Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013294.1 Kokia drynarioides strain JFW-HI SEQ_128316, 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: 314966
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 40 characters in sequence are not A, C, G, or T
Found at i:744 original size:6 final size:6
Alignment explanation
Indices: 727--808 Score: 59
Period size: 6 Copynumber: 14.3 Consensus size: 6
717 ATTTAAATAG
*
727 ATTTAA ATTTTAA ATTTATA A--TAA ATTTAA ATTT-A A-GTAA ATTTAA
1 ATTTAA A-TTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* * * *
773 ACTTAA A-ATAA ATTTAA TTTTAA A-ATAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT
809 CTTATTGGGC
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
4 3 0.05
5 14 0.24
6 34 0.58
7 8 0.14
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:755 original size:17 final size:17
Alignment explanation
Indices: 730--808 Score: 106
Period size: 17 Copynumber: 4.6 Consensus size: 17
720 TAAATAGATT
*
730 TAAATTTTAAATTTATAA
1 TAAA-TTTAAATTTAAAA
*
748 TAAATTTAAATTT-AAG
1 TAAATTTAAATTTAAAA
*
764 TAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAAA
*
781 TAAATTTAATTTTAAAA
1 TAAATTTAAATTTAAAA
798 TAAATTTAAAT
1 TAAATTTAAAT
809 CTTATTGGGC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
16 13 0.25
17 36 0.68
18 4 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:783 original size:33 final size:34
Alignment explanation
Indices: 730--812 Score: 105
Period size: 33 Copynumber: 2.4 Consensus size: 34
720 TAAATAGATT
* * *
730 TAAATTTTAAATTTATAATAAATTTAAATTT-AAG
1 TAAA-TTTAAACTTAAAATAAATTTAAATTTAAAA
*
764 TAAATTTAAACTTAAAATAAATTTAATTTTAAAA
1 TAAATTTAAACTTAAAATAAATTTAAATTTAAAA
798 TAAATTTAAATCTTA
1 TAAATTTAAA-CTTA
813 TTGGGCCCGG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
33 23 0.53
34 16 0.37
35 4 0.09
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (34 bp):
TAAATTTAAACTTAAAATAAATTTAAATTTAAAA
Found at i:8790 original size:35 final size:35
Alignment explanation
Indices: 8750--8816 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
8740 TATAGAGATT
8750 AAAATACATATTATCTTTATTAATTTAAAATTATC
1 AAAATACATATTATCTTTATTAATTTAAAATTATC
8785 AAAATACATATTATCTTTATTAATTTAAAATT
1 AAAATACATATTATCTTTATTAATTTAAAATT
8817 TAAAATTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (35 bp):
AAAATACATATTATCTTTATTAATTTAAAATTATC
Found at i:11284 original size:29 final size:31
Alignment explanation
Indices: 11243--11303 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 31
11233 ATGAAGGATT
*
11243 AAATTTGAATTTTTGTG-AGTTTAGGGACTA
1 AAATTTGAATTTTAGTGAAGTTTAGGGACTA
* * *
11273 AAATTTG-TTTTTAGTGAATTTTAGGGTCTA
1 AAATTTGAATTTTAGTGAAGTTTAGGGACTA
11303 A
1 A
11304 TTCTTAGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (31 bp):
AAATTTGAATTTTAGTGAAGTTTAGGGACTA
Found at i:12232 original size:26 final size:27
Alignment explanation
Indices: 12166--12233 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 27
12156 CGATTTGTGA
* *
12166 ACCCGACCCATTGACCTGAGTTGATCG
1 ACCCGACCCATTGACATGAGTTGACCG
** *
12193 ACCTAACTCATTGA-ATGAGTTGACCG
1 ACCCGACCCATTGACATGAGTTGACCG
*
12219 ACCCGACCCGTTGAC
1 ACCCGACCCATTGAC
12234 CTTGACACAT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (27 bp):
ACCCGACCCATTGACATGAGTTGACCG
Found at i:32408 original size:24 final size:24
Alignment explanation
Indices: 32376--32467 Score: 105
Period size: 24 Copynumber: 3.8 Consensus size: 24
32366 TACTGGTTAA
* *
32376 CCATTCTGGGATCATAAGAGCTAG
1 CCATTCTGGGCTCGTAAGAGCTAG
* *
32400 CCATTCTGGGCTCGTAAAAG-TTG
1 CCATTCTGGGCTCGTAAGAGCTAG
* *
32423 ACCATTCTGGGCTTGTAAGAGCTAA
1 -CCATTCTGGGCTCGTAAGAGCTAG
*
32448 CCATTCTGGACTCGTAAGAG
1 CCATTCTGGGCTCGTAAGAG
32468 ATAAAGTTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
23 2 0.04
24 53 0.95
25 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (24 bp):
CCATTCTGGGCTCGTAAGAGCTAG
Found at i:40775 original size:43 final size:43
Alignment explanation
Indices: 40698--40943 Score: 252
Period size: 43 Copynumber: 5.8 Consensus size: 43
40688 GCTTGATGTT
* * * ** *
40698 TAAATGGAAGACTCATGTCTCGGGTTGAGTATGAGAATTTATA
1 TAAAAGGAAGACTCGTGACTCGGAATGAGCATGAGAATTTATA
*
40741 CAAAAGGAAGACTCGTGACTCGGAATGAGCATGAGAATTTATA
1 TAAAAGGAAGACTCGTGACTCGGAATGAGCATGAGAATTTATA
*
40784 TAAAAGGAAGACTCGTGACTCGGAATAAGCATGAGAATTTATA
1 TAAAAGGAAGACTCGTGACTCGGAATGAGCATGAGAATTTATA
* * *
40827 TAAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAA--AATC
1 TAAAAGGAAGACTCGTGACTCGGAATGAGCATGAGAATTTATA
* * * *
40868 TTAAAGGAAGACTCATGTCTC-GAGATGAGAATGAG-A-TTATA
1 TAAAAGGAAGACTCGTGACTCGGA-ATGAGCATGAGAATTTATA
* * * * *
40909 TTAAAA-GAAGTCTCATGCCTCGAAATGAGCGTGAG
1 -TAAAAGGAAGACTCGTGACTCGGAATGAGCATGAG
40944 CTTTTGTTCT
Statistics
Matches: 173, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.01
41 54 0.31
42 5 0.03
43 112 0.65
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (43 bp):
TAAAAGGAAGACTCGTGACTCGGAATGAGCATGAGAATTTATA
Found at i:41038 original size:41 final size:42
Alignment explanation
Indices: 40953--41054 Score: 102
Period size: 41 Copynumber: 2.5 Consensus size: 42
40943 GCTTTTGTTC
* * *
40953 TAAAAAGGAAGACTTATG-ACTCGGTTGAGCATAAGATTGTT
1 TAAAAAGGAAGATTTATGAACTCGGTTGAGCATAAGATCGGT
* *
40994 TAAAAAGGAAGATTTATGAACT-GG-TGAAGTATGAGATCGGT
1 TAAAAAGGAAGATTTATGAACTCGGTTG-AGCATAAGATCGGT
* *
41035 TAAAGAGGAAGTTTTTATGA
1 TAAAAAGGAAG-ATTTATGA
41055 CTCAAATGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
40 2 0.04
41 39 0.76
42 10 0.20
ACGTcount: A:0.38, C:0.06, G:0.26, T:0.29
Consensus pattern (42 bp):
TAAAAAGGAAGATTTATGAACTCGGTTGAGCATAAGATCGGT
Found at i:46081 original size:20 final size:21
Alignment explanation
Indices: 46047--46104 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
46037 TAAAAATAAG
* *
46047 CTTGTTTCTGTAGAAGAGTCA
1 CTTGTATCCGTAGAAGAGTCA
**
46068 CTTGTA-CCGTAGAACTGTCA
1 CTTGTATCCGTAGAAGAGTCA
* *
46088 CTTTTATCGGTAGAAGA
1 CTTGTATCCGTAGAAGA
46105 CTACACTATT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (21 bp):
CTTGTATCCGTAGAAGAGTCA
Found at i:49580 original size:16 final size:16
Alignment explanation
Indices: 49555--49585 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49545 TTTAATAAAC
49555 AAAGTAAAATGAAAGA
1 AAAGTAAAATGAAAGA
*
49571 AAAGTGAAATGAAAG
1 AAAGTAAAATGAAAG
49586 GGATTTTCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.13
Consensus pattern (16 bp):
AAAGTAAAATGAAAGA
Found at i:50438 original size:82 final size:84
Alignment explanation
Indices: 50307--50461 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 84
50297 TGTTTAAATG
** * *
50307 GAAGACTCATGTCTCGGGTTGAGCATGAAAATTTATATAAAAGGAAGACTCGTGACTCGGAATGA
1 GAAGACTCATGTCTCGGAATGAGAATGAAAATTTATATAAAAGGAAGACTCATGACTCGGAATGA
50372 GCATGAGAAAATGTTAAAA
66 GCATGAGAAAATGTTAAAA
* * * *
50391 GAAGACTCATGTCTCGGAATGAGAAT-CAGA-TTATATTAAAGGAAGACTCATGCCTCGGAATGA
1 GAAGACTCATGTCTCGGAATGAGAATGAAAATTTATATAAAAGGAAGACTCATGACTCGGAATGA
*
50454 GCGTGAGA
66 GCATGAGA
50462 TTTTGTTCTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
82 37 0.60
83 2 0.03
84 23 0.37
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (84 bp):
GAAGACTCATGTCTCGGAATGAGAATGAAAATTTATATAAAAGGAAGACTCATGACTCGGAATGA
GCATGAGAAAATGTTAAAA
Found at i:50463 original size:41 final size:41
Alignment explanation
Indices: 50300--50463 Score: 175
Period size: 41 Copynumber: 3.9 Consensus size: 41
50290 TACTTGATGT
** *
50300 TTAAATGGAAGACTCATGTCTCGGGTTGAGCATGAAAATTTATA
1 TTAAA-GGAAGACTCATGTCTCGGAATGAGCATG-AGA-TTATA
* * * ** *
50344 TAAAAGGAAGACTCGTGACTCGGAATGAGCATGAGAAAATG
1 TTAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATTATA
* * *
50385 TTAAAAGAAGACTCATGTCTCGGAATGAGAATCAGATTATA
1 TTAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATTATA
* *
50426 TTAAAGGAAGACTCATGCCTCGGAATGAGCGTGAGATT
1 TTAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATT
50464 TTGTTCTAAA
Statistics
Matches: 97, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
41 67 0.69
42 2 0.02
43 24 0.25
44 4 0.04
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (41 bp):
TTAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATTATA
Found at i:52788 original size:6 final size:6
Alignment explanation
Indices: 52781--52814 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
52771 ATACAGTCAT
* *
52781 ATATAT ATATAT ATATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
52815 TGAGATAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (6 bp):
ATATAC
Found at i:52794 original size:12 final size:12
Alignment explanation
Indices: 52766--52814 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
52756 TAATTATAAT
52766 TATATATACAGTCA
1 TATATATACA-T-A
52780 TATATAT--ATA
1 TATATATACATA
52790 TATATATACATA
1 TATATATACATA
*
52802 TACATATACATA
1 TATATATACATA
52814 T
1 T
52815 TGAGATAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 8 0.25
11 1 0.03
12 16 0.50
14 7 0.22
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (12 bp):
TATATATACATA
Found at i:56986 original size:20 final size:19
Alignment explanation
Indices: 56963--57055 Score: 70
Period size: 20 Copynumber: 5.0 Consensus size: 19
56953 ATTAAGAATG
56963 TTATTAAATTATATATTAAT
1 TTATTAAATTATAT-TTAAT
*
56983 TTATTAAATTGTATTTAA-
1 TTATTAAATTATATTTAAT
* *
57001 -TAAT-AATTATATTAAAT
1 TTATTAAATTATATTTAAT
** *
57018 AAGATTAAATTAT-TTATTAT
1 -TTATTAAATTATATT-TAAT
57038 TT-TTAAATTATATTTAAT
1 TTATTAAATTATATTTAAT
57056 AATAATCTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
16 10 0.18
17 3 0.05
18 12 0.21
19 10 0.18
20 21 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TTATTAAATTATATTTAAT
Found at i:57059 original size:54 final size:56
Alignment explanation
Indices: 56923--57071 Score: 180
Period size: 54 Copynumber: 2.6 Consensus size: 56
56913 TATTATGATT
* * *
56923 TTTATTAATTTATATTTTAATAATTATTATATTAAGAATGTTATTAAATTATATATTAA
1 TTTATTAAATTATA-TTTAATAATAATTATATTAA-AAAG-TATTAAATTATATATTAA
* *
56982 TTTATTAAATTGTATTTAATAATAATTATATTAAATAAG-ATTAAATTATTTATT-A
1 TTTATTAAATTATATTTAATAATAATTATATTAAA-AAGTATTAAATTATATATTAA
57037 TTT-TTAAATTATATTTAATAATAATCT-TATTAAAA
1 TTTATTAAATTATATTTAATAATAAT-TATATTAAAA
57072 TTTAATAACA
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
53 1 0.01
54 28 0.34
55 5 0.06
56 14 0.17
57 1 0.01
58 21 0.26
59 12 0.15
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (56 bp):
TTTATTAAATTATATTTAATAATAATTATATTAAAAAGTATTAAATTATATATTAA
Found at i:58348 original size:27 final size:27
Alignment explanation
Indices: 58307--58380 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
58297 TGAAGACTAC
*
58307 CTGACAGGCACCACCAATGGTGCCAAT
1 CTGACAGGCAGCACCAATGGTGCCAAT
* * * *
58334 TTGACAGGCGGCACCTATGGTGCCTAT
1 CTGACAGGCAGCACCAATGGTGCCAAT
**
58361 CTGGTAGGCAGCACCAATGG
1 CTGACAGGCAGCACCAATGG
58381 CTTATTTCTA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.19
Consensus pattern (27 bp):
CTGACAGGCAGCACCAATGGTGCCAAT
Found at i:63912 original size:19 final size:20
Alignment explanation
Indices: 63876--63913 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
63866 TTAATAACAT
63876 AAAAATAAATATACAAATAA
1 AAAAATAAATATACAAATAA
*
63896 AAAAATAAA-ATAGAAATA
1 AAAAATAAATATACAAATA
63914 TACCTACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (20 bp):
AAAAATAAATATACAAATAA
Found at i:67853 original size:29 final size:28
Alignment explanation
Indices: 67794--67853 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
67784 TGCCAAAAAA
*
67794 TTTTAAAAATTACGTAAATAAATCAACT
1 TTTTAAAAATTACGTAAATAAATCAAAT
67822 TTTTAAAAAATTTACG-AGAATAAA-CAAAT
1 TTTT-AAAAA-TTACGTA-AATAAATCAAAT
67851 TTT
1 TTT
67854 ACGAAAACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.14
29 13 0.46
30 11 0.39
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (28 bp):
TTTTAAAAATTACGTAAATAAATCAAAT
Found at i:68716 original size:12 final size:12
Alignment explanation
Indices: 68682--68725 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
68672 TGTGATGAAT
*
68682 TGTTTATATTTA
1 TGTTTATAATTA
** *
68694 TACTTACAATTA
1 TGTTTATAATTA
68706 TGTTTATAATTA
1 TGTTTATAATTA
68718 TGTTTATA
1 TGTTTATA
68726 GCTTCTTCAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (12 bp):
TGTTTATAATTA
Found at i:84640 original size:116 final size:116
Alignment explanation
Indices: 84436--84802 Score: 617
Period size: 116 Copynumber: 3.2 Consensus size: 116
84426 CATCTTCTTA
* * *
84436 ATGAGAGACAGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAAAGAAG
1 ATGAGATACTGAGAAGCAGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAAAGAAG
* *
84501 TATACCAACTCAAGGCTCAAAGTGAGCGAATTTTCGAACCCCAGCTTCCTG
66 TATACCAACTCAAGGCTCAAAGTGAGCAAATATTCGAACCCCAGCTTCCTG
* *
84552 ATGAGATATTGAGAAGCAGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAG
1 ATGAGATACTGAGAAGCAGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAAAGAAG
*
84617 TATACCAACTCAAGGCTCAAAGTGAGCAAATATTCAAACCCCAGCTTCCTG
66 TATACCAACTCAAGGCTCAAAGTGAGCAAATATTCGAACCCCAGCTTCCTG
* *
84668 ATGAGATACTGAGAAGCGGATTGAAACAAGTGAGGCGGTCATCTTCCTAATGAGATACAAAGAAG
1 ATGAGATACTGAGAAGCAGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAAAGAAG
* * *
84733 TATACCAACTCAAGGCTCAAAGTGAGCAAATCTTAGAACCTCAGCTTCCTG
66 TATACCAACTCAAGGCTCAAAGTGAGCAAATATTCGAACCCCAGCTTCCTG
84784 ATGAGATACTGAGAAGCAG
1 ATGAGATACTGAGAAGCAG
84803 GTCGAAGAAA
Statistics
Matches: 234, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 234 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (116 bp):
ATGAGATACTGAGAAGCAGATTGAAACAAGTGAGGCGGTCATCTTCCTGATGAGATACAAAGAAG
TATACCAACTCAAGGCTCAAAGTGAGCAAATATTCGAACCCCAGCTTCCTG
Found at i:85150 original size:208 final size:208
Alignment explanation
Indices: 84748--85689 Score: 1256
Period size: 208 Copynumber: 4.6 Consensus size: 208
84738 CAACTCAAGG
* *
84748 CTCAAAGTGAGCAAATCTTAGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG-AA
1 CTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* * * * * *
84812 -AAAAGGGTTACCTTCTTTATGAGATATAGAGAAGTGAATCAGATCCGTCTTCCTGATGAGACAC
66 TAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGACAC
* *
84876 --AGAAGTGGATCAAAACAAAGATGCGGTCATCTTCCTGATGAGACACTGAGAAGTAGACCAAAT
131 AGAGAAGTGGATCAAAACAAAGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAAT
*
84939 CAACGAAACCAGG
196 CAACGAAACCAGA
* *
84952 CTCAAAGTGAGCAAATCTTTGAACCCCAGCTTCCTGATGAGATACTGAGAAGTAGGTCGAAGCAA
1 CTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
** * * * *
85017 TAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAATCAGATCTGTCTTCCTGATGAGACAA
66 TAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGACAC
* * * * *
85082 AGAGAAGTGGATCAAAACAAAGATGCGGTCATCTTCTTGATGAGATATTGAGAAGTAGATCTAAT
131 AGAGAAGTGGATCAAAACAAAGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAAT
85147 CAACGAAACCAGA
196 CAACGAAACCAGA
85160 CTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
1 CTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* * *
85225 TAAAATAGTTACCTTCTTGATGAGATACAGAGAAGTGAACCAAATCTGTCTTCCTGATGAGACAC
66 TAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGACAC
* * *
85290 AGAGAAGTGGATCAAAACAGAGATGCGATCATCTTCCTGATGAGATAGTAAGAAGTAGACCAAAT
131 AGAGAAGTGGATCAAAACAAAGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAAT
85355 CAACGAAACCAGA
196 CAACGAAACCAGA
* * *
85368 CTCAAAGTGAGCAAATCTTCGAACTCGAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAATCAA
1 CTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
*** * *
85433 TAAAATGGTCGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATCCGTCTTCCTGATGAGATAC
66 TAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGACAC
* * * * *
85498 AGAGAAGCGGATCAAAATAAGTGATGCGAT-AGTCTTCTTGATGAGATACTGAGAAGTAGGCCAA
131 AGAGAAGTGGATCAAAACAA-AGATGCGATCA-TCTTCCTGATGAGATACTGAGAAGTAGACCAA
*
85562 ATCAATGAAACCA-A
194 ATCAACGAAACCAGA
* * * * * *
85576 ---AATGTGAGCAAAACTTCGAACTCCAACTT-CTCGATGAGATACGGAAAAGCAGGTCGAAGCA
1 CTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCT-GATGAGATACTGAGAAGCAGGTCGAAGCA
** * * ** * * *
85637 ATAATGTGGTCATCTTCCTGGCGAGACATAGAGATGTGAACCAAATCCGTCTT
65 ATAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTT
85690 TCTAGTAAAA
Statistics
Matches: 663, Mismatches: 68, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
204 61 0.09
205 97 0.15
206 57 0.09
208 400 0.60
209 48 0.07
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (208 bp):
CTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
TAAAATGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAGACAC
AGAGAAGTGGATCAAAACAAAGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAAT
CAACGAAACCAGA
Found at i:85483 original size:37 final size:37
Alignment explanation
Indices: 85442--85513 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
85432 ATAAAATGGT
*
85442 CGTCTTCCTGATGAGATACAGAGAAGTGGACCAAATC
1 CGTCTTCCTGATGAGATACAGAGAAGCGGACCAAATC
*
85479 CGTCTTCCTGATGAGATACAGAGAAGCGGATCAAA
1 CGTCTTCCTGATGAGATACAGAGAAGCGGACCAAA
85514 ATAAGTGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (37 bp):
CGTCTTCCTGATGAGATACAGAGAAGCGGACCAAATC
Found at i:86132 original size:28 final size:29
Alignment explanation
Indices: 86088--86167 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 29
86078 AAACTTCTAA
*
86088 TTTTAAATTTATATT-AAGTTTAAATTGG
1 TTTTAAATTTATATTAAAATTTAAATTGG
*
86116 TTTTAAATTTATTTTAAAATTTAAA----
1 TTTTAAATTTATATTAAAATTTAAATTGG
* *
86141 TTTAAAATTTATTTTAAAATTTAAATT
1 TTTTAAATTTATATTAAAATTTAAATT
86168 TAGTTTAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
25 24 0.52
28 14 0.30
29 8 0.17
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (29 bp):
TTTTAAATTTATATTAAAATTTAAATTGG
Found at i:86137 original size:12 final size:12
Alignment explanation
Indices: 86116--86163 Score: 71
Period size: 12 Copynumber: 4.0 Consensus size: 12
86106 TTTAAATTGG
86116 TTTT-AAATTTA
1 TTTTAAAATTTA
86127 TTTTAAAATTTAA
1 TTTTAAAATTT-A
*
86140 ATTTAAAATTTA
1 TTTTAAAATTTA
86152 TTTTAAAATTTA
1 TTTTAAAATTTA
86164 AATTTAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
11 4 0.12
12 18 0.55
13 11 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTAAAATTTA
Found at i:86146 original size:13 final size:13
Alignment explanation
Indices: 86128--86169 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
86118 TTAAATTTAT
86128 TTTAAAATTTAAA
1 TTTAAAATTTAAA
*
86141 TTTAAAATTT-AT
1 TTTAAAATTTAAA
86153 TTTAAAATTTAAA
1 TTTAAAATTTAAA
86166 TTTA
1 TTTA
86170 GTTTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAAAATTTAAA
Found at i:86154 original size:25 final size:25
Alignment explanation
Indices: 86120--86169 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
86110 AATTGGTTTT
86120 AAATTTATTTTAAAATTTAAATTTA
1 AAATTTATTTTAAAATTTAAATTTA
86145 AAATTTATTTTAAAATTTAAATTTA
1 AAATTTATTTTAAAATTTAAATTTA
86170 GTTTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
AAATTTATTTTAAAATTTAAATTTA
Found at i:86184 original size:18 final size:17
Alignment explanation
Indices: 86135--86184 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
86125 TATTTTAAAA
*
86135 TTTAAATTTAAAATTTAT
1 TTTAAATTT-AAATTTAG
86153 TTTAAAATTTAAATTTAG
1 TTT-AAATTTAAATTTAG
86171 TTTAAATTTGAAAT
1 TTTAAATTT-AAAT
86185 GGTTTTAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.21
18 17 0.59
19 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAAATTTAG
Found at i:87994 original size:29 final size:29
Alignment explanation
Indices: 87948--88141 Score: 85
Period size: 30 Copynumber: 6.6 Consensus size: 29
87938 CCCAAAAGGT
* *
87948 CCCTAAACTGTTC-AAAAATCATGTTTTGA
1 CCCTAAACT-TTCAAAAAATCATATTTTAA
* *
87977 CCCTAAAACTTTCCAAAAATTATATTTTAA
1 CCCT-AAACTTTCAAAAAATCATATTTTAA
* *
88007 CCCTTAAACTTTACAATAATTACAT-TTTT--
1 CCC-TAAACTTT-CAAAAAAT-CATATTTTAA
* * * *
88036 GCCTCGAACTTTCTAAAAATTCAT-TTTTAC
1 CCCT-AAACTTTC-AAAAAATCATATTTTAA
* * * * *
88066 CCCTCGAAC-TTCCAAAAATTATATTCTAC
1 CCCT-AAACTTTCAAAAAATCATATTTTAA
* * *
88095 CCCTAAACTTTCCAAAAATCACATTTTTAC
1 CCCTAAACTTTCAAAAAATCATA-TTTTAA
* *
88125 CCCTGAACTTCCAAAAA
1 CCCTAAACTTTCAAAAA
88142 TTACCATTTA
Statistics
Matches: 131, Mismatches: 22, Indels: 23
0.74 0.12 0.13
Matches are distributed among these distances:
28 19 0.15
29 45 0.34
30 55 0.42
31 10 0.08
32 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (29 bp):
CCCTAAACTTTCAAAAAATCATATTTTAA
Found at i:88112 original size:58 final size:58
Alignment explanation
Indices: 88057--88320 Score: 262
Period size: 57 Copynumber: 4.6 Consensus size: 58
88047 TCTAAAAATT
*
88057 CATTTTTACCCCTCGAACTTCCAAAAATTA-TATTCTACCCCTAAACTTTCCAAAAATCA
1 CATTTTTACCCCTCGAACTTCCAAAAATTACCATT-TACCCCTAAAC-TTCCAAAAATCA
*
88116 CATTTTTACCCCT-GAACTTCCAAAAATTACCATTTA-CCTTAAACTTCC-AAAATCA
1 CATTTTTACCCCTCGAACTTCCAAAAATTACCATTTACCCCTAAACTTCCAAAAATCA
* * *
88171 CATTTTT-TCCCTCGAACTTCCAAAAATTACCATTTTACCCCCAAACTTCCAAAAAATAA
1 CATTTTTACCCCTCGAACTTCCAAAAATTACCA-TTTACCCCTAAACTTCC-AAAAATCA
* * * * * * **
88230 CA-TTTT-GCCC-GGAACCTCCAAAAATAACCCTTTTACTCCCCAAACTTCCAAAAATTG
1 CATTTTTACCCCTCGAACTTCCAAAAATTA-CCATTTAC-CCCTAAACTTCCAAAAATCA
*
88287 CATTTTTACCCC-C-AAATGTCCAAAAATTA-CATTT
1 CATTTTTACCCCTCGAACT-TCCAAAAATTACCATTT
88321 TTGCCCCCGA
Statistics
Matches: 175, Mismatches: 19, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
54 4 0.02
55 33 0.19
56 8 0.05
57 48 0.27
58 45 0.26
59 37 0.21
ACGTcount: A:0.36, C:0.30, G:0.03, T:0.31
Consensus pattern (58 bp):
CATTTTTACCCCTCGAACTTCCAAAAATTACCATTTACCCCTAAACTTCCAAAAATCA
Found at i:88150 original size:30 final size:29
Alignment explanation
Indices: 87948--88327 Score: 232
Period size: 29 Copynumber: 13.1 Consensus size: 29
87938 CCCAAAAGGT
*
87948 CCCTAAACTGTTCAAAAA-T-CATGTTTTGA-
1 CCCTAAACT-TCCAAAAATTACAT-TTTT-AC
* *
87977 CCCTAAAACTTTCCAAAAATTATATTTTAAC
1 CCCT-AAAC-TTCCAAAAATTACATTTTTAC
* * * *
88008 CCTTAAACTTTACAATAATTACATTTTTGC
1 CCCTAAAC-TTCCAAAAATTACATTTTTAC
* * *
88038 CTC-GAACTTTCTAAAAATT-CATTTTTAC
1 CCCTAAAC-TTCCAAAAATTACATTTTTAC
* * *
88066 CCCTCGAACTTCCAAAAATTATA-TTCTAC
1 CCCT-AAACTTCCAAAAATTACATTTTTAC
*
88095 CCCTAAACTTTCCAAAAATCACATTTTTAC
1 CCCTAAAC-TTCCAAAAATTACATTTTTAC
*
88125 CCCTGAACTTCCAAAAATTACCA--TTTA-
1 CCCTAAACTTCCAAAAATTA-CATTTTTAC
* * *
88152 CCTTAAACTTCC-AAAATCACATTTTT-T
1 CCCTAAACTTCCAAAAATTACATTTTTAC
*
88179 CCCTCGAACTTCCAAAAATTACCA-TTTTAC
1 CCCT-AAACTTCCAAAAATTA-CATTTTTAC
* * *
88209 CCCCAAACTTCCAAAAAATAACA-TTTT-G
1 CCCTAAACTTCC-AAAAATTACATTTTTAC
** * * **
88237 CCCGGAACCTCCAAAAATAACCCTTTTAC
1 CCCTAAACTTCCAAAAATTACATTTTTAC
* *
88266 TCCCCAAACTTCCAAAAATTGCATTTTTAC
1 -CCCTAAACTTCCAAAAATTACATTTTTAC
* *
88296 CCCCAAA-TGTCCAAAAATTACATTTTTGC
1 CCCTAAACT-TCCAAAAATTACATTTTTAC
88325 CCC
1 CCC
88328 CGAGTGTTCA
Statistics
Matches: 277, Mismatches: 51, Indels: 46
0.74 0.14 0.12
Matches are distributed among these distances:
25 2 0.01
26 6 0.02
27 25 0.09
28 38 0.14
29 109 0.39
30 87 0.31
31 8 0.03
32 2 0.01
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTACATTTTTAC
Found at i:88328 original size:29 final size:27
Alignment explanation
Indices: 88050--88386 Score: 151
Period size: 29 Copynumber: 11.7 Consensus size: 27
88040 CGAACTTTCT
*
88050 AAAAATT-CATTTTTACCCCTCGAACTTCC
1 AAAAATTACA-TTTTACCCC-C-AAATTCC
* * *
88079 AAAAATTATATTCTACCCCTAAACTTTCC
1 AAAAATTACATTTTACCCCCAAA--TTCC
* * *
88108 AAAAATCACATTTTTACCCCTGAACTTCC
1 AAAAATTACA-TTTTACCCC-CAAATTCC
**
88137 AAAAATTACCA-TTTA-CCTTAAACTTCC
1 AAAAATTA-CATTTTACCCCCAAA-TTCC
* * * *
88164 -AAAATCACATTTTTTCCCTCGAACTTCC
1 AAAAATTACA-TTTTACCC-CCAAATTCC
88192 AAAAATTACCATTTTACCCCCAAACTTCC
1 AAAAATTA-CATTTTACCCCCAAA-TTCC
* * ** **
88221 AAAAAATAACATTTTGCCCGGAACCTCC
1 -AAAAATTACATTTTACCCCCAAATTCC
* *
88249 AAAAATAACCCTTTTACTCCCCAAACTTCC
1 AAAAATTA-CATTTTAC-CCCCAAA-TTCC
*
88279 AAAAATTGCATTTTTACCCCCAAATGTCC
1 AAAAATTACA-TTTTACCCCCAAAT-TCC
* * * *
88308 AAAAATTACATTTTTGCCCCCGAGTGTTC
1 AAAAATTACA-TTTTACCCCCAAAT-TCC
* * * *
88337 AAAAATTACTGTTTTACCCTCGAATCTCT
1 AAAAATTAC-ATTTTACCCCCAAAT-TCC
*
88366 AAAATTTACCATTTTACCCCC
1 AAAAATTA-CATTTTACCCCC
88387 CGAGCATCCA
Statistics
Matches: 234, Mismatches: 52, Indels: 44
0.71 0.16 0.13
Matches are distributed among these distances:
25 2 0.01
26 8 0.03
27 19 0.08
28 23 0.10
29 144 0.62
30 36 0.15
31 2 0.01
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (27 bp):
AAAAATTACATTTTACCCCCAAATTCC
Found at i:89270 original size:18 final size:18
Alignment explanation
Indices: 89247--89283 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
89237 AAGTAATCAA
*
89247 CATGGTACCAATGTTGGG
1 CATGGTACCAATGTCGGG
89265 CATGGTACCAATGTCGGG
1 CATGGTACCAATGTCGGG
89283 C
1 C
89284 GTATGGGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (18 bp):
CATGGTACCAATGTCGGG
Found at i:90502 original size:29 final size:27
Alignment explanation
Indices: 90449--90503 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 27
90439 GCTTATTATT
**
90449 GTTCTAAAAAAAATTTTGATGAGATGA
1 GTTCTAAAAAAAATTTTGACAAGATGA
90476 GTTCTGAAAAAATAATTTTGACAAGATG
1 GTTCT-AAAAAA-AATTTTGACAAGATG
90504 GATTTTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.21
28 6 0.25
29 13 0.54
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.33
Consensus pattern (27 bp):
GTTCTAAAAAAAATTTTGACAAGATGA
Found at i:94198 original size:58 final size:59
Alignment explanation
Indices: 94102--94260 Score: 221
Period size: 58 Copynumber: 2.7 Consensus size: 59
94092 GGGGTTCTCA
* * * * * * *
94102 ATTACATGAAACAAAACAAAAATAACGTGTGCAAAAATATTCAAAGGAACTTTTATTTT
1 ATTAAATGAAACAATACAAAAATAATGTATACAAAAATATTCAAAAGAACTTCTATTTT
94161 ATTAAATGAAACAATA-AAAAATAATGTATACAAAAATATTCAAAAGAACTTCTATTTT
1 ATTAAATGAAACAATACAAAAATAATGTATACAAAAATATTCAAAAGAACTTCTATTTT
* * *
94219 ATTAAATGAAACCATATAAAAATAATGTATAAAAAAATATTC
1 ATTAAATGAAACAATACAAAAATAATGTATACAAAAATATTC
94261 GAAATAAATC
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
58 52 0.58
59 38 0.42
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (59 bp):
ATTAAATGAAACAATACAAAAATAATGTATACAAAAATATTCAAAAGAACTTCTATTTT
Found at i:96117 original size:23 final size:19
Alignment explanation
Indices: 96104--96142 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
96094 TTTCGTATTA
96104 TATATAACTTTTATTTTTT
1 TATATAACTTTTATTTTTT
*
96123 TATCTAACTTTTATTTTTT
1 TATATAACTTTTATTTTTT
96142 T
1 T
96143 TTGTTGGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (19 bp):
TATATAACTTTTATTTTTT
Found at i:96278 original size:9 final size:9
Alignment explanation
Indices: 96249--96457 Score: 82
Period size: 9 Copynumber: 22.6 Consensus size: 9
96239 TTACTGTTTG
96249 TGTATG-TA
1 TGTATGTTA
*
96257 TGTATAATTA
1 TGTAT-GTTA
96267 TGTATGTTA
1 TGTATGTTA
96276 TGTACTGTTA
1 TGTA-TGTTA
96286 TGTATGTTA
1 TGTATGTTA
96295 TGGTCCATACTGTTA
1 T-G----TA-TGTTA
*
96310 TGTATGTTT
1 TGTATGTTA
*
96319 TGTATATTA
1 TGTATGTTA
96328 T-TATG-TA
1 TGTATGTTA
96335 TGTTAT-TT-
1 TG-TATGTTA
96343 T-TACTGTTA
1 TGTA-TGTTA
*
96352 TGTTTGTATA
1 TGTATGT-TA
96362 T-T-TG-TA
1 TGTATGTTA
**
96368 TGTATGAAA
1 TGTATGTTA
*
96377 TGTATATTA
1 TGTATGTTA
96386 TGTATGTTA
1 TGTATGTTA
96395 TGTTTAGTGTTA
1 TG--TA-TGTTA
*
96407 TGTTTGTATA
1 TGTATGT-TA
96417 T-T-TG-TA
1 TGTATGTTA
96423 TGTATGTTA
1 TGTATGTTA
*
96432 TGTTTACTATTA
1 TG--TA-TGTTA
*
96444 TGTATATTA
1 TGTATGTTA
96453 TGTAT
1 TGTAT
96458 ATTTTATTTA
Statistics
Matches: 157, Mismatches: 14, Indels: 59
0.68 0.06 0.26
Matches are distributed among these distances:
6 8 0.05
7 6 0.04
8 19 0.12
9 69 0.44
10 29 0.18
11 4 0.03
12 13 0.08
14 3 0.02
15 6 0.04
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.56
Consensus pattern (9 bp):
TGTATGTTA
Found at i:96352 original size:21 final size:21
Alignment explanation
Indices: 96264--96364 Score: 82
Period size: 21 Copynumber: 4.7 Consensus size: 21
96254 GTATGTATAA
*
96264 TTATGTATGTTA--TGTACTG
1 TTATGTATGTTATTTATACTG
*
96283 TTATGTATGTTATGGTCCATACTG
1 TTATGTATGTTAT--T-TATACTG
* *
96307 TTATGTATGTT-TTGTATATTA
1 TTATGTATGTTATT-TATACTG
*
96328 TTATGTATGTTATTTTTACTG
1 TTATGTATGTTATTTATACTG
*
96349 TTATGTTTGTATATTT
1 TTATGTATGT-TATTT
96365 GTATGTATGA
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
19 12 0.18
21 29 0.45
22 7 0.11
23 1 0.02
24 16 0.25
ACGTcount: A:0.21, C:0.05, G:0.17, T:0.57
Consensus pattern (21 bp):
TTATGTATGTTATTTATACTG
Found at i:96406 original size:55 final size:53
Alignment explanation
Indices: 96326--96531 Score: 193
Period size: 55 Copynumber: 3.7 Consensus size: 53
96316 TTTTGTATAT
* *
96326 TATTATGTATGTTATTTTTACTGTTATGTTTGTATATTTGTATGTATGAAATGTA
1 TATTATGTATGTTATGTTTA-TGTTATGTTTGTATATTTGTATGTATG-TATGTA
96381 TATTATGTATGTTATGTTTAGTGTTATGTTTGTATATTTGTATGTATGTTATGTTTA
1 TATTATGTATGTTATGTTTA-TGTTATGTTTGTATATTTGTATGTATG-TATG--TA
* * * * *
96438 CTATTATGTATATTATGTATATTTTAT-TTACAGT-TATATGTAT-TATGTATGTA
1 -TATTATGTATGTTATGTTTATGTTATGTT--TGTATATTTGTATGTATGTATGTA
* * *
96491 TAATTCTGTATGTTATGTTTATTGTTTTGTATGTTATATTT
1 T-ATTATGTATGTTATGTTTA-TGTTATGTTTG-TATATTT
96532 ATTGTTATGT
Statistics
Matches: 124, Mismatches: 17, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
52 1 0.01
53 19 0.15
54 5 0.04
55 58 0.47
56 6 0.05
57 15 0.12
58 20 0.16
ACGTcount: A:0.24, C:0.02, G:0.16, T:0.58
Consensus pattern (53 bp):
TATTATGTATGTTATGTTTATGTTATGTTTGTATATTTGTATGTATGTATGTA
Found at i:96457 original size:30 final size:30
Alignment explanation
Indices: 96376--96489 Score: 86
Period size: 30 Copynumber: 3.6 Consensus size: 30
96366 TATGTATGAA
*
96376 ATGTATATTATGTATGTTATGTTTAGTGTTATGT
1 ATGTATATTATGTATGTTATGTTTA---CTAT-T
*
96410 TTGTATATTTGTATGTATGTTATGTTTACTATT
1 ATGTATA--T-TATGTATGTTATGTTTACTATT
* * *
96443 ATGTATATTATGTATATTTTATTTAC-AGTT
1 ATGTATATTATGTATGTTATGTTTACTA-TT
* *
96473 ATATGTATTATGTATGT
1 ATGTATATTATGTATGT
96490 ATAATTCTGT
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
29 1 0.01
30 31 0.46
31 1 0.01
33 7 0.10
34 9 0.13
36 1 0.01
37 17 0.25
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.57
Consensus pattern (30 bp):
ATGTATATTATGTATGTTATGTTTACTATT
Found at i:96474 original size:42 final size:44
Alignment explanation
Indices: 96411--96501 Score: 98
Period size: 42 Copynumber: 2.1 Consensus size: 44
96401 GTGTTATGTT
* * *
96411 TGTATATTTGTATGTATGTTATGTTTACTAT-TATGTAT-ATTA
1 TGTATATTTGTATGTAAGTTATATGTACTATGTATGTATAATTA
* * *
96453 TGTATATTT-TATTTACAGTTATATGTATTATGTATGTATAATTC
1 TGTATATTTGTATGTA-AGTTATATGTACTATGTATGTATAATTA
96497 TGTAT
1 TGTAT
96502 GTTATGTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
41 5 0.12
42 20 0.50
43 7 0.17
44 8 0.20
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.56
Consensus pattern (44 bp):
TGTATATTTGTATGTAAGTTATATGTACTATGTATGTATAATTA
Found at i:96521 original size:21 final size:21
Alignment explanation
Indices: 96497--96537 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
96487 TGTATAATTC
*
96497 TGTATGTTATGTTTATTGTTT
1 TGTATGTTATATTTATTGTTT
96518 TGTATGTTATATTTATTGTT
1 TGTATGTTATATTTATTGTT
96538 ATGTTTGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (21 bp):
TGTATGTTATATTTATTGTTT
Found at i:96540 original size:17 final size:17
Alignment explanation
Indices: 96497--96543 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
96487 TGTATAATTC
96497 TGTA-TGTTATGTTTAT
1 TGTATTGTTATGTTTAT
*
96513 TGTTTTG-TATGTTATAT
1 TGTATTGTTATGTT-TAT
96530 T-TATTGTTATGTTT
1 TGTATTGTTATGTTT
96544 GTATGACTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (17 bp):
TGTATTGTTATGTTTAT
Found at i:96995 original size:18 final size:18
Alignment explanation
Indices: 96960--97000 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
96950 ATACTGATGT
*
96960 TGAAGAATATAATCGTAA
1 TGAAGAATAAAATCGTAA
96978 TGAAGAATTAAAAT-GTAA
1 TGAAGAA-TAAAATCGTAA
96996 T-AAGA
1 TGAAGA
97001 GAGGTAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 12 0.57
19 5 0.24
ACGTcount: A:0.54, C:0.02, G:0.17, T:0.27
Consensus pattern (18 bp):
TGAAGAATAAAATCGTAA
Found at i:99461 original size:18 final size:18
Alignment explanation
Indices: 99440--99478 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
99430 TTCAACACAA
99440 CCAACTCCTCCCACCATG
1 CCAACTCCTCCCACCATG
*
99458 CCAACTCCTCCTACCATG
1 CCAACTCCTCCCACCATG
99476 CCA
1 CCA
99479 CCCTCTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.54, G:0.05, T:0.18
Consensus pattern (18 bp):
CCAACTCCTCCCACCATG
Found at i:99864 original size:23 final size:23
Alignment explanation
Indices: 99831--99893 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
99821 GATGAATGGT
99831 TTTATTTAGATACAATGGATAGTA
1 TTTA-TTAGATACAATGGATAGTA
* *
99855 TTTATTAGATACAATGGATGGTT
1 TTTATTAGATACAATGGATAGTA
*
99878 TTTTTTAGATACAATG
1 TTTATTAGATACAATG
99894 TTTAATTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 32 0.89
24 4 0.11
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.44
Consensus pattern (23 bp):
TTTATTAGATACAATGGATAGTA
Found at i:102395 original size:22 final size:23
Alignment explanation
Indices: 102369--102413 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
102359 AGCTTTTTTG
*
102369 AGAATT-TAG-TGAGAAATCATAA
1 AGAATTATAGATGAAAAAT-ATAA
102391 AGAATTATAGATGAAAAATATAA
1 AGAATTATAGATGAAAAATATAA
102414 TTTTTTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 7 0.35
24 7 0.35
ACGTcount: A:0.56, C:0.02, G:0.16, T:0.27
Consensus pattern (23 bp):
AGAATTATAGATGAAAAATATAA
Found at i:116109 original size:15 final size:15
Alignment explanation
Indices: 116089--116120 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
116079 TATAAGCTGA
116089 GGGTGTTTTAAAAAT
1 GGGTGTTTTAAAAAT
116104 GGGTGTTTTAAAAAT
1 GGGTGTTTTAAAAAT
116119 GG
1 GG
116121 CAAGATAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (15 bp):
GGGTGTTTTAAAAAT
Found at i:122806 original size:25 final size:25
Alignment explanation
Indices: 122772--122821 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
122762 TTAAGTTAAC
122772 TCCCATTGATTGAGTCGATTTTCTG
1 TCCCATTGATTGAGTCGATTTTCTG
122797 TCCCATTGATTGAGTCGATTTTCTG
1 TCCCATTGATTGAGTCGATTTTCTG
122822 GCCAACTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (25 bp):
TCCCATTGATTGAGTCGATTTTCTG
Found at i:126715 original size:5 final size:5
Alignment explanation
Indices: 126705--126729 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
126695 ATATAACTTT
126705 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
126730 AAAATGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:131916 original size:36 final size:36
Alignment explanation
Indices: 131876--131944 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
131866 TTGCGAAAGT
*
131876 GAATATGTGGGTATGTTCTTCATGCCATGTGACAGA
1 GAATATGTGGGTATGTTCTTCATACCATGTGACAGA
* *
131912 GAATATGTGGGTTTGTTCTTCATATCATGTGAC
1 GAATATGTGGGTATGTTCTTCATACCATGTGAC
131945 TAATTATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (36 bp):
GAATATGTGGGTATGTTCTTCATACCATGTGACAGA
Found at i:135727 original size:80 final size:80
Alignment explanation
Indices: 135536--135715 Score: 306
Period size: 80 Copynumber: 2.2 Consensus size: 80
135526 AGTGCTTAGT
* * *
135536 GGATAAACCGCAAAAGTGAGCCCAGCTCGAGTTGGATTAACCAACAAATATCCGTCAAATCCTGT
1 GGATAAACCGCAAAAGTGAGCCCAGCTCTAGTTGGATTAACCAACAAATATCCATCAAATCCTGG
* *
135601 CACCCAATTCCTAGC
66 CACCCAATGCCTAAC
135616 GGATAAACCGCAAAAGTGAGCCCAGCTCTAGTTGGATTAACCAACAAATATCCATCAAATCCTGG
1 GGATAAACCGCAAAAGTGAGCCCAGCTCTAGTTGGATTAACCAACAAATATCCATCAAATCCTGG
*
135681 CACCTAATGCCTAAC
66 CACCCAATGCCTAAC
135696 GGATAAACCGCAAAAGTGAG
1 GGATAAACCGCAAAAGTGAG
135716 TACAGTTCTA
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 94 1.00
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.19
Consensus pattern (80 bp):
GGATAAACCGCAAAAGTGAGCCCAGCTCTAGTTGGATTAACCAACAAATATCCATCAAATCCTGG
CACCCAATGCCTAAC
Found at i:144027 original size:21 final size:21
Alignment explanation
Indices: 143988--144040 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
143978 AAGAAGGTTA
*
143988 AAGAATGAGAGGTTAAGAAGAG
1 AAGAA-GAGAGATTAAGAAGAG
*
144010 AAGAAGAGAGATTGAGAAGAG
1 AAGAAGAGAGATTAAGAAGAG
144031 AA-AAGAGAGA
1 AAGAAGAGAGA
144041 GAAAATACTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 8 0.28
21 16 0.55
22 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.36, T:0.09
Consensus pattern (21 bp):
AAGAAGAGAGATTAAGAAGAG
Found at i:145794 original size:37 final size:38
Alignment explanation
Indices: 145697--145800 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 38
145687 ATTTCCGGAA
*
145697 TGCACCCA-AGACTATCGCTACATAAATATTCTTTAAAT
1 TGCACCCAGA-ACTATCGCTGCATAAATATTCTTTAAAT
* ** * * *
145735 TACATGCAGAACTATCGTTGCATAAGTATTC-TTCAAT
1 TGCACCCAGAACTATCGCTGCATAAATATTCTTTAAAT
* *
145772 TGCACCCAGAACTGTCGCTGCATGAATAT
1 TGCACCCAGAACTATCGCTGCATAAATAT
145801 GTCCAGAATT
Statistics
Matches: 51, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
37 27 0.53
38 23 0.45
39 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (38 bp):
TGCACCCAGAACTATCGCTGCATAAATATTCTTTAAAT
Found at i:145813 original size:26 final size:26
Alignment explanation
Indices: 145777--145837 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
145767 TCAATTGCAC
* *
145777 CCAGAACTGTCGCTGCATGAATATGT
1 CCAGAATTGTCGCTGCATGAACATGT
*
145803 CCAGAATTGTCGCTGCATGAACGTGT
1 CCAGAATTGTCGCTGCATGAACATGT
*
145829 CCAAAATTG
1 CCAGAATTG
145838 CTCCCAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
CCAGAATTGTCGCTGCATGAACATGT
Found at i:149041 original size:18 final size:18
Alignment explanation
Indices: 149018--149052 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
149008 GACTAATTTG
149018 TGAATCTGTCAATTGTTA
1 TGAATCTGTCAATTGTTA
* *
149036 TGAATCTTTCCATTGTT
1 TGAATCTGTCAATTGTT
149053 GAAAATGCTT
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:0.23, C:0.14, G:0.14, T:0.49
Consensus pattern (18 bp):
TGAATCTGTCAATTGTTA
Found at i:150645 original size:92 final size:92
Alignment explanation
Indices: 150529--150719 Score: 292
Period size: 92 Copynumber: 2.1 Consensus size: 92
150519 TAGTTTGTGT
* * * * * *
150529 ACTTGTATCGGTAAAAGTTGTAGGGTGAGACTTTTTAGCTCTTTGGAGTTTTTAGTATCAGTAGA
1 ACTTGTACCAGTAAAAGTTGTAGGGTGAGACTTTTTAGCTCTCTAGAGTTTTAAGTATCAATAGA
150594 AGTAAGACTTGTTTCAGTAGAAGAGTC
66 AGTAAGACTTGTTTCAGTAGAAGAGTC
* *
150621 ACTTGTACCAGTAAAAGTTTTAGGGTGAGACTTTTTAGCTCTCTAGAGTTTTAAGTATCAATGGA
1 ACTTGTACCAGTAAAAGTTGTAGGGTGAGACTTTTTAGCTCTCTAGAGTTTTAAGTATCAATAGA
* *
150686 AGTAAGACTTGTTTCGGTAGCAGAGTC
66 AGTAAGACTTGTTTCAGTAGAAGAGTC
150713 ACTTGTA
1 ACTTGTA
150720 TCGGTAGAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.36
Consensus pattern (92 bp):
ACTTGTACCAGTAAAAGTTGTAGGGTGAGACTTTTTAGCTCTCTAGAGTTTTAAGTATCAATAGA
AGTAAGACTTGTTTCAGTAGAAGAGTC
Found at i:152407 original size:21 final size:21
Alignment explanation
Indices: 152368--152407 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
152358 ATTTGACGAA
*
152368 TAAATTCATATGATGAATATT
1 TAAATTCATATGATCAATATT
152389 TAAATT-ATATGAGTCAATA
1 TAAATTCATATGA-TCAATA
152408 GTAATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (21 bp):
TAAATTCATATGATCAATATT
Found at i:155079 original size:27 final size:26
Alignment explanation
Indices: 155023--155081 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
155013 TGGCTTGTAA
* * *
155023 GAGCTAAACTCTTTCTGGGCTAGCAT
1 GAGCTAAACTCTTTCTAGGCTAGAAG
* *
155049 GAGCTAAACTCTATTCTAGGTTCGAAG
1 GAGCTAAACTCT-TTCTAGGCTAGAAG
155076 GAGCTA
1 GAGCTA
155082 CAATTCTGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (26 bp):
GAGCTAAACTCTTTCTAGGCTAGAAG
Found at i:155815 original size:21 final size:21
Alignment explanation
Indices: 155786--155837 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
155776 GACTTCTACT
* *
155786 GATACTTGTTGGACAAGTATC
1 GATAGTTGTCGGACAAGTATC
155807 GATAGTTGTCGGACAAGTATC
1 GATAGTTGTCGGACAAGTATC
155828 GATAGTTGTC
1 GATAGTTGTC
155838 AAGTTAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (21 bp):
GATAGTTGTCGGACAAGTATC
Found at i:155945 original size:21 final size:21
Alignment explanation
Indices: 155894--155945 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
155884 CTTGATAGTT
*
155894 CTACCGATACAAGTGAGACAA
1 CTACCGATACAAGTCAGACAA
* * *
155915 CTACCAATACAAGTCATACTA
1 CTACCGATACAAGTCAGACAA
*
155936 CTACTGATAC
1 CTACCGATAC
155946 TAAAAACTCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.27, G:0.12, T:0.21
Consensus pattern (21 bp):
CTACCGATACAAGTCAGACAA
Found at i:157651 original size:13 final size:13
Alignment explanation
Indices: 157633--157657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
157623 ATTTGGCCAT
157633 GAAGAAGAAAAAA
1 GAAGAAGAAAAAA
157646 GAAGAAGAAAAA
1 GAAGAAGAAAAA
157658 TGACATCTTT
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAAAAA
Found at i:158698 original size:21 final size:21
Alignment explanation
Indices: 158674--158714 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
158664 ATATTATTTC
*
158674 AAATTATATTTGA-ATTTAAAG
1 AAATTA-AATTGATATTTAAAG
158695 AAATTAAATTGATATTTAAA
1 AAATTAAATTGATATTTAAA
158715 TATTGTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
AAATTAAATTGATATTTAAAG
Found at i:159432 original size:28 final size:27
Alignment explanation
Indices: 159400--159551 Score: 128
Period size: 28 Copynumber: 5.5 Consensus size: 27
159390 ATATTTTGTT
159400 TCTGGCTCGAAAGAGTGTTA-TTATCGAC
1 TCTGGCTCGAAAGAGTGTTACTT-T-GAC
* *
159428 TCTGGCTCAAAAGAGCGTTA-TTCTAGAC
1 TCTGGCTCGAAAGAGTGTTACTT-T-GAC
* * * * * **
159456 TTTGGCTCGTAAGGGCGATACTTTGTT
1 TCTGGCTCGAAAGAGTGTTACTTTGAC
*
159483 TCTGGCTCGAAAGAGTGTTACTTTGAAT
1 TCTGGCTCGAAAGAGTGTTACTTTG-AC
*
159511 TCTGGCTCGAAAGAATGTTACTTTGGAC
1 TCTGGCTCGAAAGAGTGTTACTTT-GAC
*
159539 TTTGGCTCGAAAG
1 TCTGGCTCGAAAG
159552 GGACGTTATT
Statistics
Matches: 101, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
27 21 0.21
28 77 0.76
29 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.34
Consensus pattern (27 bp):
TCTGGCTCGAAAGAGTGTTACTTTGAC
Found at i:159540 original size:83 final size:83
Alignment explanation
Indices: 159394--159571 Score: 220
Period size: 83 Copynumber: 2.1 Consensus size: 83
159384 TAATAAATAT
*
159394 TTTGTTTCTGGCTCGAAAGAGTGTTATTATCGACTCTGGCTCAAAAGAGCGTTATTCTAGACTTT
1 TTTGTTTCTGGCTCGAAAGAGTGTTATTATCGACTCTGGCTCAAAAGAACGTTATTCTAGACTTT
*
159459 GGCTCGTAAGGG-CGATA
66 GGCTCGAAAGGGACGATA
* * * *
159476 CTTTGTTTCTGGCTCGAAAGAGTGTTACTT-T-GAATTCTGGCTCGAAAGAATGTTACTT-TGGA
1 -TTTGTTTCTGGCTCGAAAGAGTGTTA-TTATCG-ACTCTGGCTCAAAAGAACGTTA-TTCTAGA
*
159538 CTTTGGCTCGAAAGGGACGTTA
62 CTTTGGCTCGAAAGGGACGATA
159560 TTCTGTTTCTGG
1 TT-TGTTTCTGG
159572 ATCATATGAG
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
82 1 0.01
83 65 0.78
84 17 0.20
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (83 bp):
TTTGTTTCTGGCTCGAAAGAGTGTTATTATCGACTCTGGCTCAAAAGAACGTTATTCTAGACTTT
GGCTCGAAAGGGACGATA
Found at i:159601 original size:111 final size:111
Alignment explanation
Indices: 159399--159597 Score: 235
Period size: 111 Copynumber: 1.8 Consensus size: 111
159389 AATATTTTGT
* *
159399 TTCTGGCTCGAAAGAGTGTTATTATCGACTCTGGCTCAAAAGAGCGTTATTCTAGACTTTGGCTC
1 TTCTGGCTCGAAAGAATGTTATTATCGACTCTGGCTCAAAAGAGCGTTATTCTAGACTTTGGATC
* * * *
159464 GTAAGGGCGATACTTTGTTTCTGGCTCGAAAGAGTGTTACTTTGAA
66 ATAAGAGCAATACTCTGTTTCTGGCTCGAAAGAGTGTTACTTTGAA
* * * * *
159510 TTCTGGCTCGAAAGAATGTTACTT-TGGACTTTGGCTCGAAAGGGACGTTATTCT-G-TTTCTGG
1 TTCTGGCTCGAAAGAATGTTA-TTATCGACTCTGGCTCAAAAGAG-CGTTATTCTAGACTT-TGG
*
159572 ATCATATGAGCAATACTCTG-TTCTGG
63 ATCATAAGAGCAATACTCTGTTTCTGG
159598 GCTCAAATGA
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
110 8 0.11
111 54 0.74
112 11 0.15
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (111 bp):
TTCTGGCTCGAAAGAATGTTATTATCGACTCTGGCTCAAAAGAGCGTTATTCTAGACTTTGGATC
ATAAGAGCAATACTCTGTTTCTGGCTCGAAAGAGTGTTACTTTGAA
Found at i:183843 original size:14 final size:14
Alignment explanation
Indices: 183797--183846 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
183787 TATGGGTTTG
183797 ATTTGTTCTTTTTA
1 ATTTGTTCTTTTTA
*
183811 TCTTTG-TCTTTAGTTA
1 -ATTTGTTCTTT--TTA
183827 ATTTGTTCTTTTTA
1 ATTTGTTCTTTTTA
183841 ATTTGT
1 ATTTGT
183847 AGATGAGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 14 0.47
15 8 0.27
16 8 0.27
ACGTcount: A:0.14, C:0.08, G:0.10, T:0.68
Consensus pattern (14 bp):
ATTTGTTCTTTTTA
Found at i:188873 original size:93 final size:90
Alignment explanation
Indices: 188776--189179 Score: 280
Period size: 93 Copynumber: 4.4 Consensus size: 90
188766 ATTTTGAAAT
* *
188776 TTCACTCCACTCCACTCTAACCTTAAGGACATTGAGATTCACCTTATTATTTTAACCCGACCCAC
1 TTCACTCCACTCCACTATAACCTTAAGGACATTGAGA-TC-CCTTATTATTTTAATCCGACCCAC
188841 TACAACTTAGGGGTATAGGATTTGGTGC
64 TACAACTTA-GGGTATAGGATTTGGTGC
* * * * * *
188869 TTCACTCCACTCCACTGTAACCTT-AGAGACGTTGATATCTGCTTAATTGTTTTAATCTGACCCA
1 TTCACTCCACTCCACTATAACCTTAAG-GACATTGAGATC-CCTT-ATTATTTTAATCCGACCCA
** * * **
188933 CTGTAACTTAGGG-ATA--CTAT--AAC
63 CTACAACTTAGGGTATAGGATTTGGTGC
* * * * * * * * * * *
188956 TTCTCTCCATTCCAGTGTAACCTCAGGGACATTGAGATCCGTTACTCATTTTGATCCGATCTACT
1 TTCACTCCACTCCACTATAACCTTAAGGACATTGAGATCCCTTA-TTATTTTAATCCGACCCACT
** * *
189021 GTAAATTCAGGGATATAGGATCTGGTGC
65 ACAACTT-AGGG-TATAGGATTTGGTGC
* * * * * *
189049 TTCACTCCACTCCACTATAACCTTAGGGACGTTAAAATCTGCTTTATTATTTTAATCCGGCCCAC
1 TTCACTCCACTCCACTATAACCTTAAGGACATTGAGATC--CCTTATTATTTTAATCCGACCCAC
* * * *
189114 TACAACTCAAGGTATATGATTTAGTGC
64 TACAACTTAGGGTATAGGATTTGGTGC
* * **
189141 TTAACTCCACTCCACTATAACCTTAGGGATGTTGAGATC
1 TTCACTCCACTCCACTATAACCTTAAGGACATTGAGATC
189180 TGTGACCTAT
Statistics
Matches: 238, Mismatches: 60, Indels: 27
0.73 0.18 0.08
Matches are distributed among these distances:
85 1 0.00
86 22 0.09
87 35 0.15
88 1 0.00
89 5 0.02
91 5 0.02
92 57 0.24
93 90 0.38
94 18 0.08
95 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (90 bp):
TTCACTCCACTCCACTATAACCTTAAGGACATTGAGATCCCTTATTATTTTAATCCGACCCACTA
CAACTTAGGGTATAGGATTTGGTGC
Found at i:189053 original size:180 final size:178
Alignment explanation
Indices: 188849--189495 Score: 634
Period size: 180 Copynumber: 3.5 Consensus size: 178
188839 ACTACAACTT
* * * * * *
188849 AGGGGTATAGGATTTGGTGCTTCACTCCACTCCACTGTAACCTTAGAGACGTTGATATCTGCTTA
1 AGGGATATAGGATTTGGTGCTTCACTCCACTCCACTGTAACCTCAGAGACGTTAAGATCTACTTT
* * * *
188914 ATTGTTTTAATCTGACCCACTGTAACTTAGGGATACTATAACTTCTCTCCATTCCAGTGTAACCT
66 ATTATTTTAATCTGACCCACTGCAACTCAGGGATA-TATAACTTCTCTCCATTCCACTGTAACCT
188979 CAGGGACATTGAGATCCGTTACTCATTTTGATCCGATCTACTGTAAATTC
130 CAGGGACATTGAGATCCGTTACTCATTTTGATCCGATC-ACTGTAAATTC
* * * * * *
189029 AGGGATATAGGATCTGGTGCTTCACTCCACTCCACTATAACCTTAGGGACGTTAAAATCTGCTTT
1 AGGGATATAGGATTTGGTGCTTCACTCCACTCCACTGTAACCTCAGAGACGTTAAGATCTACTTT
* * * * * ** * *
189094 ATTATTTTAATCCGGCCCACTACAACTCAAGGTATATGATTTAGTGCTTAACTCCACTCCACTAT
66 ATTATTTTAATCTGACCCACTGCAACTC-AGGGATAT-A--TA--ACTTCTCTCCATTCCACTGT
* ** * * * * * **
189159 AACCTTAGGGATGTTGAGATCTGTGAC-CTATTCTGATCCAGTTCATTGTAACCTC
125 AACCTCAGGGACATTGAGATCCGTTACTC-ATTTTGATCC-GATCACTGTAAATTC
* * * * *
189214 AGGAAGATAGGATTTGAAGCTTCACTCCACTCCACTCCACTGTAACCTCAG-GAATGTTAAGATC
1 AGGGATATAGGATTTG--G--T-GCTTCACTCCACTCCACTGTAACCTCAGAG-ACGTTAAGATC
* * * *
189278 TACTTCATTATTTTAATCTGACCCATTGCAACTCAGGGGTATTGTAACTTCTCTCCATTCCACTG
60 TACTTTATTATTTTAATCTGACCCACTGCAACTCAGGGATA-TATAACTTCTCTCCATTCCACTG
* *
189343 TAACCTCAGGGACATTGAGATCCATTACTCATTTTGATCCGATCCACTATAAATTC
124 TAACCTCAGGGACATTGAGATCCGTTACTCATTTTGATCCGAT-CACTGTAAATTC
* * * *
189399 AGGGATATAGGAATTGGTGCTTCACTTCACTCAACTGTAACCTCA-AGGACGTTGAGATCTACTT
1 AGGGATATAGGATTTGGTGCTTCACTCCACTCCACTGTAACCTCAGA-GACGTTAAGATCTACTT
* *
189463 TATTATTTTAATCTGATCCACTGTAACTCAGGG
65 TATTATTTTAATCTGACCCACTGCAACTCAGGG
189496 GTGCAAGATT
Statistics
Matches: 370, Mismatches: 78, Indels: 38
0.76 0.16 0.08
Matches are distributed among these distances:
180 147 0.40
181 9 0.02
183 3 0.01
184 3 0.01
185 132 0.36
186 4 0.01
187 3 0.01
189 7 0.02
190 62 0.17
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (178 bp):
AGGGATATAGGATTTGGTGCTTCACTCCACTCCACTGTAACCTCAGAGACGTTAAGATCTACTTT
ATTATTTTAATCTGACCCACTGCAACTCAGGGATATATAACTTCTCTCCATTCCACTGTAACCTC
AGGGACATTGAGATCCGTTACTCATTTTGATCCGATCACTGTAAATTC
Found at i:189098 original size:273 final size:272
Alignment explanation
Indices: 188687--189181 Score: 638
Period size: 273 Copynumber: 1.8 Consensus size: 272
188677 GATGTTGTAA
* *
188687 CTCCATTCCACTGTAATCTTAGGGACATTGAGATCCGTTACTCATTTTGACCCACTTCACTGTAA
1 CTCCATTCCACTGTAACCTCAGGGACATTGAGATCCGTTACTCATTTTGACCCACTTCACTGTAA
* * * * * *
188752 CCTCAGGAAGATAGATTTTGAAATTTCACTCCACTCCACTCTAACCTTAAGGACATTGAGATTCA
66 ACTCAGGAAGATAGATTCTGAAACTTCACTCCACTCCACTATAACCTTAAGGACATTAAAATTCA
* * * *
188817 CCTTATTATTTTAACCCGACCCACTACAACTTAGGGGTATAGGATTTGGTGCTTCACTCCACTCC
131 CCTTATTATTTTAACCCGACCCACTACAACTCA-AGGTATAGGATTTAGTGCTTAACTCCACTCC
* *
188882 ACTGTAACCTTAGAGACGTTGATATCTGCTTAATTGTTTTAATCTGACCCACTGTAACTTAGGGA
195 ACTATAACCTTAGAGACGTTGAGATCTGCTTAATTGTTTTAATCTGACCCACTGTAACTTAGGGA
188947 TACTATAACTTCT
260 TACTATAACTTCT
* *
188960 CTCCATTCCAGTGTAACCTCAGGGACATTGAGATCCGTTACTCATTTTGATCCGA--TCTACTGT
1 CTCCATTCCACTGTAACCTCAGGGACATTGAGATCCGTTACTCATTTTGA-CCCACTTC-ACTGT
* * * *** * *
189023 AAATTCAGGGATATAGGA-TCTGGTGCTTCACTCCACTCCACTATAACCTTAGGGACGTTAAAA-
64 AAACTCAGGAAGATA-GATTCTGAAACTTCACTCCACTCCACTATAACCTTAAGGACATTAAAAT
* * * * *
189086 TCTGCTTTATTATTTTAATCCGGCCCACTACAACTCAAGGTATATGATTTAGTGCTTAACTCCAC
128 TC-ACCTTATTATTTTAACCCGACCCACTACAACTCAAGGTATAGGATTTAGTGCTTAACTCCAC
* *
189151 TCCACTATAACCTTAGGGATGTTGAGATCTG
192 TCCACTATAACCTTAGAGACGTTGAGATCTG
189182 TGACCTATTC
Statistics
Matches: 187, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
272 55 0.29
273 127 0.68
274 5 0.03
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (272 bp):
CTCCATTCCACTGTAACCTCAGGGACATTGAGATCCGTTACTCATTTTGACCCACTTCACTGTAA
ACTCAGGAAGATAGATTCTGAAACTTCACTCCACTCCACTATAACCTTAAGGACATTAAAATTCA
CCTTATTATTTTAACCCGACCCACTACAACTCAAGGTATAGGATTTAGTGCTTAACTCCACTCCA
CTATAACCTTAGAGACGTTGAGATCTGCTTAATTGTTTTAATCTGACCCACTGTAACTTAGGGAT
ACTATAACTTCT
Found at i:189363 original size:185 final size:185
Alignment explanation
Indices: 188871--189497 Score: 512
Period size: 185 Copynumber: 3.4 Consensus size: 185
188861 TTTGGTGCTT
* * *
188871 CACTCCACTCCACTGTAACCTTA-GAGACGTTGATATCTGCTTAATTGTTTTAATCTGACCCACT
1 CACTCCACTCCACTGTAACCTTAGGA-ACGTTAAAATCTGCTTAATTATTTTAATCTGACCCACT
* * * * * * *
188935 GTAACTTAGGGATACTATAACTTCTCTCCATTCCAGTGTAACCTCAGGGACATTGAGATCCGTTA
65 GCAACTCAGGGGTATTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCCGTGA
* * * * **
189000 CTCATTTTGATCCGATCTACTGTAAATTCAGGGATATAGGATCTGGTGCTTCACTC
130 CTCATTCTGATCCGATCTACTGTAAACTCAGGAAGATAGGATCTGAAGCTTCACTC
* * * * *
189056 CACTCCACT--A---TAACCTTAGGGACGTTAAAATCTGCTTTATTATTTTAATCCGGCCCACTA
1 CACTCCACTCCACTGTAACCTTAGGAACGTTAAAATCTGCTTAATTATTTTAATCTGACCCACTG
* * ** * * * **
189116 CAACTCA-AGGTATATGATTTAGTGCTTAACTCCACTCCACTATAACCTTAGGGATGTTGAGATC
66 CAACTCAGGGGTAT-TG---TA--ACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATC
* * * * *
189180 TGTGAC-CTATTCTGATCCAGTTC-ATTGTAACCTCAGGAAGATAGGATTTGAAGCTTCACTC
125 CGTGACTC-ATTCTGATCC-GATCTACTGTAAACTCAGGAAGATAGGATCTGAAGCTTCACTC
* * * * * *
189241 CACTCCACTCCACTGTAACCTCAGGAATGTTAAGATCTACTTCATTATTTTAATCTGACCCATTG
1 CACTCCACTCCACTGTAACCTTAGGAACGTTAAAATCTGCTTAATTATTTTAATCTGACCCACTG
* *
189306 CAACTCAGGGGTATTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCCATTAC
66 CAACTCAGGGGTATTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCCGTGAC
* * * * * * **
189371 TCATTTTGATCCGATCCACTATAAATTCAGGGATATAGGAAT-TGGTGCTTCACT-
131 TCATTCTGATCCGATCTACTGTAAACTCAGGAAGATAGG-ATCTGAAGCTTCACTC
* * * * * * *
189425 ---T-CACTCAACTGTAACCTCAAGG-ACGTTGAGATCTACTTTATTATTTTAATCTGATCCACT
1 CACTCCACTCCACTGTAACCT-TAGGAACGTTAAAATCTGCTTAATTATTTTAATCTGACCCACT
*
189485 GTAACTCAGGGGT
65 GCAACTCAGGGGT
189498 GCAAGATTTA
Statistics
Matches: 348, Mismatches: 75, Indels: 43
0.75 0.16 0.09
Matches are distributed among these distances:
179 3 0.01
180 106 0.30
181 5 0.01
183 3 0.01
184 4 0.01
185 164 0.47
186 6 0.02
187 3 0.01
190 49 0.14
191 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (185 bp):
CACTCCACTCCACTGTAACCTTAGGAACGTTAAAATCTGCTTAATTATTTTAATCTGACCCACTG
CAACTCAGGGGTATTGTAACTTCTCTCCATTCCACTGTAACCTCAGGGACATTGAGATCCGTGAC
TCATTCTGATCCGATCTACTGTAAACTCAGGAAGATAGGATCTGAAGCTTCACTC
Found at i:190627 original size:36 final size:37
Alignment explanation
Indices: 190575--190649 Score: 125
Period size: 36 Copynumber: 2.0 Consensus size: 37
190565 TTAGAACTAG
190575 ATCTAATCGTGACGAATAGCTCTTAA-TCTTTAATAC
1 ATCTAATCGTGACGAATAGCTCTTAACTCTTTAATAC
*
190611 ATCTGATCGTGACGAATAGCTCTTAATCTCTTTAATAC
1 ATCTAATCGTGACGAATAGCTCTTAA-CTCTTTAATAC
190649 A
1 A
190650 CCATTCTTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.69
38 11 0.31
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (37 bp):
ATCTAATCGTGACGAATAGCTCTTAACTCTTTAATAC
Found at i:194055 original size:27 final size:24
Alignment explanation
Indices: 194016--194067 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 24
194006 TGTATTTAAG
194016 AATGATTAATTGTGTAAATTGGTATA
1 AATGATTAATTGT-TAAATTGG-ATA
* *
194042 AATGAATTATTTGTTGAATTGGATA
1 AATG-ATTAATTGTTAAATTGGATA
194067 A
1 A
194068 GAATGAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.17
26 11 0.48
27 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (24 bp):
AATGATTAATTGTTAAATTGGATA
Found at i:194072 original size:27 final size:27
Alignment explanation
Indices: 194012--194074 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
194002 TGAATGTATT
194012 TAAGAATG-ATTAATTGTGTAAATTGG
1 TAAGAATGAATTAATTGTGTAAATTGG
* *
194038 TATA-AATGAATTATTTGT-TGAATTGG
1 TA-AGAATGAATTAATTGTGTAAATTGG
194064 ATAAGAATGAA
1 -TAAGAATGAA
194075 AGGATAGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
26 14 0.45
27 17 0.55
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (27 bp):
TAAGAATGAATTAATTGTGTAAATTGG
Found at i:209439 original size:29 final size:30
Alignment explanation
Indices: 209379--209451 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 30
209369 ATGTTGTATT
*
209379 TGGTACTTGAACTTTCATAAAATGTCCAATG
1 TGGTACTTGAACTTT-AGAAAATGTCCAATG
* *
209410 TGGTACTTGTACTTT-GAAAATGTTCAATG
1 TGGTACTTGAACTTTAGAAAATGTCCAATG
*
209439 TGGTACCTGAACT
1 TGGTACTTGAACT
209452 ATCAATATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 23 0.62
31 14 0.38
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (30 bp):
TGGTACTTGAACTTTAGAAAATGTCCAATG
Found at i:209461 original size:29 final size:29
Alignment explanation
Indices: 209379--209461 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
209369 ATGTTGTATT
* *
209379 TGGTACTTGAACTTTCATAAAATGTCCAATG
1 TGGTACCTGAACTATC--AAAATGTCCAATG
* * * * *
209410 TGGTACTTGTACTTTGAAAATGTTCAATG
1 TGGTACCTGAACTATCAAAATGTCCAATG
*
209439 TGGTACCTGAACTATCAATATGT
1 TGGTACCTGAACTATCAAAATGT
209462 GTTTTATTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 30 0.68
31 14 0.32
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.37
Consensus pattern (29 bp):
TGGTACCTGAACTATCAAAATGTCCAATG
Found at i:215546 original size:21 final size:21
Alignment explanation
Indices: 215520--215565 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
215510 GGAGTTTTTA
*
215520 GTATCGATAGATG-TATTACTT
1 GTATCGATAGAAGTTA-TACTT
*
215541 GTATCGGTAGAAGTTATACTT
1 GTATCGATAGAAGTTATACTT
215562 GTAT
1 GTAT
215566 TAGTAGAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (21 bp):
GTATCGATAGAAGTTATACTT
Found at i:216006 original size:43 final size:43
Alignment explanation
Indices: 215940--216026 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
215930 TAGTACATGT
* *
215940 CATACGAACCTGTGATAGTGTGATATAGATGAATTCGATTTAA
1 CATACGAACCTGTGATAGTGTGATACAGATGAATCCGATTTAA
*
215983 CATATGAACCTGTGATAGTGTGATACAGATGAATCCGATTTAA
1 CATACGAACCTGTGATAGTGTGATACAGATGAATCCGATTTAA
216026 C
1 C
216027 CATAGTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (43 bp):
CATACGAACCTGTGATAGTGTGATACAGATGAATCCGATTTAA
Found at i:233984 original size:12 final size:12
Alignment explanation
Indices: 233939--233990 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
233929 AGAGGTGATC
*
233939 AAGAGAAGGATG
1 AAGAGAAGGAAG
* * *
233951 AAGAAAAAGAAA
1 AAGAGAAGGAAG
233963 AAGAAGGAAGGAAG
1 AAG-A-GAAGGAAG
233977 AAGAGAAGGAAG
1 AAGAGAAGGAAG
233989 AA
1 AA
233991 ACTGAACCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
12 21 0.68
13 2 0.06
14 8 0.26
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (12 bp):
AAGAGAAGGAAG
Found at i:239858 original size:17 final size:17
Alignment explanation
Indices: 239832--239871 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
239822 AGGGTGCCTA
*
239832 TGTTTTTACATGCTCGT
1 TGTTTCTACATGCTCGT
239849 TGTTTCTACATGCTCGT
1 TGTTTCTACATGCTCGT
239866 TGTTTC
1 TGTTTC
239872 ACAGATAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.10, C:0.20, G:0.17, T:0.53
Consensus pattern (17 bp):
TGTTTCTACATGCTCGT
Found at i:239966 original size:17 final size:17
Alignment explanation
Indices: 239940--239979 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
239930 AGGGTGCCTA
*
239940 TGTTTTTACATGCTCAT
1 TGTTTCTACATGCTCAT
*
239957 TGTTTCTACATGCTCGT
1 TGTTTCTACATGCTCAT
239974 TGTTTC
1 TGTTTC
239980 ACAGATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.12, C:0.20, G:0.15, T:0.53
Consensus pattern (17 bp):
TGTTTCTACATGCTCAT
Found at i:239980 original size:108 final size:108
Alignment explanation
Indices: 239791--240006 Score: 414
Period size: 108 Copynumber: 2.0 Consensus size: 108
239781 AAATGGGTTT
*
239791 TATTTACTTTTCAAATCTCGACGGTAAATGAAGGGTGCCTATGTTTTTACATGCTCGTTGTTTCT
1 TATTTACTTTTCAAATCTCGACGGTAAATGAAGGGTGCCTATGTTTTTACATGCTCATTGTTTCT
*
239856 ACATGCTCGTTGTTTCACAGATAATGTATAAAATGATAAAAAA
66 ACATGCTCGTTGTTTCACAGATAATGTATAAAAAGATAAAAAA
239899 TATTTACTTTTCAAATCTCGACGGTAAATGAAGGGTGCCTATGTTTTTACATGCTCATTGTTTCT
1 TATTTACTTTTCAAATCTCGACGGTAAATGAAGGGTGCCTATGTTTTTACATGCTCATTGTTTCT
239964 ACATGCTCGTTGTTTCACAGATAATGTATAAAAAGATAAAAAA
66 ACATGCTCGTTGTTTCACAGATAATGTATAAAAAGATAAAAAA
240007 GTAGATACTA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (108 bp):
TATTTACTTTTCAAATCTCGACGGTAAATGAAGGGTGCCTATGTTTTTACATGCTCATTGTTTCT
ACATGCTCGTTGTTTCACAGATAATGTATAAAAAGATAAAAAA
Found at i:240431 original size:31 final size:30
Alignment explanation
Indices: 240396--240526 Score: 94
Period size: 31 Copynumber: 4.3 Consensus size: 30
240386 TTAATATAAC
240396 ATTTGGTACTTAAACTTGACA-TTTTTTATTA
1 ATTTGGTACTTAAACTT-ACACTTTTTT-TTA
* *
240427 ATTTGATATTTAAA-TT----TTTTTTGGTTCA
1 ATTTGGTACTTAAACTTACACTTTTTT--TT-A
* * *
240455 ATTCGGTACTTAAACTTAATACTTTTTTCTA
1 ATTTGGTACTTAAACTT-ACACTTTTTTTTA
240486 ATTTGGTACTTAAACTTTACACTTTTTTTTA
1 ATTTGGTACTTAAAC-TTACACTTTTTTTTA
* *
240517 AGTTGATACT
1 ATTTGGTACT
240527 AAAATTTTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
26 6 0.08
27 2 0.03
28 12 0.15
29 2 0.03
30 2 0.03
31 46 0.58
32 3 0.04
34 6 0.08
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (30 bp):
ATTTGGTACTTAAACTTACACTTTTTTTTA
Found at i:240569 original size:90 final size:92
Alignment explanation
Indices: 240396--240586 Score: 203
Period size: 90 Copynumber: 2.1 Consensus size: 92
240386 TTAATATAAC
* * * ** * *
240396 ATTTGGTACTTAAACTTGACATTTTTTATTAATTTGATATTTAAATTTTTTTTGGTTCAATTCGG
1 ATTTGGTACTTAAACTTGACATTTTTTATTAAGTTGATACTAAAATTTTTTGGGGTCCAATTCAG
*
240461 TACTTAAACTTAATACTTT-TTTC-TA
66 TACTGAAACTTAATACTTTATTTCTTA
*
240486 ATTTGGTACTTAAACTTTACACTTTTTT-TTAAGTTGATACTAAAATTTTTTGGGGTCCAAATT-
1 ATTTGGTACTTAAACTTGACA-TTTTTTATTAAGTTGATACTAAAATTTTTTGGGGTCC-AATTC
** *
240549 AGTACCTGAATTTTTA-ACTTTATTTCTTA
64 AGTA-CTGAAACTTAATACTTTATTTCTTA
*
240578 ACTTGGTAC
1 ATTTGGTAC
240587 CTAATTTTTT
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
90 52 0.63
91 21 0.25
92 10 0.12
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (92 bp):
ATTTGGTACTTAAACTTGACATTTTTTATTAAGTTGATACTAAAATTTTTTGGGGTCCAATTCAG
TACTGAAACTTAATACTTTATTTCTTA
Found at i:243756 original size:10 final size:10
Alignment explanation
Indices: 243741--243765 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
243731 TTATCATTAA
243741 ATGAAATATT
1 ATGAAATATT
243751 ATGAAATATT
1 ATGAAATATT
243761 ATGAA
1 ATGAA
243766 GTATGATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (10 bp):
ATGAAATATT
Found at i:247524 original size:26 final size:26
Alignment explanation
Indices: 247495--247546 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
247485 CATTATTGTC
247495 ATTGAAAGAGCGATTGGAGATTTAGG
1 ATTGAAAGAGCGATTGGAGATTTAGG
247521 ATTGAAAGAGCGATTGGAGATTTAGG
1 ATTGAAAGAGCGATTGGAGATTTAGG
247547 TGTTCTGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.35, T:0.27
Consensus pattern (26 bp):
ATTGAAAGAGCGATTGGAGATTTAGG
Found at i:251161 original size:25 final size:25
Alignment explanation
Indices: 251123--251172 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
251113 AACCCATTTG
251123 CTTTAATTTAATCAGTTTTAGTTTA
1 CTTTAATTTAATCAGTTTTAGTTTA
*
251148 CTTTAATTTGATCAGTTTTAGTTTA
1 CTTTAATTTAATCAGTTTTAGTTTA
251173 TATATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (25 bp):
CTTTAATTTAATCAGTTTTAGTTTA
Found at i:254460 original size:20 final size:20
Alignment explanation
Indices: 254410--254461 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
254400 TACTTTAACC
**
254410 ATTTTT-TATTTTTGTTTTA
1 ATTTTTCTATTTTTACTTTA
*
254429 ATGTTTAC-ATTTTTACTTTA
1 AT-TTTTCTATTTTTACTTTA
254449 ATTTTTCTATTTT
1 ATTTTTCTATTTT
254462 AATTTTTCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (20 bp):
ATTTTTCTATTTTTACTTTA
Found at i:254464 original size:14 final size:14
Alignment explanation
Indices: 254445--254476 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
254435 ACATTTTTAC
*
254445 TTTAATTTTTCTAT
1 TTTAATTTTTCCAT
254459 TTTAATTTTTCCAT
1 TTTAATTTTTCCAT
254473 TTTA
1 TTTA
254477 TTTGCTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTAATTTTTCCAT
Found at i:257015 original size:19 final size:19
Alignment explanation
Indices: 256993--257034 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
256983 AATGAATCAC
*
256993 AAATAAATAAATAATAATT
1 AAATAAATAAATAAAAATT
*
257012 AAATAATTAAATAAAAATT
1 AAATAAATAAATAAAAATT
257031 AAAT
1 AAAT
257035 GCTAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATAAATAAATAAAAATT
Found at i:257030 original size:11 final size:12
Alignment explanation
Indices: 256996--257034 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
256986 GAATCACAAA
256996 TAAATAAATAA-
1 TAAATAAATAAT
*
257007 TAATTAAATAAT
1 TAAATAAATAAT
257019 TAAATAAA-AAT
1 TAAATAAATAAT
257030 TAAAT
1 TAAAT
257035 GCTAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAATAAATAAT
Found at i:257782 original size:34 final size:34
Alignment explanation
Indices: 257740--257808 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
257730 CGAAAGTAAA
*
257740 AAAATAAATTGTATACCTTGAGTTGATTTTTTCT
1 AAAATAAATTGTATACCTTGAATTGATTTTTTCT
257774 AAAATAAATTGTATACCTTGAATTGATTTTTTCT
1 AAAATAAATTGTATACCTTGAATTGATTTTTTCT
257808 A
1 A
257809 TTGATTCGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.46
Consensus pattern (34 bp):
AAAATAAATTGTATACCTTGAATTGATTTTTTCT
Found at i:269566 original size:18 final size:19
Alignment explanation
Indices: 269540--269587 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 19
269530 GTACTTCATT
*
269540 TTATTTTTTA-GAGTAAGA
1 TTATCTTTTACGAGTAAGA
269558 TTATCTTTTTATCGAGTAAGA
1 TTATC-TTTTA-CGAGTAAGA
269579 TTATCTTTT
1 TTATCTTTT
269588 TTCAACTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 4 0.15
19 5 0.19
20 4 0.15
21 13 0.50
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.54
Consensus pattern (19 bp):
TTATCTTTTACGAGTAAGA
Found at i:275735 original size:19 final size:19
Alignment explanation
Indices: 275682--275740 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 19
275672 AGGTTCTTCC
*
275682 TTTCTTCCTTCTTT-TCCTT
1 TTTCTT-CTTCTTTCTTCTT
* *
275701 TTTCCTCTCGCTTTTCTTCTT
1 TTTCTTCT-TC-TTTCTTCTT
275722 TTTCTTCTTCTTTC-TCTT
1 TTTCTTCTTCTTTCTTCTT
275740 T
1 T
275741 ATTAGTTTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
18 7 0.22
19 10 0.31
20 4 0.12
21 11 0.34
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTCTTCTTCTTTCTTCTT
Found at i:284406 original size:13 final size:13
Alignment explanation
Indices: 284388--284412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
284378 TAAGTTAAAA
284388 ATGCTAAAAATGC
1 ATGCTAAAAATGC
284401 ATGCTAAAAATG
1 ATGCTAAAAATG
284413 ATAAAATGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGCTAAAAATGC
Found at i:286288 original size:22 final size:22
Alignment explanation
Indices: 286263--286305 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
286253 AGTTGAAGTA
286263 TAGGGCC-GATGTCGTAACACAC
1 TAGGGCCTG-TGTCGTAACACAC
286285 TAGGGCCTGTGTCGTAACACA
1 TAGGGCCTGTGTCGTAACACA
286306 ACAAGCAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.21
Consensus pattern (22 bp):
TAGGGCCTGTGTCGTAACACAC
Found at i:297320 original size:16 final size:17
Alignment explanation
Indices: 297287--297320 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
297277 GAGGATGACA
*
297287 TGTGGCCTAGATAAACC
1 TGTGGCCTAGAGAAACC
297304 TGTGGCCTAG-GAAACC
1 TGTGGCCTAGAGAAACC
297320 T
1 T
297321 TGATGAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (17 bp):
TGTGGCCTAGAGAAACC
Found at i:299398 original size:124 final size:123
Alignment explanation
Indices: 299108--299461 Score: 548
Period size: 124 Copynumber: 2.9 Consensus size: 123
299098 CCTTCTATTT
* * **
299108 TAATATATCATATTAAAATGAAAATATATCTTTTGAGAAATATATGGAAGGTTTATTAAAATATT
1 TAATATCTCATATTAAAATGAAAATATTTCTTTAAAGAAATATATGGAAGGTTTATTAAAATATT
299173 ATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCCTTTTATA
66 ATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCCTTTTATA
* * * * * *
299231 TAATATCTTATAGTAAAATGAAAATACTCCTTTAAAGAAATATATAGAAGGTTTATTAAAACATT
1 TAATATCTCATATTAAAATGAAAATATTTCTTTAAAGAAATATATGGAAGGTTTATTAAAATATT
*
299296 ATATCCTTTCCAAAAGGATATTAACTTCCATATTTTTTAATATTCAATTTCCTTTTATA
66 ATATCCTTTCCAAAAGGATATTAACTTCCAT-GTTTTTAATATTCAATTTCCTTTTATA
**
299355 TAATATCTCATATTAAAATGAAAATATTTCTTTAAATTAATATATGGAAGGTTTATTAAAATATT
1 TAATATCTCATATTAAAATGAAAATATTTCTTTAAAGAAATATATGGAAGGTTTATTAAAATATT
* * *
299420 ATATCCTTTCTAAAAGGATATTAAATTTCATG-TTTTAATATT
66 ATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATT
299462 TAACGAAATC
Statistics
Matches: 207, Mismatches: 23, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
122 10 0.05
123 86 0.42
124 111 0.54
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (123 bp):
TAATATCTCATATTAAAATGAAAATATTTCTTTAAAGAAATATATGGAAGGTTTATTAAAATATT
ATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTTCCTTTTATA
Found at i:304898 original size:34 final size:34
Alignment explanation
Indices: 304860--304925 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
304850 CTGTAGTATA
*
304860 ATTGTCCCTGCAT-TATTAATGTCATTGTATTTTT
1 ATTGTCCCTGCATCTA-TAATGTCATTGCATTTTT
* *
304894 ATTGTCGCTGCATCTATATTGTCATTGCATTT
1 ATTGTCCCTGCATCTATAATGTCATTGCATTT
304926 CCATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.50
Consensus pattern (34 bp):
ATTGTCCCTGCATCTATAATGTCATTGCATTTTT
Found at i:305512 original size:17 final size:17
Alignment explanation
Indices: 305484--305525 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
305474 CTTGAAAAAG
305484 AAAAATGAGAAAAAAGGAA
1 AAAAATGA-AAAAAA-GAA
*
305503 GAAAATGAAAAAAAGAA
1 AAAAATGAAAAAAAGAA
305520 AAAAAT
1 AAAAAT
305526 TATGATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 8 0.38
18 6 0.29
19 7 0.33
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAAATGAAAAAAAGAA
Found at i:313722 original size:16 final size:15
Alignment explanation
Indices: 313698--313735 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
313688 AATGTTGAAT
*
313698 AAAAGAAAAAG-AGA
1 AAAAGAAAAAGAAAA
313712 AAAAGAGAAAAGAAAA
1 AAAAGA-AAAAGAAAA
313728 AAAAGAAA
1 AAAAGAAA
313736 TATTGCTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 7 0.33
16 8 0.38
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAAAA
Done.