACGTcount: A:0.13, C:0.21, G:0.05, T:0.62
Consensus pattern (26 bp):
TTTTTTTTTCCTTTGCACAATCTCTC
Found at i:1157944 original size:21 final size:19
Alignment explanation
Indices: 1157904--1157957 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
1157894 AAATCAAGGA
*
1157904 AAAATAAAATAAAATAAAAT
1 AAAA-AAAAGAAAATAAAAT
*
1157924 AAAAAGAACGAAAATAGAAAT
1 AAAAA-AAAGAAAATA-AAAT
1157945 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
1157958 ATTGGATTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 19 0.66
21 9 0.31
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (19 bp):
AAAAAAAAGAAAATAAAAT
Found at i:1157959 original size:15 final size:15
Alignment explanation
Indices: 1157903--1157959 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
1157893 AAAATCAAGG
1157903 AAAAAT-AAAATAAA
1 AAAAATAAAAATAAA
* *
1157917 ATAAAATAAAAAGAAC
1 A-AAAATAAAAATAAA
* *
1157933 GAAAATAGAAATAAA
1 AAAAATAAAAATAAA
*
1157948 AAAAAGAAAAAT
1 AAAAATAAAAAT
1157960 TGGATTGCCT
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
14 1 0.03
15 25 0.78
16 6 0.19
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAATAAA
Found at i:1160851 original size:31 final size:32
Alignment explanation
Indices: 1160778--1160854 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
1160768 TATAAAAATT
1160778 ACATTAAATATTTTATTAAATAATAAATACCG
1 ACATTAAATATTTTATTAAATAATAAATACCG
** * *
1160810 A-ATTTGATATTTTATTAAA-AGATAACTATC-
1 ACATTAAATATTTTATTAAATA-ATAAATACCG
1160840 ACATTAAATATTTTA
1 ACATTAAATATTTTA
1160855 AAAGTGCTGG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 2 0.05
31 34 0.92
32 1 0.03
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.42
Consensus pattern (32 bp):
ACATTAAATATTTTATTAAATAATAAATACCG
Done.