Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004746.1 Hibiscus syriacus cultivar Beakdansim tig00010712_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: 233515
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:10310 original size:10 final size:10
Alignment explanation
Indices: 10295--10321 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10285 GCATCAACAT
10295 TGTGTCAAAC
1 TGTGTCAAAC
10305 TGTGTCAAAC
1 TGTGTCAAAC
10315 TGTGTCA
1 TGTGTCA
10322 TTGAAACCTT
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:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (10 bp):
TGTGTCAAAC
Found at i:17442 original size:17 final size:18
Alignment explanation
Indices: 17422--17457 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17412 TATTAATAAT
*
17422 ATAAT-TTATTTTAAAAA
1 ATAATATTACTTTAAAAA
17439 ATAATATTACTTTAAAAA
1 ATAATATTACTTTAAAAA
17457 A
1 A
17458 ATCATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATATTACTTTAAAAA
Found at i:20957 original size:22 final size:22
Alignment explanation
Indices: 20932--20975 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
20922 TCGAACATTT
20932 AAATTTGTGTATATATTTTTTA
1 AAATTTGTGTATATATTTTTTA
20954 AAATTTGTGTATATATTTTTTA
1 AAATTTGTGTATATATTTTTTA
20976 GATTAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (22 bp):
AAATTTGTGTATATATTTTTTA
Found at i:22276 original size:2 final size:2
Alignment explanation
Indices: 22271--22321 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
22261 TTTAAATTAA
*
22271 AT AT AT AA AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22312 AT AT AT AT AT
1 AT AT AT AT AT
22322 TTTTAATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22854 original size:16 final size:16
Alignment explanation
Indices: 22820--22861 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
22810 TTTATTATTT
22820 AATAAAT-AA-ATGAA
1 AATAAATGAATATGAA
22834 AATAAATGAATATGAA
1 AATAAATGAATATGAA
* *
22850 CATAAACGAATA
1 AATAAATGAATA
22862 ATTTTTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.29
15 2 0.08
16 15 0.62
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (16 bp):
AATAAATGAATATGAA
Found at i:22949 original size:16 final size:16
Alignment explanation
Indices: 22928--22987 Score: 102
Period size: 16 Copynumber: 3.8 Consensus size: 16
22918 TAATAAATAA
22928 ACGAACATAAACAAAC
1 ACGAACATAAACAAAC
22944 ACGAACATAAACAAAC
1 ACGAACATAAACAAAC
* *
22960 AGGAACATAAATAAAC
1 ACGAACATAAACAAAC
22976 ACGAACATAAAC
1 ACGAACATAAAC
22988 GTTGGAGACC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.62, C:0.22, G:0.08, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACAAAC
Found at i:23937 original size:14 final size:14
Alignment explanation
Indices: 23905--23931 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23895 GAATGAACAT
23905 AAACGAACATAACC
1 AAACGAACATAACC
23919 AAACGAACATAAC
1 AAACGAACATAAC
23932 TGAACGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.26, G:0.07, T:0.07
Consensus pattern (14 bp):
AAACGAACATAACC
Found at i:28098 original size:16 final size:17
Alignment explanation
Indices: 28077--28108 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28067 AAATAAGCAC
28077 TTTATTA-AAAAATAAA
1 TTTATTATAAAAATAAA
28093 TTTATTATAAAAATAA
1 TTTATTATAAAAATAA
28109 TAGTAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTATTATAAAAATAAA
Found at i:39150 original size:32 final size:31
Alignment explanation
Indices: 39109--39168 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
39099 CTAAACGAAA
* *
39109 AAATCAACCGATCCGATATTGACCCGACCTG
1 AAATCAACCGATCCAATATTAACCCGACCTG
*
39140 AAATCTAACCGATTCAATATTAACCCGAC
1 AAATC-AACCGATCCAATATTAACCCGAC
39169 TAAAAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 5 0.20
32 20 0.80
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.22
Consensus pattern (31 bp):
AAATCAACCGATCCAATATTAACCCGACCTG
Found at i:42467 original size:21 final size:21
Alignment explanation
Indices: 42441--42480 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
42431 TAAATCACCA
42441 AGTGCTTATGGTTAAATTTAG
1 AGTGCTTATGGTTAAATTTAG
42462 AGTGCTTATGGTTAAATTT
1 AGTGCTTATGGTTAAATTT
42481 GGCCTACGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.45
Consensus pattern (21 bp):
AGTGCTTATGGTTAAATTTAG
Found at i:43421 original size:23 final size:23
Alignment explanation
Indices: 43391--43436 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
43381 CACGCTAGTG
43391 AATAAGTGAAAATTAATATTAAA
1 AATAAGTGAAAATTAATATTAAA
43414 AATAAGTGAAAATTAATATTAAA
1 AATAAGTGAAAATTAATATTAAA
43437 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (23 bp):
AATAAGTGAAAATTAATATTAAA
Found at i:49976 original size:3 final size:3
Alignment explanation
Indices: 49968--49996 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
49958 TCAATTCCCT
49968 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
49997 TCCATCCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:50979 original size:23 final size:23
Alignment explanation
Indices: 50948--50998 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
50938 TAGATTCAAA
* *
50948 CAACCAAGGCCGGTTGCGTAGAT
1 CAACTAAGGCCGGTTGCCTAGAT
50971 CAACTAAGGCCGGTTGCCTAGAT
1 CAACTAAGGCCGGTTGCCTAGAT
50994 CAACT
1 CAACT
50999 TGTTCATTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (23 bp):
CAACTAAGGCCGGTTGCCTAGAT
Found at i:69101 original size:14 final size:15
Alignment explanation
Indices: 69082--69114 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
69072 TTAAATTTAA
69082 ATTTAA-ATTATTTT
1 ATTTAATATTATTTT
*
69096 ATTTAATATTTTTTT
1 ATTTAATATTATTTT
69111 ATTT
1 ATTT
69115 TGTTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTAATATTATTTT
Found at i:69398 original size:14 final size:14
Alignment explanation
Indices: 69379--69405 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
69369 TTTCCCATAT
69379 ATTTTAAAAAATAC
1 ATTTTAAAAAATAC
69393 ATTTTAAAAAATA
1 ATTTTAAAAAATA
69406 AAAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTTTAAAAAATAC
Found at i:70974 original size:29 final size:28
Alignment explanation
Indices: 70942--71017 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
70932 ATTTTATTAG
* *
70942 ATTTTTTTATTTTTAAATTATTTAATTGA
1 ATTTTTTTATTTTTAAATCATTTAA-TAA
* **
70971 ATTTTATTATTTTTTCATCATTTAATAA
1 ATTTTTTTATTTTTAAATCATTTAATAA
70999 ATATTTTTTATTCTTTAAA
1 AT-TTTTTTATT-TTTAAA
71018 AAATCTAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
28 4 0.11
29 29 0.78
30 4 0.11
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (28 bp):
ATTTTTTTATTTTTAAATCATTTAATAA
Found at i:71015 original size:21 final size:22
Alignment explanation
Indices: 70978--71021 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
70968 TGAATTTTAT
*
70978 TATTTTTTCATCATTTAATAAA
1 TATTTTTTCATCATTTAAAAAA
71000 TATTTTTT-ATTC-TTTAAAAAA
1 TATTTTTTCA-TCATTTAAAAAA
71021 T
1 T
71022 CTAAAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTTTTCATCATTTAAAAAA
Found at i:72751 original size:42 final size:42
Alignment explanation
Indices: 72685--72768 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
72675 TTTGCAGCCC
*
72685 CACCGTTAACCACCGCACAAAGGCATTGA-GGCAACGATTGAA
1 CACCGTTAACCACCACACAAAGGCATT-ACGGCAACGATTGAA
* * * *
72727 CACCGTTAACCGCCACGCATAGGCATTACGGCGACGATTGAA
1 CACCGTTAACCACCACACAAAGGCATTACGGCAACGATTGAA
72769 TTAGACACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 35 0.97
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.15
Consensus pattern (42 bp):
CACCGTTAACCACCACACAAAGGCATTACGGCAACGATTGAA
Found at i:74670 original size:21 final size:21
Alignment explanation
Indices: 74644--74683 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
74634 TTAGTATGTT
74644 AGTCCACAATGCTGACATGAC
1 AGTCCACAATGCTGACATGAC
*
74665 AGTCCACAGTGCTGACATG
1 AGTCCACAATGCTGACATG
74684 GTAATCCAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.23, T:0.20
Consensus pattern (21 bp):
AGTCCACAATGCTGACATGAC
Found at i:75467 original size:2 final size:2
Alignment explanation
Indices: 75462--75511 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
75452 CACATTTTTT
* *
75462 TA TA TA TA CA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
75504 TA TA TA TA
1 TA TA TA TA
75512 GTTTACAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:75582 original size:40 final size:38
Alignment explanation
Indices: 75495--75582 Score: 95
Period size: 40 Copynumber: 2.3 Consensus size: 38
75485 ATATATATAT
**
75495 ATATATATATATATATAGTTTACAAATGATTTTTGAAA
1 ATATATATATATATATAGTTTACAAAACATTTTTGAAA
** **
75533 ATACGTATATGATATATAGTTTTTAAAACATTTTTTGAAA
1 ATATATATAT-ATATATAGTTTACAAAACA-TTTTTGAAA
*
75573 CTATATATAT
1 ATATATATAT
75583 CAAAAAATTA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
38 8 0.21
39 15 0.38
40 16 0.41
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (38 bp):
ATATATATATATATATAGTTTACAAAACATTTTTGAAA
Found at i:75649 original size:91 final size:92
Alignment explanation
Indices: 75496--75672 Score: 232
Period size: 91 Copynumber: 1.9 Consensus size: 92
75486 TATATATATA
** * * *
75496 TATATATATATATATAGTTTACAAATGATTTTTGAAAATACGTATATGATATATAGTTTTTAAAA
1 TATATATATATATATAGTTTACAAAACATTTTCGAAAATA--TATATAATATATACTTTTTAAAA
* *
75561 CATTTTTTGAAACTATATATATCAAAAAAT
64 CATTTTTAGAAAAT-TATATATCAAAAAAT
**
75591 TATATATAT-TATATAGTTTTTAAAACATTTTCGAAAAT-TATATAATATATACTTTTTAAAACA
1 TATATATATATATATAGTTTACAAAACATTTTCGAAAATATATATAATATATACTTTTTAAAACA
75654 TTTTTAGAAAATTATATAT
66 TTTTTAGAAAATTATATAT
75673 TATATAATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
90 7 0.10
91 33 0.45
94 24 0.33
95 9 0.12
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (92 bp):
TATATATATATATATAGTTTACAAAACATTTTCGAAAATATATATAATATATACTTTTTAAAACA
TTTTTAGAAAATTATATATCAAAAAAT
Found at i:75677 original size:37 final size:36
Alignment explanation
Indices: 75586--75826 Score: 202
Period size: 37 Copynumber: 6.3 Consensus size: 36
75576 TATATATCAA
*
75586 AAAATTATATATATTATATAGTTTTTAAAACATTTTCG
1 AAAATTATATA-A-TATATAGTTTTTAAAACATTTTTG
*
75624 AAAATTATATAATATATACTTTTTAAAACATTTTTAG
1 AAAATTATATAATATATAGTTTTTAAAACATTTTT-G
* * **
75661 AAAATTATATATTATATAATTTTTGAAAA-AAATTT-
1 AAAATTATATAATATATAGTTTTT-AAAACATTTTTG
*
75696 AAAATATATATAATATATAGTTTTTTAAATCA-TTTTG
1 AAAAT-TATATAATATATAG-TTTTTAAAACATTTTTG
* *
75733 AAAACTTATATAATATATTA-TTTTGGAAAAAATATTTATG
1 AAAA-TTATATAATATA-TAGTTTT-TAAAACAT-TTT-TG
* *
75773 AAAACAATTATATATTATATAGTTTTTCAAAAACATGTTTG
1 --AA-AATTATATAATATATAGTTTTT--AAAACATTTTTG
75814 AAAATATATATAA
1 AAAAT-TATATAA
75827 ATTTAAAATA
Statistics
Matches: 166, Mismatches: 18, Indels: 37
0.75 0.08 0.17
Matches are distributed among these distances:
35 5 0.03
36 43 0.26
37 53 0.32
38 21 0.13
39 11 0.07
40 2 0.01
41 4 0.02
42 19 0.11
43 8 0.05
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (36 bp):
AAAATTATATAATATATAGTTTTTAAAACATTTTTG
Found at i:75707 original size:73 final size:72
Alignment explanation
Indices: 75593--75770 Score: 209
Period size: 73 Copynumber: 2.4 Consensus size: 72
75583 CAAAAAATTA
* * *
75593 TATATATTATATAGTTTTT-AAAACATTTTCGAAAATTATATAATATATA-CTTTTTAAAACATT
1 TATATATTATATAATTTTTGAAAAAAATTT--AAAATTATATAATATATAGCTTTTTAAAACA-T
75656 TTTAGAAAA-T
63 TTT-GAAAACT
* *
75666 TATATATTATATAATTTTTGAAAAAAATTTAAAATATATATAATATATAGTTTTTTAAATCATTT
1 TATATATTATATAATTTTTGAAAAAAATTTAAAAT-TATATAATATATAGCTTTTTAAAACATTT
75731 TGAAAACT
65 TGAAAACT
* * *
75739 TATATAATATATTATTTTGGAAAAAATATTTA
1 TATATATTATATAATTTTTGAAAAAA-ATTTA
75771 TGAAAACAAT
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
72 10 0.11
73 59 0.64
74 23 0.25
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (72 bp):
TATATATTATATAATTTTTGAAAAAAATTTAAAATTATATAATATATAGCTTTTTAAAACATTTT
GAAAACT
Found at i:75897 original size:24 final size:23
Alignment explanation
Indices: 75870--75918 Score: 55
Period size: 24 Copynumber: 2.0 Consensus size: 23
75860 TATGGTTTTG
75870 AAAACCAT-TTTTAAAATCATATAT
1 AAAA-CATATTTTAAAAT-ATATAT
*
75894 AAAATATAATTTTAAAATATATAT
1 AAAACAT-ATTTTAAAATATATAT
75918 A
1 A
75919 TATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 2 0.09
24 11 0.50
25 9 0.41
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAACATATTTTAAAATATATAT
Found at i:77361 original size:49 final size:49
Alignment explanation
Indices: 77284--77377 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
77274 TGCGACAGTT
*
77284 ACGTTAAGTATAATTTTGAAAAAAATAATAG-TTGGCTGACCAAAATGTA
1 ACGTCAAGTATAATTTTGAAAAAAATAATAGTTTGG-TGACCAAAATGTA
*
77333 ACGTCAAGTATGATTTTGAAAAAAATAATAGTTTGGTGACCAAAA
1 ACGTCAAGTATAATTTTGAAAAAAATAATAGTTTGGTGACCAAAA
77378 CAAAACCCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
49 38 0.90
50 4 0.10
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (49 bp):
ACGTCAAGTATAATTTTGAAAAAAATAATAGTTTGGTGACCAAAATGTA
Found at i:83980 original size:15 final size:15
Alignment explanation
Indices: 83960--83991 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
83950 GGTCGCATGT
83960 TGAGATTACAAAACA
1 TGAGATTACAAAACA
83975 TGAGATTACAAAACA
1 TGAGATTACAAAACA
83990 TG
1 TG
83992 GGATGAAGAA
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:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (15 bp):
TGAGATTACAAAACA
Found at i:89471 original size:17 final size:17
Alignment explanation
Indices: 89449--89502 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
89439 AATGTTAATA
89449 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
89466 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
89483 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
89500 TTT
1 TTT
89503 TTATAATATA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:91055 original size:21 final size:21
Alignment explanation
Indices: 91025--91072 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
91015 GCAGGGGTAC
* *
91025 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
91046 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
91067 ATGCCA
1 ATGCCA
91073 TCTCCGCTGG
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:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:91105 original size:21 final size:21
Alignment explanation
Indices: 91076--91148 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
91066 TATGCCATCT
* *
91076 CCGCTGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
91097 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
91118 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
91139 CCGCAGGGTT
1 CCGCAGGGTT
91149 TTATACCATA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
20 2 0.04
21 43 0.91
22 2 0.04
ACGTcount: A:0.16, C:0.34, G:0.27, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:91730 original size:33 final size:34
Alignment explanation
Indices: 91671--91834 Score: 224
Period size: 33 Copynumber: 4.9 Consensus size: 34
91661 AAATGTTTTT
*
91671 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
91705 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
*
91738 AAAATATAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
91772 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
91805 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
91835 CATTAAATTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
33 57 0.50
34 56 0.50
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:91749 original size:67 final size:67
Alignment explanation
Indices: 91668--91834 Score: 316
Period size: 67 Copynumber: 2.5 Consensus size: 67
91658 GATAAATGTT
*
91668 TTTAAAATACAAATTATATTATTCGAAATTTAAAATAAAAATAAAAATAATATTATTCAAATTTA
1 TTTAAAATATAAATTATATTATTCGAAATTTAAAATAAAAATAAAAATAATATTATTCAAATTTA
91733 AA
66 AA
91735 TTTAAAATATAAATTATATTATTCGAAATTTAAAATAAAAATAAAAATAATATTATTCAAATTTA
1 TTTAAAATATAAATTATATTATTCGAAATTTAAAATAAAAATAAAAATAATATTATTCAAATTTA
91800 AA
66 AA
*
91802 TTTAAAATATAAATTATAGTATTCGAAATTTAA
1 TTTAAAATATAAATTATATTATTCGAAATTTAA
91835 CATTAAATTT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 98 1.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (67 bp):
TTTAAAATATAAATTATATTATTCGAAATTTAAAATAAAAATAAAAATAATATTATTCAAATTTA
AA
Found at i:91841 original size:34 final size:33
Alignment explanation
Indices: 91669--91841 Score: 215
Period size: 34 Copynumber: 5.2 Consensus size: 33
91659 ATAAATGTTT
*
91669 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
91703 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
*
91735 TTTAAAATATAAATTATATTATTCGAAATTTAAAA
1 -TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
91770 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
91802 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
91837 TTAAA
1 TTAAA
91842 TTTCAACTTA
Statistics
Matches: 120, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
32 6 0.05
33 51 0.43
34 59 0.49
35 4 0.03
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:92453 original size:128 final size:128
Alignment explanation
Indices: 92225--92799 Score: 1118
Period size: 128 Copynumber: 4.5 Consensus size: 128
92215 AGTTATTCAA
92225 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
92290 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
92353 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
92418 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
92481 ACTG--ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
92544 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
92607 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
92672 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
92735 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
92800 CACGTATACA
Statistics
Matches: 444, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
126 126 0.28
128 318 0.72
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (128 bp):
ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
Found at i:92680 original size:254 final size:255
Alignment explanation
Indices: 92225--92799 Score: 1107
Period size: 254 Copynumber: 2.3 Consensus size: 255
92215 AGTTATTCAA
92225 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGA-ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
92290 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
65 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTAC
*
92355 TGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGA
130 TGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGA
92420 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
195 CGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
92481 ACTG-ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
1 ACTGAATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
92545 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACT
66 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACT
92610 GATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGAC
131 GATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGAC
92675 GAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
196 GAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
*
92735 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGA-ATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
92800 CACGTATACA
Statistics
Matches: 315, Mismatches: 2, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
254 253 0.80
256 62 0.20
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (255 bp):
ACTGAATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACT
GATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGAC
GAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
Found at i:94141 original size:24 final size:24
Alignment explanation
Indices: 94109--94157 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
94099 GTTCGCGATC
94109 GCTGCCAATTTTACCGAGTCTTTT
1 GCTGCCAATTTTACCGAGTCTTTT
94133 GCTGCCAATTTTACCGAGTCTTTT
1 GCTGCCAATTTTACCGAGTCTTTT
94157 G
1 G
94158 GACTTACCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.41
Consensus pattern (24 bp):
GCTGCCAATTTTACCGAGTCTTTT
Found at i:101761 original size:3 final size:3
Alignment explanation
Indices: 101753--101784 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
101743 CACAAGCTTC
101753 GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
101785 ATGGTTGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:105872 original size:2 final size:2
Alignment explanation
Indices: 105867--105925 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
105857 GACGTGTGTG
105867 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
105909 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
105926 TTTAAAATTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:106322 original size:14 final size:14
Alignment explanation
Indices: 106305--106332 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
106295 ACACTAAACC
106305 ATAATTTAAGGTTT
1 ATAATTTAAGGTTT
106319 ATAATTTAAGGTTT
1 ATAATTTAAGGTTT
106333 TAAGTTGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (14 bp):
ATAATTTAAGGTTT
Found at i:108868 original size:21 final size:22
Alignment explanation
Indices: 108843--108894 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 22
108833 AAAATTGAAT
108843 CTAAATCATAAATT-CTAACAC
1 CTAAATCATAAATTCCTAACAC
*
108864 CTAAATCAT-AATTCCTAACCC
1 CTAAATCATAAATTCCTAACAC
108885 CTAAATCATA
1 CTAAATCATA
108895 CATAAATCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (22 bp):
CTAAATCATAAATTCCTAACAC
Found at i:119872 original size:2 final size:2
Alignment explanation
Indices: 119865--119893 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
119855 ATCTAAAACA
119865 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 A
119894 GACACACACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:125624 original size:103 final size:103
Alignment explanation
Indices: 125296--125616 Score: 579
Period size: 103 Copynumber: 3.1 Consensus size: 103
125286 GTCGAGGGTC
125296 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
125361 TTGATCCTTGGCATATGTATATGGTTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
125399 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
125464 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
*
125502 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACGCATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * * *
125567 TTGATCCCTAGTATATGTATATGATTATTAAGGAATGA
66 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
125605 TATGTGGTCCTT
1 TATGTGGTCCTT
125617 ATGGACATTA
Statistics
Matches: 210, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 210 1.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
Found at i:125666 original size:23 final size:23
Alignment explanation
Indices: 125633--125700 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
125623 ATTATTATAT
125633 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
125656 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
125679 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
125701 AGCTGTGGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:128266 original size:33 final size:33
Alignment explanation
Indices: 128229--128291 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
128219 AGATCCTTGT
* *
128229 TTTTTTAATGGAAAGTGATTTAGCTGCTCCTCG
1 TTTTTTAATGGAAAGTAATTTAACTGCTCCTCG
*
128262 TTTTTTAATGTAAAGTAATTTAACTGCTCC
1 TTTTTTAATGGAAAGTAATTTAACTGCTCC
128292 GATGTTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.44
Consensus pattern (33 bp):
TTTTTTAATGGAAAGTAATTTAACTGCTCCTCG
Found at i:132257 original size:20 final size:21
Alignment explanation
Indices: 132212--132251 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
132202 ATTTATTAGA
132212 AAAAAGTATAATTATAATTTT
1 AAAAAGTATAATTATAATTTT
132233 AAAAA-TATAA-TATAATTTT
1 AAAAAGTATAATTATAATTTT
132252 CCAAAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 5 0.26
21 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
AAAAAGTATAATTATAATTTT
Found at i:133197 original size:15 final size:15
Alignment explanation
Indices: 133177--133214 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
133167 TTGAGACATT
*
133177 ACCCGCCCCGCATCC
1 ACCCGCCCCACATCC
133192 ACCCGCCCCACATCC
1 ACCCGCCCCACATCC
*
133207 GCCCGCCC
1 ACCCGCCC
133215 AACTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.68, G:0.13, T:0.05
Consensus pattern (15 bp):
ACCCGCCCCACATCC
Found at i:146363 original size:42 final size:42
Alignment explanation
Indices: 146143--146451 Score: 350
Period size: 43 Copynumber: 7.2 Consensus size: 42
146133 TGAGAACAAA
* * *
146143 AAACGCCGCTATAGGTCAAGATCTATAGCGGCGTTTTTGGAAT
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
* * *
146186 AAACGCCGCAAAAGGTTGAGATTTATAGCGGCGTTTTTAGAAC
1 AAACGCCGCAAAAGG-TCAGATCTATAGCGGCGTTTTTGGAAC
* * *
146229 AAACGCCGCAAAAAGTTGAGGTCTATAGCGGCGTTTTTGGAAC
1 AAACGCCGC-AAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
* * * *
146272 AAACGCCGCAAAAGGATGATATATATAGCGGGGTTTTTGGAAC
1 AAACGCCGCAAAAGG-TCAGATCTATAGCGGCGTTTTTGGAAC
* *
146315 AAACGCCGCAAAAGGTCATATCTATAACGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
*
146357 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTTTGAA-
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCG-TTTTTGGAAC
* * * * * *
146399 TAACACCGTAAAAGATCAAATATATAGCGGCGTTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCG-TTTTTGGA-AC
146443 AAACGCCGC
1 AAACGCCGC
146452 TAATTTCCTT
Statistics
Matches: 228, Mismatches: 32, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
42 92 0.40
43 124 0.54
44 12 0.05
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAAC
Found at i:150193 original size:82 final size:83
Alignment explanation
Indices: 150101--150280 Score: 217
Period size: 82 Copynumber: 2.2 Consensus size: 83
150091 ATTTGCTACC
* * * *
150101 AAAACTCCGCTAAAGTTA-TAATTTTTTGTGGCGTTTATT-AAAAAACACCACTATA-AGT-GAA
1 AAAACGCCGCTAAAGTTACTAATATGTTGCGGCGTTTATTGAAAAAACACCACTATATA-TAG-A
* *
150162 CCCTATTGCGGCGTTTGTATA
64 -CCTATGGCGGCGTTTGTAAA
*
150183 AAAACGCCGCTAAAG-TACTAATATGTTGCGGCGTTTATTGAAAAAACGCCACTATATATAGACC
1 AAAACGCCGCTAAAGTTACTAATATGTTGCGGCGTTTATTGAAAAAACACCACTATATATAGACC
*
150247 TGTGGCGGCGTTTGTAAA
66 TATGGCGGCGTTTGTAAA
*
150265 AAAACGCCGCCAAAGT
1 AAAACGCCGCTAAAGT
150281 AACCATTTTG
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
81 2 0.02
82 63 0.75
83 17 0.20
84 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (83 bp):
AAAACGCCGCTAAAGTTACTAATATGTTGCGGCGTTTATTGAAAAAACACCACTATATATAGACC
TATGGCGGCGTTTGTAAA
Found at i:150212 original size:41 final size:41
Alignment explanation
Indices: 150167--150281 Score: 110
Period size: 41 Copynumber: 2.8 Consensus size: 41
150157 GTGAACCCTA
*
150167 TTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTA-ATATG
1 TTGCGGCGTTTGTATAAAAACGCCGCTAAAGTA-TAGACATG
* * * *
150208 TTGCGGCGTTTAT-TGAAAAAACGCCACTATA-TATAGACCTG
1 TTGCGGCGTTTGTAT--AAAAACGCCGCTAAAGTATAGACATG
* * *
150249 TGGCGGCGTTTGTAAAAAAACGCCGCCAAAGTA
1 TTGCGGCGTTTGTATAAAAACGCCGCTAAAGTA
150282 ACCATTTTGT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
40 15 0.26
41 30 0.52
42 13 0.22
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (41 bp):
TTGCGGCGTTTGTATAAAAACGCCGCTAAAGTATAGACATG
Found at i:154147 original size:21 final size:21
Alignment explanation
Indices: 154122--154169 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
154112 CCTAATATTG
154122 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
154143 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
*
154164 TAATGT
1 CAATGT
154170 TTGAAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:164182 original size:14 final size:15
Alignment explanation
Indices: 164163--164197 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
164153 AGAGACTGCC
*
164163 TCTTTTTT-TTCTTT
1 TCTTTTTTCTTATTT
164177 TCTTTTTTCTTATTT
1 TCTTTTTTCTTATTT
164192 TCTTTT
1 TCTTTT
164198 CTTAGCTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (15 bp):
TCTTTTTTCTTATTT
Found at i:165929 original size:14 final size:14
Alignment explanation
Indices: 165912--165940 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
165902 AGCAAATGCT
165912 ACTGTATAAATTAG
1 ACTGTATAAATTAG
165926 ACTGTATAAATTAG
1 ACTGTATAAATTAG
165940 A
1 A
165941 AGAAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (14 bp):
ACTGTATAAATTAG
Found at i:170592 original size:31 final size:31
Alignment explanation
Indices: 170549--170609 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
170539 AAACTTAAAA
* *
170549 TAGTTTTGCAATAATGAGATTTAAATAATTT
1 TAGTTTTACAATAATGAAATTTAAATAATTT
*
170580 TAGTTTTACAATACTGAAATTTAAATAATT
1 TAGTTTTACAATAATGAAATTTAAATAATT
170610 CATTAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (31 bp):
TAGTTTTACAATAATGAAATTTAAATAATTT
Found at i:170658 original size:22 final size:22
Alignment explanation
Indices: 170633--170675 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
170623 TAATAAATTA
170633 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCTATAT
170655 TTTAAAATAAATCAATCTATA
1 TTTAAAATAAATCAATCTATA
170676 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCTATAT
Found at i:170684 original size:22 final size:22
Alignment explanation
Indices: 170635--170683 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
170625 ATAAATTATT
**
170635 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCTATATAA
170657 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCTATA-TAA
170680 TAAA
1 TAAA
170684 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATAAATCAATCTATATAA
Found at i:170693 original size:32 final size:30
Alignment explanation
Indices: 170655--170788 Score: 114
Period size: 30 Copynumber: 4.3 Consensus size: 30
170645 CAATCTATAT
170655 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAAT-AATCTATA-TAATAAATTA
*
170687 TTTAAAATAAATCAATCCATATTTTATAATAATTTA
1 TTTAAAATAAAT-AAT-C-TA---TATAATAAATTA
* *
170723 TTTCAAAATAAATTAT-TTTATAATAAATTA
1 TTT-AAAATAAATAATCTATATAATAAATTA
*
170753 TTTTAAAATAAATAACCT-TAT--TAAATTA
1 -TTTAAAATAAATAATCTATATAATAAATTA
170781 TTTAAAAT
1 TTTAAAAT
170789 TATTTTAATA
Statistics
Matches: 88, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
27 8 0.09
28 7 0.08
30 24 0.27
31 4 0.05
32 16 0.18
33 2 0.02
34 2 0.02
36 14 0.16
37 11 0.12
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTAAAATAAATAATCTATATAATAAATTA
Found at i:170732 original size:15 final size:15
Alignment explanation
Indices: 170706--170765 Score: 84
Period size: 15 Copynumber: 4.0 Consensus size: 15
170696 AATCAATCCA
* *
170706 TATTTTATAATAATT
1 TATTTTAAAATAAAT
*
170721 TATTTCAAAATAAAT
1 TATTTTAAAATAAAT
*
170736 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
170751 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
170766 AACCTTATTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTTAAAATAAAT
Found at i:171034 original size:20 final size:19
Alignment explanation
Indices: 170989--171107 Score: 105
Period size: 20 Copynumber: 5.9 Consensus size: 19
170979 AAATGACCAA
170989 CAAAATCGCAACGCGATAT
1 CAAAATCGCAACGCGATAT
* *
171008 CAAAATCGCAACTCGATTT
1 CAAAATCGCAACGCGATAT
* * *
171027 AGAAAATCGCAACGCTGAAAA
1 -CAAAATCGCAACGC-GATAT
*
171048 GAAAATCGCAACGCGAT-T
1 CAAAATCGCAACGCGATAT
*
171066 CCAAGAATCGCAACGCGATCTT
1 -CAA-AATCGCAACGCGAT-AT
171088 CCAAGAATCGCAACGCGATA
1 -CAA-AATCGCAACGCGATA
171108 GTCTACAGTG
Statistics
Matches: 83, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
19 21 0.25
20 40 0.48
21 2 0.02
22 20 0.24
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (19 bp):
CAAAATCGCAACGCGATAT
Found at i:171158 original size:41 final size:41
Alignment explanation
Indices: 171102--171179 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
171092 GAATCGCAAC
*
171102 GCGATAGTCTACAGTGTCGTTGCGATTTTCCAATTCGCGTT
1 GCGAGAGTCTACAGTGTCGTTGCGATTTTCCAATTCGCGTT
171143 GCGAGAGTCTACAGTGTCGTTGCGATTTTCCAATTCG
1 GCGAGAGTCTACAGTGTCGTTGCGATTTTCCAATTCG
171180 TAAAAAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.35
Consensus pattern (41 bp):
GCGAGAGTCTACAGTGTCGTTGCGATTTTCCAATTCGCGTT
Found at i:171276 original size:6 final size:6
Alignment explanation
Indices: 171265--171297 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
171255 GACACGTATT
171265 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
171298 CGAGACGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:171984 original size:5 final size:5
Alignment explanation
Indices: 171974--172014 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
171964 CGCCGCCGCC
171974 GTCGT GTCGT GTCGT GTCGT GTCGT GTCGT GTCGT GTCGT G
1 GTCGT GTCGT GTCGT GTCGT GTCGT GTCGT GTCGT GTCGT G
172015 GTTGTGGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.00, C:0.20, G:0.41, T:0.39
Consensus pattern (5 bp):
GTCGT
Found at i:172122 original size:20 final size:20
Alignment explanation
Indices: 172095--172194 Score: 119
Period size: 20 Copynumber: 5.0 Consensus size: 20
172085 ATTTTCAACG
* *
172095 TTGCGATTTTATAAATCGCA
1 TTGCGATTCTATCAATCGCA
* * * *
172115 TTGTGATTCTCTCAGTCGCG
1 TTGCGATTCTATCAATCGCA
* *
172135 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTATCAATCGCA
*
172155 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTATCAATCGCA
172175 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTATCAATCGCA
172195 ATCTAAATCG
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTATCAATCGCA
Found at i:172251 original size:20 final size:20
Alignment explanation
Indices: 172226--172279 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
172216 TGGAAGCTCG
*
172226 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
172246 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
172266 CGTTGCGATTTTCT
1 CGTTGCGATTTTCT
172280 AAATCGCGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.19, G:0.19, T:0.52
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:172306 original size:19 final size:20
Alignment explanation
Indices: 172266--172316 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
172256 TTCTTTTTAA
*
172266 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
172286 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
172305 CGTTGCGATTTT
1 CGTTGCGATTTT
172317 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:173369 original size:229 final size:227
Alignment explanation
Indices: 172964--173412 Score: 790
Period size: 229 Copynumber: 2.0 Consensus size: 227
172954 GTAAATTATC
* * *
172964 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
173029 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
173094 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
173159 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
173192 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
173257 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
173322 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
173387 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
173413 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 10, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
228 40 0.19
229 170 0.81
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:173501 original size:20 final size:19
Alignment explanation
Indices: 173478--173523 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
173468 CGATATACCA
173478 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
173498 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
173518 GGTAAA
1 GGTAAA
173524 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:173666 original size:20 final size:19
Alignment explanation
Indices: 173643--173689 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
173633 CGATATAACA
173643 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
173663 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
173683 GGTAAAA
1 GGTAAAA
173690 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:173691 original size:17 final size:19
Alignment explanation
Indices: 173652--173694 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
173642 AGGTAAAAAT
173652 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
173672 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
173689 ATGATA
1 ATGATA
173695 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:175968 original size:21 final size:21
Alignment explanation
Indices: 175921--175985 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
175911 AAGACAATCA
* *
175921 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
175943 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
175963 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
175984 AG
1 AG
175986 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:176060 original size:32 final size:32
Alignment explanation
Indices: 176019--176079 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
176009 AAATAGATGG
*
176019 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
* *
176051 AGTGGTGAAAGAAGTTGGGGTGTTAAGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGG
176080 GTGATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.23
Consensus pattern (32 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGTGA
Found at i:177897 original size:19 final size:19
Alignment explanation
Indices: 177873--177921 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
177863 AATGTAGGGT
177873 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
177892 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
177911 TATTTTTGTAT
1 TAATTTTGTAT
177922 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:178892 original size:395 final size:395
Alignment explanation
Indices: 178040--179595 Score: 2869
Period size: 395 Copynumber: 3.9 Consensus size: 395
178030 CAATATGGCC
* * *
178040 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
* *
178105 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
178170 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATG
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA--TTTTTTTCCAGAATG
178235 AATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCA
192 AATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCA
178300 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
256 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
*
178365 ATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAG
321 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAG
178430 AATGAATGGAA
385 AATGAATGGAA
178441 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
178504 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
178569 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGCGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
178634 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGA
178699 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
260 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
*
178764 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAAAATGA
325 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGA
178829 ATGGAA
390 ATGGAA
178835 AACA-GGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
178899 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTATAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
178964 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
179029 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAATCATCGAA
196 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAATCATCGAA
179093 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACC-GTTTTATGAG
261 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
179157 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAA
326 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
179221 TGGAA
391 TGGAA
*
179226 AACATGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
179290 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
179355 AATATGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
*
179418 GAAAACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAATCATCGAA
196 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAATCATCGAA
179483 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
261 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
*
179548 AGAATATGTCTAAATAATGTGTCAACACTAATATAGTTTGTGTCGATA
326 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
179596 CTAATTTAAA
Statistics
Matches: 1134, Mismatches: 16, Indels: 20
0.97 0.01 0.02
Matches are distributed among these distances:
389 72 0.06
390 81 0.07
391 224 0.20
392 64 0.06
393 95 0.08
394 55 0.05
395 375 0.33
397 112 0.10
398 8 0.01
399 14 0.01
401 34 0.03
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (395 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAATCATCGAA
CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
TGGAA
Found at i:179283 original size:195 final size:198
Alignment explanation
Indices: 178040--179595 Score: 2873
Period size: 197 Copynumber: 7.9 Consensus size: 198
178030 CAATATGGCC
* * *
178040 AACAAGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
* *
178105 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
178170 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATG
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA--TTTTTTTCCAGAATG
178235 AATGGAA
192 AATGGAA
178242 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
178307 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
178372 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
178437 GGAA
195 GGAA
178441 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
178504 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
178569 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGCGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
178634 GAA
196 GAA
178637 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
178702 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
178767 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAAAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
178832 GAA
196 GAA
178835 AACA-GGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
178899 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTATAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
178964 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
179029 GAA
196 GAA
179032 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
179095 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACC-GTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
179159 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
179223 GAA
196 GAA
*
179226 AACATGGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
179290 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
179355 AATATGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
179418 GAA
196 GAA
*
179421 AACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
179485 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
179550 AATATGTCTAAATAATGTGTCAACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
179596 CTAATTTAAA
Statistics
Matches: 1327, Mismatches: 17, Indels: 25
0.97 0.01 0.02
Matches are distributed among these distances:
193 23 0.02
194 62 0.05
195 259 0.20
196 200 0.15
197 362 0.27
198 193 0.15
199 58 0.04
200 112 0.08
201 24 0.02
202 34 0.03
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAA
Found at i:181076 original size:12 final size:12
Alignment explanation
Indices: 181059--181129 Score: 81
Period size: 12 Copynumber: 5.9 Consensus size: 12
181049 GGTCGCAGAA
*
181059 GATGAAGCTGAC
1 GATGAAGATGAC
181071 GATGAAGATGAC
1 GATGAAGATGAC
*
181083 GATGATGATGAC
1 GATGAAGATGAC
*
181095 GATGAAGCTGGA-
1 GATGAAGAT-GAC
*
181107 GATGAAGATGAT
1 GATGAAGATGAC
*
181119 GATGATGATGA
1 GATGAAGATGA
181130 TGAAGATGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
11 2 0.04
12 47 0.92
13 2 0.04
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:181080 original size:6 final size:6
Alignment explanation
Indices: 181056--181129 Score: 67
Period size: 6 Copynumber: 12.3 Consensus size: 6
181046 AGCGGTCGCA
* * * * * *
181056 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * *
181104 GGAGAT GAAGAT GATGAT GATGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GA
181130 TGAAGATGAT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.38, C:0.07, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:181091 original size:3 final size:3
Alignment explanation
Indices: 181071--181142 Score: 65
Period size: 3 Copynumber: 24.0 Consensus size: 3
181061 TGAAGCTGAC
* * * * * *
181071 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGA- GAT GAA GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT -GAT GAT GAT GAT
*
181116 GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
181143 CCAAACAAGT
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
2 2 0.04
3 50 0.94
4 1 0.02
ACGTcount: A:0.38, C:0.04, G:0.35, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:181111 original size:36 final size:36
Alignment explanation
Indices: 181059--181129 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
181049 GGTCGCAGAA
181059 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
*
181095 GATGAAGCTGGA-GATGAAGATGATGATGATGATGA
1 GATGAAGCT-GACGATGAAGATGACGATGATGATGA
181130 TGAAGATGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
36 31 0.94
37 2 0.06
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGATGATGATGAC
Found at i:181128 original size:18 final size:18
Alignment explanation
Indices: 181056--181142 Score: 83
Period size: 18 Copynumber: 5.0 Consensus size: 18
181046 AGCGGTCGCA
* *
181056 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
181074 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* *
181092 GACGATGAAGCTGGA-GAT
1 GAAGATGAAGAT-GATGAT
181110 GAAGAT---GATGATGAT
1 GAAGATGAAGATGATGAT
*
181125 GATGATGAAGATGATGAT
1 GAAGATGAAGATGATGAT
181143 CCAAACAAGT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
14 2 0.04
15 10 0.18
18 41 0.75
19 2 0.04
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.22
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:181130 original size:12 final size:12
Alignment explanation
Indices: 181059--181142 Score: 77
Period size: 12 Copynumber: 7.2 Consensus size: 12
181049 GGTCGCAGAA
* *
181059 GATGAAGCTGAC
1 GATGAAGATGAT
*
181071 GATGAAGATGAC
1 GATGAAGATGAT
* *
181083 GATGATGATGAC
1 GATGAAGATGAT
*
181095 GATGAAGCTGGA-
1 GATGAAGAT-GAT
181107 GATGAAGATGAT
1 GATGAAGATGAT
181119 GAT---GATGAT
1 GATGAAGATGAT
181128 GATGAAGATGAT
1 GATGAAGATGAT
181140 GAT
1 GAT
181143 CCAAACAAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
9 9 0.15
11 2 0.03
12 49 0.79
13 2 0.03
ACGTcount: A:0.37, C:0.06, G:0.35, T:0.23
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:183077 original size:182 final size:183
Alignment explanation
Indices: 182601--183299 Score: 1283
Period size: 183 Copynumber: 3.8 Consensus size: 183
182591 CAACATATTA
* * *
182601 TAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAA
1 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAA
182666 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
66 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
182731 ATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATG
131 ATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATG
*
182784 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGCGCGAATAGGTCTACAA
1 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAA
182849 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
66 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
182914 ATACGATTTAAAAAAGTGTCGACATTTACACATCGGAA-CCATAATTATAATG
131 ATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATG
182966 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAA
1 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAA
183031 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
66 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
* * *
183096 ATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATG
131 ATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATG
* *
183149 TATTAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
1 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAA
* *
183214 CCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCG
66 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
*
183279 ATACCATTTAAAAAAGTGTCG
131 ATACGATTTAAAAAAGTGTCG
183300 GTAATTTTAA
Statistics
Matches: 501, Mismatches: 14, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
182 180 0.36
183 321 0.64
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAA
CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
ATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATG
Found at i:183290 original size:365 final size:365
Alignment explanation
Indices: 182601--183299 Score: 1290
Period size: 365 Copynumber: 1.9 Consensus size: 365
182591 CAACATATTA
*
182601 TAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAA
1 TAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAA
182666 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
66 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
* *
182731 ATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATT
131 ATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATT
*
182796 TTGTAATATAACCGGTATAAATATACCGATTTTATGCGCGAATAGGTCTACAACCTATATCGACA
196 TTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACA
* * *
182861 CTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAA
261 CTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAA
182926 AAAGTGTCGACATTTACACATCGGAACCATAATTATAATG
326 AAAGTGTCGACATTTACACATCGGAACCATAATTATAATG
* *
182966 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAA
1 TAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAA
183031 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
66 CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
* *
183096 ATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGATTTATAATGTATTAGATAATT
131 ATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATT
*
183161 TTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACA
196 TTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACA
183226 CTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAA
261 CTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAA
183291 AAAGTGTCG
326 AAAGTGTCG
183300 GTAATTTTAA
Statistics
Matches: 322, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
365 322 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (365 bp):
TAATAGATAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAA
CCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCG
ATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATT
TTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACA
CTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAA
AAAGTGTCGACATTTACACATCGGAACCATAATTATAATG
Found at i:185799 original size:25 final size:25
Alignment explanation
Indices: 185765--185829 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
185755 TTATCATTAA
185765 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
185790 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
185815 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
185830 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:186539 original size:25 final size:25
Alignment explanation
Indices: 186505--186555 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
186495 ACAACAAATC
* *
186505 AATTAAACATTGTTGTGTGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
186530 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
186555 A
1 A
186556 TTTGGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:186965 original size:18 final size:18
Alignment explanation
Indices: 186944--186980 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
186934 GTAATTGGAG
186944 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
186962 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
186980 T
1 T
186981 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:186988 original size:24 final size:24
Alignment explanation
Indices: 186936--186982 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
186926 TTTCATATGT
* *
186936 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
186960 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
186983 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:187282 original size:39 final size:39
Alignment explanation
Indices: 187239--187325 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
187229 TTCGATGCTC
* * *
187239 ATCAAAATCCAAAGCTCATATGGTGCCAAGTAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGACAAGCAAAAGGAA
*
187278 ATCAAAATCCAAATCTCATATGATGACAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGACAAGCAAAAGGAA
187317 ATCAAAATC
1 ATCAAAATC
187326 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGACAAGCAAAAGGAA
Found at i:187758 original size:23 final size:23
Alignment explanation
Indices: 187727--187799 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
187717 ATAGGTAAAC
*
187727 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
187750 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
187773 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
187796 ATAT
1 ATAT
187800 TGTAAAGTGT
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:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:189598 original size:43 final size:43
Alignment explanation
Indices: 189567--189794 Score: 339
Period size: 43 Copynumber: 5.3 Consensus size: 43
189557 CGTTTGTTGG
* *
189567 ACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCA
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
** *
189610 ACAAACGTTGCAATAGGTGTTGAGATTTAGCGACGTTTTTCCC
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
*
189653 ACAAATGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
* **
189696 ACAAACACCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTTTC
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
* * *
189739 ACAAACGCCGCAATAGGTCTTGAGATTTAACGGCGTTTTTTCC
1 ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
*
189782 ACAAACACCGCAA
1 ACAAACGCCGCAA
189795 AAGATCTAGT
Statistics
Matches: 167, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 167 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (43 bp):
ACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCC
Found at i:189821 original size:43 final size:43
Alignment explanation
Indices: 189630--189862 Score: 141
Period size: 43 Copynumber: 5.4 Consensus size: 43
189620 CAATAGGTGT
* * * * ** * **
189630 TGAGATTTAGCGACGTTTTTCCCACAAATGCCGCAATAGGTGT
1 TGAGATATAGCGGCTTTTTTTCCACAAACACCGCAAAAGGTCA
* * * * **
189673 TGAGATTTAGCGGCGTTTTTCCCACAAACACCGCAATAGGTGT
1 TGAGATATAGCGGCTTTTTTTCCACAAACACCGCAAAAGGTCA
* * * *
189716 TGAGATTTAGCGGCGTTTTTTT-CACAAACGCCGCAATAGGTCT
1 TGAGATATAGCGGC-TTTTTTTCCACAAACACCGCAAAAGGTCA
* * * *
189759 TGAGATTTAACGGCGTTTTTTCCACAAACACCGCAAAAGATC-
1 TGAGATATAGCGGCTTTTTTTCCACAAACACCGCAAAAGGTCA
*** *
189801 T-AGTATATAGCGGCATTTTTTAGAACAAACGCCGCAAAAGGTCA
1 TGAG-ATATAGCGGC-TTTTTTTCCACAAACACCGCAAAAGGTCA
** *
189845 T-ATCTATAGCGGCGTTTT
1 TGAGATATAGCGGCTTTTT
189863 AAGATACAAA
Statistics
Matches: 162, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
41 2 0.01
42 19 0.12
43 134 0.83
44 7 0.04
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (43 bp):
TGAGATATAGCGGCTTTTTTTCCACAAACACCGCAAAAGGTCA
Found at i:189821 original size:86 final size:86
Alignment explanation
Indices: 189548--189843 Score: 292
Period size: 86 Copynumber: 3.4 Consensus size: 86
189538 AGATAACAAT
* * * * *
189548 ATATAGCGGCGTTTGTT-GGACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAAC
1 ATATAGCGGCGTTT-TTAGCACAAACGCCGCAATAGGTCTTGAGATTTAACGGCGTTTTTCCCAC
*** * * *
189612 AAACGTTGCAATAGGTGTTGAG
65 AAACACCGCAAAAGATGCTGAG
* * ** * * *
189634 ATTTAGCGACGTTTTTCCCACAAATGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCACA
1 ATATAGCGGCGTTTTTAGCACAAACGCCGCAATAGGTCTTGAGATTTAACGGCGTTTTTCCCACA
* * *
189699 AACACCGCAATAGGTGTTGAG
66 AACACCGCAAAAGATGCTGAG
* ** *
189720 ATTTAGCGGCGTTTTTTTCACAAACGCCGCAATAGGTCTTGAGATTTAACGGCGTTTTTTCCACA
1 ATATAGCGGCGTTTTTAGCACAAACGCCGCAATAGGTCTTGAGATTTAACGGCGTTTTTCCCACA
189785 AACACCGCAAAAGAT-CT-AG
66 AACACCGCAAAAGATGCTGAG
* * *
189804 TATATAGCGGCATTTTTTAGAACAAACGCCGCAAAAGGTC
1 -ATATAGCGGC-GTTTTTAGCACAAACGCCGCAATAGGTC
189844 ATATCTATAG
Statistics
Matches: 181, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
84 2 0.01
85 12 0.07
86 167 0.92
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (86 bp):
ATATAGCGGCGTTTTTAGCACAAACGCCGCAATAGGTCTTGAGATTTAACGGCGTTTTTCCCACA
AACACCGCAAAAGATGCTGAG
Found at i:189829 original size:129 final size:129
Alignment explanation
Indices: 189547--189842 Score: 330
Period size: 129 Copynumber: 2.3 Consensus size: 129
189537 TAGATAACAA
* * *
189547 TATATAGCGGCGTTTGTTGGACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAAC
1 TATATAGCGGC-TTTTTTGAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCAAC
** * * ** * * *
189612 AAACGTTGCAATAGGTGTTGAGATTTAGCGACGTTTTTCCCACAAATGCCGCAATAGGTGTTGAG
65 AAACGCCGCAATAGGTCTTGAGATTTAACGACGTTTTTCCCACAAACACCGCAAAAGATGCTGAG
* *** * *
189677 -ATTTAGCGGCGTTTTTCCCACAAACACCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTTTC-A
1 TATATAGCGGC-TTTTTTGAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCG-TTTTTCCAA
* *
189740 CAAACGCCGCAATAGGTCTTGAGATTTAACGGCGTTTTTTCCACAAACACCGCAAAAGAT-CT-A
64 CAAACGCCGCAATAGGTCTTGAGATTTAACGACGTTTTTCCCACAAACACCGCAAAAGATGCTGA
189803 G
129 G
*
189804 TATATAGCGGCATTTTTTAGAACAAACGCCGCAAAAGGT
1 TATATAGCGGC-TTTTTT-GAACAAACGCCGCAATAGGT
189843 CATATCTATA
Statistics
Matches: 137, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
127 2 0.01
128 15 0.11
129 114 0.83
130 6 0.04
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (129 bp):
TATATAGCGGCTTTTTTGAACAAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCAACA
AACGCCGCAATAGGTCTTGAGATTTAACGACGTTTTTCCCACAAACACCGCAAAAGATGCTGAG
Found at i:189872 original size:43 final size:43
Alignment explanation
Indices: 189782--189878 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
189772 CGTTTTTTCC
* * *
189782 ACAAACACCGCAAAAGATCTAGTATATAGCGGCATTTTTTAGA
1 ACAAACGCCGCAAAAGATCTAGTATATAGCGGCAGTTTTAAGA
* *
189825 ACAAACGCCGCAAAAGGTCATA-TCTATAGCGGC-GTTTTAAGA
1 ACAAACGCCGCAAAAGATC-TAGTATATAGCGGCAGTTTTAAGA
189867 TACAAACGCCGC
1 -ACAAACGCCGC
189879 TAATTACCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 7 0.15
43 38 0.81
44 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (43 bp):
ACAAACGCCGCAAAAGATCTAGTATATAGCGGCAGTTTTAAGA
Found at i:190016 original size:21 final size:21
Alignment explanation
Indices: 189990--190048 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
189980 ATTTTCCAAT
* *
189990 AAACTTTACATCCATAACAAC
1 AAACTTAAAATCCATAACAAC
*
190011 AAACTTAAAATCCATAACAAG
1 AAACTTAAAATCCATAACAAC
** *
190032 AAAAATGAAATCCATAA
1 AAACTTAAAATCCATAA
190049 TAATAAATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.56, C:0.20, G:0.03, T:0.20
Consensus pattern (21 bp):
AAACTTAAAATCCATAACAAC
Found at i:191452 original size:16 final size:16
Alignment explanation
Indices: 191389--191456 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
191379 CAACCAACAG
191389 TTCCAAACATCACAAT
1 TTCCAAACATCACAAT
*
191405 TTCC--ATATCACAAT
1 TTCCAAACATCACAAT
*
191419 TTACC--TCATC-CAACAT
1 TT-CCAAACATCAC-A-AT
191435 TTCCAAACATCACAAT
1 TTCCAAACATCACAAT
191451 TTCCAA
1 TTCCAA
191457 CAGTTCCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
14 12 0.29
15 8 0.19
16 16 0.38
17 5 0.12
18 1 0.02
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (16 bp):
TTCCAAACATCACAAT
Found at i:194353 original size:41 final size:41
Alignment explanation
Indices: 194296--194637 Score: 342
Period size: 41 Copynumber: 8.3 Consensus size: 41
194286 TGTTTGTTCA
194296 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
* * * **
194337 AAAAATGCCACGAAAGTACTAGT-CTATAAAGGCGTTTGT-T
1 AAAAACGCCACTAAAGTAC-AGTACTTTAGCGGCGTTTGTAT
194377 CAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
1 -AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
* * * *
194419 AAAAACGCAACAAAAGTACTAGT-CTATAGCGGTGTTTGT-T
1 AAAAACGCCACTAAAGTAC-AGTACTTTAGCGGCGTTTGTAT
* * *
194459 CAAAAAACGCCACTAAAGTACTAATA-TATAGCGGCGTTTGTTTT
1 --AAAAACGCCACTAAAGTAC-AGTACTTTAGCGGCGTTTG-TAT
* ** * * *
194503 GAAAACGCCACTAAAG-ATTGTATTTTGGCGGCGTTTGTAG
1 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
194543 AAAAACGCCACTAAAGTACAGT-CTTTAGCGGCGTTTGTAT
1 AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
* * *
194583 AAAAGCGCCACAAAAGTATTAGTA-TTTAGCGGCGTTTGT-T
1 AAAAACGCCACTAAAGTA-CAGTACTTTAGCGGCGTTTGTAT
194623 CAAAAAACGCCACTA
1 --AAAAACGCCACTA
194638 GAAATGCCGC
Statistics
Matches: 248, Mismatches: 37, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
40 55 0.22
41 125 0.50
42 66 0.27
43 1 0.00
44 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
Found at i:194410 original size:82 final size:83
Alignment explanation
Indices: 194272--194637 Score: 458
Period size: 82 Copynumber: 4.4 Consensus size: 83
194262 TCTGTCATTC
* *
194272 CTAGTCTATAGCAGTGTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
* *
194337 AAAAATGCCACGAAAGTA
66 AAAAACGCCACAAAAGTA
**
194355 CTAGTCTATAAAGGCGTTTGTTC-AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
*
194419 AAAAACGCAACAAAAGTA
66 AAAAACGCCACAAAAGTA
* * *
194437 CTAGTCTATAGCGGTGTTTGTTCAAAAAACGCCACTAAAGTACTAATA-TATAGCGGCGTTTGTT
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTAC-AGTACTTTAGCGGCGTTTG-T
* * *
194501 TTGAAAACGCCACTAAAG-A
64 ATAAAAACGCCACAAAAGTA
* * * *
194520 -TTGTATTTTGGCGGCGTTTG-T-AGAAAAACGCCACTAAAGTACAGT-CTTTAGCGGCGTTTGT
1 CTAGT-CTATAGCGGCGTTTGTTCA-AAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGT
*
194581 ATAAAAGCGCCACAAAAGTA
64 ATAAAAACGCCACAAAAGTA
* * *
194601 TTAGTATTTAGCGGCGTTTGTTCAAAAAACGCCACTA
1 CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTA
194638 GAAATGCCGC
Statistics
Matches: 243, Mismatches: 30, Indels: 21
0.83 0.10 0.07
Matches are distributed among these distances:
80 15 0.06
81 30 0.12
82 116 0.48
83 64 0.26
84 18 0.07
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (83 bp):
CTAGTCTATAGCGGCGTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
AAAAACGCCACAAAAGTA
Found at i:194549 original size:165 final size:164
Alignment explanation
Indices: 194272--194637 Score: 486
Period size: 165 Copynumber: 2.2 Consensus size: 164
194262 TCTGTCATTC
* * *
194272 CTAGTCTATAGCAGTGTTTGTTCAAAAAACGCCACTAAAGTACAGTACTTTAGCGGCGTTTGTAT
1 CTAGTCTATAGCGGTGTTTGTTCAAAAAACGCCACTAAAGTACAATACTATAGCGGCGTTTGTAT
* *
194337 AAAAATGCCACGAAAGTACTAGTCTATAAAGGCGTTTGTTCAAAAACGCCACTAAAGTACAGTAC
66 AAAAACGCCACGAAAGTACTAGTCTATAAAGGCGTTTGTACAAAAACGCCACTAAAGTACAGT-C
194402 TTTAGCGGCGTTTGTATAAAAACGCAACAAAAGTA
130 TTTAGCGGCGTTTGTATAAAAACGCAACAAAAGTA
194437 CTAGTCTATAGCGGTGTTTGTTCAAAAAACGCCACTAAAGTACTAATA-TATAGCGGCGTTTGTT
1 CTAGTCTATAGCGGTGTTTGTTCAAAAAACGCCACTAAAGTAC-AATACTATAGCGGCGTTTG-T
* * * * * * *** *
194501 TTGAAAACGCCACTAAAG-A-TTGTATTTTGGCGGCGTTTGTAGAAAAACGCCACTAAAGTACAG
64 ATAAAAACGCCACGAAAGTACTAGT-CTATAAAGGCGTTTGTACAAAAACGCCACTAAAGTACAG
* *
194564 TCTTTAGCGGCGTTTGTATAAAAGCGCCACAAAAGTA
128 TCTTTAGCGGCGTTTGTATAAAAACGCAACAAAAGTA
* * * *
194601 TTAGTATTTAGCGGCGTTTGTTCAAAAAACGCCACTA
1 CTAGTCTATAGCGGTGTTTGTTCAAAAAACGCCACTA
194638 GAAATGCCGC
Statistics
Matches: 177, Mismatches: 21, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
164 70 0.40
165 89 0.50
166 18 0.10
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (164 bp):
CTAGTCTATAGCGGTGTTTGTTCAAAAAACGCCACTAAAGTACAATACTATAGCGGCGTTTGTAT
AAAAACGCCACGAAAGTACTAGTCTATAAAGGCGTTTGTACAAAAACGCCACTAAAGTACAGTCT
TTAGCGGCGTTTGTATAAAAACGCAACAAAAGTA
Found at i:196884 original size:2 final size:2
Alignment explanation
Indices: 196877--196901 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
196867 TATAAAAGAA
196877 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 A
196902 CATTCTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:200703 original size:4 final size:4
Alignment explanation
Indices: 200694--200760 Score: 57
Period size: 4 Copynumber: 16.0 Consensus size: 4
200684 ACCATTCCCC
* *
200694 TAAA TAAA TAAA T-AA TATA TAAA TTAAA -ATA TAAA CTAATA CTAAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA -TAAA TAAA TAAA -TAA-A -T-AAA
200741 TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA
200761 ACATTCACAA
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
3 5 0.09
4 34 0.64
5 8 0.15
6 4 0.08
7 2 0.04
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:201501 original size:33 final size:30
Alignment explanation
Indices: 201462--201542 Score: 83
Period size: 32 Copynumber: 2.6 Consensus size: 30
201452 ATTTAGATTT
201462 AAATTTTTGAATATTTTTAATTAAACTCTCTC
1 AAATTTTT-AATATTTTTAATTAAACT-TCTC
* * *
201494 ATGATTTTTAAAATTTCTT-ATTAAGCTTCTC
1 A-AATTTTTAATATTT-TTAATTAAACTTCTC
*
201525 AAATTTTTAATATGTTTA
1 AAATTTTTAATATTTTTA
201543 GCTACTCTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
29 2 0.05
30 11 0.28
31 5 0.12
32 14 0.35
33 8 0.20
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (30 bp):
AAATTTTTAATATTTTTAATTAAACTTCTC
Found at i:202755 original size:19 final size:20
Alignment explanation
Indices: 202733--202770 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
202723 AAATTTTTGA
202733 TAAAAAATAT-ATAATTTTT
1 TAAAAAATATAATAATTTTT
*
202752 TAAAATATATAATAATTTT
1 TAAAAAATATAATAATTTT
202771 AAATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAAAAATATAATAATTTTT
Found at i:202774 original size:17 final size:17
Alignment explanation
Indices: 202736--202773 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
202726 TTTTTGATAA
*
202736 AAAATATATAATTTTTT
1 AAAATATATAATATTTT
202753 AAAATATATAATAATTTT
1 AAAATATATAAT-ATTTT
202771 AAA
1 AAA
202774 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAATATATAATATTTT
Found at i:211774 original size:20 final size:21
Alignment explanation
Indices: 211735--211775 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
211725 AAATACAAAA
211735 AAAAATTCAGTAAAACATATAT
1 AAAAATTCA-TAAAACATATAT
*
211757 AAAAATTC-TAAAATATATA
1 AAAAATTCATAAAACATATA
211776 ATAACTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATTCATAAAACATATAT
Found at i:221170 original size:49 final size:49
Alignment explanation
Indices: 221098--221201 Score: 199
Period size: 49 Copynumber: 2.1 Consensus size: 49
221088 CAATCTTCAT
221098 TGAGCATCTTGGAGAGATGGATTTCCTACCATATCCTTTCACTATCTCC
1 TGAGCATCTTGGAGAGATGGATTTCCTACCATATCCTTTCACTATCTCC
*
221147 TGAGCATCTTGGAGAGATGGATTTCCTACTATATCCTTTCACTATCTCC
1 TGAGCATCTTGGAGAGATGGATTTCCTACCATATCCTTTCACTATCTCC
221196 TGAGCA
1 TGAGCA
221202 AGAAGAGCAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 54 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (49 bp):
TGAGCATCTTGGAGAGATGGATTTCCTACCATATCCTTTCACTATCTCC
Found at i:233500 original size:24 final size:24
Alignment explanation
Indices: 233451--233500 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
233441 ACAAATAATA
* * *
233451 TATTTATATAAAATATTTATTTCT
1 TATTTATATAAAAAATGTATTGCT
233475 TATTTATATTAAAAAATGTA-TGCT
1 TATTTATA-TAAAAAATGTATTGCT
233499 TA
1 TA
233501 AATTCTATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (24 bp):
TATTTATATAAAAAATGTATTGCT
Done.