Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003454.1 Hibiscus syriacus cultivar Beakdansim tig00007302_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: 262533
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:17354 original size:31 final size:31
Alignment explanation
Indices: 17319--17395 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
17309 TTCAACGTCC
* * *
17319 AAGTGACCAAAATTTAATAAAACGATAACAT
1 AAGTGACCAAAACTTAACAAAACAATAACAT
*
17350 AAGTGACCAAAACTTAACAAAACAATAACGT
1 AAGTGACCAAAACTTAACAAAACAATAACAT
17381 AAGTGACCAAAACTT
1 AAGTGACCAAAACTT
17396 TTTTTTTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.19
Consensus pattern (31 bp):
AAGTGACCAAAACTTAACAAAACAATAACAT
Found at i:20819 original size:21 final size:21
Alignment explanation
Indices: 20764--20843 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 21
20754 GTCGAAGATG
*
20764 TATGTGGTCCTTCGTG-ACATA
1 TATGTGGTCCTTTG-GAACATA
**
20785 TATGTAATCCTTTGGAACATA
1 TATGTGGTCCTTTGGAACATA
*
20806 TATGTGGTCTTTTGAGACACATA
1 TATGTGGTCCTTTG-GA-ACATA
20829 T-T-TGGTCCTTTGGAA
1 TATGTGGTCCTTTGGAA
20844 TATGTATATG
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
19 1 0.02
20 3 0.06
21 36 0.73
22 3 0.06
23 6 0.12
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (21 bp):
TATGTGGTCCTTTGGAACATA
Found at i:20988 original size:23 final size:23
Alignment explanation
Indices: 20897--20988 Score: 130
Period size: 23 Copynumber: 4.0 Consensus size: 23
20887 ACATTTTATA
*
20897 TGGCACTCCGGTGCATTTCTACA
1 TGGCACTCCGGTGCATTTCTACG
20920 TGGCACTCCGGTGCATTTCTACG
1 TGGCACTCCGGTGCATTTCTACG
* * *
20943 CGGCACTCAGGTGTATTTCTACG
1 TGGCACTCCGGTGCATTTCTACG
* *
20966 TGGCACTTCGGTGCATTTATACG
1 TGGCACTCCGGTGCATTTCTACG
20989 AGCTGTGTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.16, C:0.27, G:0.25, T:0.32
Consensus pattern (23 bp):
TGGCACTCCGGTGCATTTCTACG
Found at i:21787 original size:23 final size:23
Alignment explanation
Indices: 21761--21804 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
21751 ATTGAACCGA
21761 AGTGCCACGTAGAATTGCACCAG
1 AGTGCCACGTAGAATTGCACCAG
*
21784 AGTGCCGCGTAGAATTGCACC
1 AGTGCCACGTAGAATTGCACC
21805 GTAATGCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (23 bp):
AGTGCCACGTAGAATTGCACCAG
Found at i:21812 original size:23 final size:22
Alignment explanation
Indices: 21750--21813 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
21740 CAGCTCATAT
*
21750 AATTGAACCGAAGTGCCACGTAG
1 AATTGCACCGAA-TGCCACGTAG
* *
21773 AATTGCACCAGAGTGCCGCGTAG
1 AATTGCACC-GAATGCCACGTAG
21796 AATTGCACCGTAATGCCA
1 AATTGCACCG-AATGCCA
21814 TATAATAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
22 1 0.03
23 31 0.91
24 2 0.06
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (22 bp):
AATTGCACCGAATGCCACGTAG
Found at i:22064 original size:30 final size:30
Alignment explanation
Indices: 22023--22091 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
22013 ATATAATTTG
* * *
22023 TATCACGTAGACATATTATTTTCC-TACCTT
1 TATCACATAGACATATCA-TTTCCATACATT
*
22053 TATCACATAGACATGTCATTTCCATACATT
1 TATCACATAGACATATCATTTCCATACATT
22083 TATCACATA
1 TATCACATA
22092 ACTCATATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (30 bp):
TATCACATAGACATATCATTTCCATACATT
Found at i:23320 original size:38 final size:43
Alignment explanation
Indices: 23235--23332 Score: 116
Period size: 43 Copynumber: 2.3 Consensus size: 43
23225 TATAAAATCT
**
23235 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTATCCATATA
1 CTTACCATTTAT-TAATAAGCTCGTAAGCTTATTTTATCCA-ATA
*
23280 CTTGCCA-TTATTAATAAGCTCGTAAGCTTA-TTT-T-C-ATA
1 CTTACCATTTATTAATAAGCTCGTAAGCTTATTTTATCCAATA
23318 CTTACCATTTATTAA
1 CTTACCATTTATTAA
23333 CCAATAACCA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
38 9 0.19
39 7 0.15
40 1 0.02
41 1 0.02
42 3 0.06
43 17 0.35
44 4 0.08
45 6 0.12
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (43 bp):
CTTACCATTTATTAATAAGCTCGTAAGCTTATTTTATCCAATA
Found at i:30712 original size:64 final size:64
Alignment explanation
Indices: 30576--30715 Score: 167
Period size: 63 Copynumber: 2.2 Consensus size: 64
30566 TGGAGGTATT
* ** *
30576 CATCGATGCACTACACCATGCATCGATGCATAAATCATATTCGATGTTTGTATTTAATGGGGTG
1 CATCGATGCACTACACCATGCATCGATGCATAAATCACATTCGATGTTTGTATTTAAAAGAGTG
* * * **
30640 CATTGATGCACT-C-CTTATGCATCGATGCATCAATGGCATTCGATGTTTGTATTTTAAAAGAGT
1 CATCGATGCACTACAC-CATGCATCGATGCATAAATCACATTCGATGTTTGTA-TTTAAAAGAGT
30703 G
64 G
30704 CATCGATGCACT
1 CATCGATGCACT
30716 TCATGTGCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
62 1 0.02
63 32 0.50
64 31 0.48
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (64 bp):
CATCGATGCACTACACCATGCATCGATGCATAAATCACATTCGATGTTTGTATTTAAAAGAGTG
Found at i:55067 original size:20 final size:21
Alignment explanation
Indices: 55033--55079 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
55023 ATTAGCAACA
*
55033 TAATAAAAAACTGATTCTATC
1 TAATAAAAAACTGATCCTATC
*
55054 TAATTAAAAA-TGATCCTATC
1 TAATAAAAAACTGATCCTATC
55074 TAATAA
1 TAATAA
55080 CTAATAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (21 bp):
TAATAAAAAACTGATCCTATC
Found at i:55116 original size:20 final size:20
Alignment explanation
Indices: 55091--55129 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
55081 TAATAGAATA
*
55091 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
55111 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
55130 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:59729 original size:20 final size:21
Alignment explanation
Indices: 59695--59741 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
59685 ATTAGCAACA
*
59695 TAATAAAAAACTGATTCTATC
1 TAATAAAAAACTGATCCTATC
*
59716 TAATTAAAAA-TGATCCTATC
1 TAATAAAAAACTGATCCTATC
59736 TAATAA
1 TAATAA
59742 CTAATAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (21 bp):
TAATAAAAAACTGATCCTATC
Found at i:59778 original size:20 final size:20
Alignment explanation
Indices: 59753--59791 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
59743 TAATAGAATA
*
59753 AAAACTGATTCTATCTAATT
1 AAAACTGATCCTATCTAATT
59773 AAAACTGATCCTATCTAAT
1 AAAACTGATCCTATCTAAT
59792 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
AAAACTGATCCTATCTAATT
Found at i:62090 original size:29 final size:27
Alignment explanation
Indices: 62056--62110 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
62046 AGATTATATT
62056 ATTTTATTAAAATTTTAAATTTTTAAATA
1 ATTTTATT-AAATTTTAAA-TTTTAAATA
* *
62085 ATTTTATTATATTTTTAATTTTAAAT
1 ATTTTATTAAATTTTAAATTTTAAAT
62111 TATATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.33
28 8 0.33
29 8 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
ATTTTATTAAATTTTAAATTTTAAATA
Found at i:62295 original size:26 final size:27
Alignment explanation
Indices: 62231--62297 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
62221 TGATTGGTGG
*
62231 TAAAATTAGAAAATGATTTATAAAAAAT
1 TAAAA-TAAAAAATGATTTATAAAAAAT
*
62259 TAAAATAAAAAATGATTTCTAAAAAAT
1 TAAAATAAAAAATGATTTATAAAAAAT
* *
62286 AAAAACAAAAAA
1 TAAAATAAAAAA
62298 AATGAAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
27 30 0.86
28 5 0.14
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.25
Consensus pattern (27 bp):
TAAAATAAAAAATGATTTATAAAAAAT
Found at i:62679 original size:30 final size:30
Alignment explanation
Indices: 62645--62704 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
62635 TTAAATAAGT
*
62645 CCTCAAACTTTA-TAAAAAAATTAATTAAAC
1 CCTCAAAC-TTAGTAAAAAAATCAATTAAAC
*
62675 CCTCAAACTTAGTAAAAAAGTCAATTAAAC
1 CCTCAAACTTAGTAAAAAAATCAATTAAAC
62705 TCATTTACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 3 0.11
30 24 0.89
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.27
Consensus pattern (30 bp):
CCTCAAACTTAGTAAAAAAATCAATTAAAC
Found at i:64715 original size:35 final size:35
Alignment explanation
Indices: 64669--64780 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 35
64659 AAAACATTCC
*
64669 TCAATTTCATTCTAAACCCCAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
64704 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* * * * *
64739 TCAATTACATTTTAAAACCCAAATTCTAAAATATT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
64774 TTAATTT
1 TCAATTT
64781 AAGGATGAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:65888 original size:35 final size:34
Alignment explanation
Indices: 65839--65951 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
65829 AAAAAAGACA
* *
65839 GAAATTGAAGTATTTTAGAATTTGGGCTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTGGG-TTTAGAAT
*
65874 GTAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTT-GGGTTTAGAAT
*
65909 GAAATTGAATTACTTTGGAATTTGTGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTG-GGTTTAGAAT
65944 GAAATTGA
1 GAAATTGA
65952 GGATTGTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 67 0.94
36 3 0.04
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.42
Consensus pattern (34 bp):
GAAATTGAATTATTTTGGAATTTGGGTTTAGAAT
Found at i:71014 original size:55 final size:55
Alignment explanation
Indices: 70899--71165 Score: 313
Period size: 55 Copynumber: 4.9 Consensus size: 55
70889 ATACGAGAAT
* ** * * * * *
70899 TCATCAAC-CTATGATGAATTCTGTGGGT-TGTACACATAGTGCATGTACTGTGAT
1 TCATCAACTC-ATGATGAATTCCGTGAATATGCACACAAAGTGCCTGTACGGTGAC
* * *
70953 TCATCAACTCATGATGAATTCCGTGAATATGCATACAAAGTACCTGTACGGTGAT
1 TCATCAACTCATGATGAATTCCGTGAATATGCACACAAAGTGCCTGTACGGTGAC
*
71008 TCATCAACTCATTATGAATTCCGTGAATATGCACACAAAGTGCCTGTACGGTGAC
1 TCATCAACTCATGATGAATTCCGTGAATATGCACACAAAGTGCCTGTACGGTGAC
* * * * * *
71063 TCATCAACTCATGATGATTTTCGAGAATATGCACACAAAATGCATGTACGGCGAC
1 TCATCAACTCATGATGAATTCCGTGAATATGCACACAAAGTGCCTGTACGGTGAC
** * *
71118 TCATCAACTTTTGATAAATTTCGTGAATATGCACACAAAGTGCCTGTA
1 TCATCAACTCATGATGAATTCCGTGAATATGCACACAAAGTGCCTGTA
71166 GTACACATAA
Statistics
Matches: 184, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
54 23 0.12
55 161 0.88
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (55 bp):
TCATCAACTCATGATGAATTCCGTGAATATGCACACAAAGTGCCTGTACGGTGAC
Found at i:74358 original size:20 final size:20
Alignment explanation
Indices: 74335--74372 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
74325 GAACCCCAGG
*
74335 GGGGGTATCGATTCCCCTGT
1 GGGGGAATCGATTCCCCTGT
*
74355 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
74373 TCAAATGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCCTGT
Found at i:74407 original size:20 final size:21
Alignment explanation
Indices: 74355--74415 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
74345 ATTCCCCTGT
74355 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
*
74378 TGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
74398 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
74416 TGCACTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 12 0.35
ACGTcount: A:0.18, C:0.26, G:0.33, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:87260 original size:55 final size:56
Alignment explanation
Indices: 87185--87791 Score: 543
Period size: 55 Copynumber: 11.0 Consensus size: 56
87175 TAAGTGAGAT
*
87185 TTGAAA-AATCTTCAGAAAAATGGGTTCGCT-CCTATTCTTTCAGGGAGTATAGGAC
1 TTGAAACAATCTTCAG-AAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGGAC
* * * * *
87240 TTGAAATAATCTTCATAAAATGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGAAC
1 TTGAAACAATCTTCAGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGGAC
* * * * * * * *
87296 -TCAAACAATCTTCGGCAAACGGGTCCACTCCCTTTTCTTTCAAGGAGTATATGAC
1 TTGAAACAATCTTCAGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGGAC
* * * *
87351 TTG-AACAATCTTCAGAAAATGTG-TCTGCTCCCTATTTTTTCAGGGAGTATAGGGC
1 TTGAAACAATCTTCAGAAAACGGGTTC-GCTCCCTATTCTTTCAGGGAGTATAGGAC
* ** *
87406 TTG-ATCAATCTTTGGAAAAAGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGGAC
1 TTGAAACAATCTTCAGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGGAC
* * * * * *
87461 -TCAAACAATCTT-ATGCAAACGTG-TCTACTCCTTATTCTTTTAGGGAGTATAGGAC
1 TTGAAACAATCTTCA-GAAAACGGGTTC-GCTCCCTATTCTTTCAGGGAGTATAGGAC
* ** * *
87516 TCG-AACAATCTTCA-ACAAACGTATCCGATCCCTATTCTTTCAGGGAGTATAGGAC
1 TTGAAACAATCTTCAGA-AAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGGAC
* * * * * * *
87571 -TCAAACAATTTTCA-ACAAACGTGTCCGTTCCCTATTCTTTCAGGGAATATATGAC
1 TTGAAACAATCTTCAGA-AAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGGAC
* * *
87626 TT-AAACAATCTTCGGAAAACGGGTAT-ACTCCCTATTCTTTTAGGGAGTATAGGAC
1 TTGAAACAATCTTCAGAAAACGGGT-TCGCTCCCTATTCTTTCAGGGAGTATAGGAC
* * * *
87681 TTG-ATCAATCATT-GGAAAACGGGTCCGTTCCCTATTCTTTCAGGGAGTATAGGAC
1 TTGAAACAATC-TTCAGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGGAC
* *
87736 TTG-AACAATCTTCA-ATAAACGTG-TCTGCTCCCTATTCTTTCAGGGAGTAAAGGAC
1 TTGAAACAATCTTCAGA-AAACGGGTTC-GCTCCCTATTCTTTCAGGGAGTATAGGAC
87791 T
1 T
87792 CGATCTTGAT
Statistics
Matches: 452, Mismatches: 78, Indels: 44
0.79 0.14 0.08
Matches are distributed among these distances:
54 8 0.02
55 403 0.89
56 41 0.09
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (56 bp):
TTGAAACAATCTTCAGAAAACGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGGAC
Found at i:87394 original size:110 final size:110
Alignment explanation
Indices: 87215--87791 Score: 599
Period size: 110 Copynumber: 5.2 Consensus size: 110
87205 TGGGTTCGCT
* * * *
87215 CCTATTCTTTCAGGGAGTATAGGACTTGAAATAATCTTCATAAAATGGGTCCGCTCCCTATTCTT
1 CCTATTCTTTCAGGGAGTATAGGACTTG-AACAATCTTCAGAAAACGTGTCCGCTCCCTATTCTT
* ** *
87280 TCAGGGAGTATAGAACTCAAACAATCTTCGGCAAACGGGTCCACTC
65 TCAGGGAGTATAGGACTTGAACAATCTTCGGAAAACGGGTCCACTC
* * * * * *
87326 CCTTTTCTTTCAAGGAGTATATGACTTGAACAATCTTCAGAAAATGTGTCTGCTCCCTATTTTTT
1 CCTATTCTTTCAGGGAGTATAGGACTTGAACAATCTTCAGAAAACGTGTCCGCTCCCTATTCTTT
* * * * * *
87391 CAGGGAGTATAGGGCTTGATCAATCTTTGGAAAAAGGGTTCGCTC
66 CAGGGAGTATAGGACTTGAACAATCTTCGGAAAACGGGTCCACTC
** * ** *
87436 CCTATTCTTTCAGGGAGTATAGGACTCAAACAATCTT-ATGCAAACGTGTCTACTCCTTATTCTT
1 CCTATTCTTTCAGGGAGTATAGGACTTGAACAATCTTCA-GAAAACGTGTCCGCTCCCTATTCTT
* * * **
87500 TTAGGGAGTATAGGACTCGAACAATCTTC-AACAAACGTATCCGA-TC
65 TCAGGGAGTATAGGACTTGAACAATCTTCGGA-AAACGGGTCC-ACTC
** * *
87546 CCTATTCTTTCAGGGAGTATAGGACTCAAACAATTTTCA-ACAAACGTGTCCGTTCCCTATTCTT
1 CCTATTCTTTCAGGGAGTATAGGACTTGAACAATCTTCAGA-AAACGTGTCCGCTCCCTATTCTT
* * * **
87610 TCAGGGAATATATGACTTAAACAATCTTCGGAAAACGGGTATACTC
65 TCAGGGAGTATAGGACTTGAACAATCTTCGGAAAACGGGTCCACTC
* * * * *
87656 CCTATTCTTTTAGGGAGTATAGGACTTGATCAATCATT-GGAAAACGGGTCCGTTCCCTATTCTT
1 CCTATTCTTTCAGGGAGTATAGGACTTGAACAATC-TTCAGAAAACGTGTCCGCTCCCTATTCTT
* * **
87720 TCAGGGAGTATAGGACTTGAACAATCTTC-AATAAACGTGTCTGCTC
65 TCAGGGAGTATAGGACTTGAACAATCTTCGGA-AAACGGGTCCACTC
*
87766 CCTATTCTTTCAGGGAGTAAAGGACT
1 CCTATTCTTTCAGGGAGTATAGGACT
87792 CGATCTTGAT
Statistics
Matches: 385, Mismatches: 71, Indels: 21
0.81 0.15 0.04
Matches are distributed among these distances:
109 4 0.01
110 351 0.91
111 30 0.08
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (110 bp):
CCTATTCTTTCAGGGAGTATAGGACTTGAACAATCTTCAGAAAACGTGTCCGCTCCCTATTCTTT
CAGGGAGTATAGGACTTGAACAATCTTCGGAAAACGGGTCCACTC
Found at i:87465 original size:165 final size:165
Alignment explanation
Indices: 87185--87792 Score: 694
Period size: 165 Copynumber: 3.7 Consensus size: 165
87175 TAAGTGAGAT
* * * *
87185 TTGAAAAATCTTCAGAAAAATGGGTTCGCT-CCTATTCTTTCAGGGAGTATAGGACTTGAAATAA
1 TTGAACAATCTTCAG-AAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTTG-AACAA
*
87249 TC-TTCATA-AAATGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGAACTCAAACAATCTTCGGC
64 TCTTTCA-ACAAA-GGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCAAACAATCTTCGGC
* * * *
87312 AAACGGGTCCACTCCCTTTTCTTTCAAGGAGTATATGAC
127 AAACGGGTCTACTCCCTTTTCTTTTAGGGAGTATAGGAC
* * * * * *
87351 TTGAACAATCTTCAGAAAATGTGTCTGCTCCCTATTTTTTCAGGGAGTATAGGGCTTGATCAATC
1 TTGAACAATCTTCAGAAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTTGAACAATC
* * **
87416 TTTGGAA-AAAGGGTTCGCTCCCTATTCTTTCAGGGAGTATAGGACTCAAACAATCTTATGCAAA
66 TTT-CAACAAAGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCAAACAATCTTCGGCAAA
*
87480 CGTGTCTACT-CCTTATTCTTTTAGGGAGTATAGGAC
130 CGGGTCTACTCCCTT-TTCTTTTAGGGAGTATAGGAC
* ** * **
87516 TCGAACAATCTTCA-ACAAACGTATCCGATCCCTATTCTTTCAGGGAGTATAGGACTCAAACAAT
1 TTGAACAATCTTCAGA-AAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTTGAACAAT
* * * * * *
87580 -TTTCAACAAACGTGTCCGTTCCCTATTCTTTCAGGGAATATATGACTTAAACAATCTTCGGAAA
65 CTTTCAACAAA-GGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCAAACAATCTTCGGCAA
* *
87644 ACGGGTATACTCCCTATTCTTTTAGGGAGTATAGGAC
129 ACGGGTCTACTCCCTTTTCTTTTAGGGAGTATAGGAC
* * *
87681 TTGATCAATCATT-GGAAAACGGGTCCGTTCCCTATTCTTTCAGGGAGTATAGGACTTGAACAAT
1 TTGAACAATC-TTCAGAAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTTGAACAAT
* * * *
87745 C-TTCAATAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAAAGGACTC
65 CTTTCAACAAA-GGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTC
87793 GATCTTGATT
Statistics
Matches: 375, Mismatches: 56, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
163 2 0.01
164 11 0.03
165 309 0.82
166 52 0.14
167 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (165 bp):
TTGAACAATCTTCAGAAAACGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTTGAACAATC
TTTCAACAAAGGGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCAAACAATCTTCGGCAAAC
GGGTCTACTCCCTTTTCTTTTAGGGAGTATAGGAC
Found at i:87929 original size:73 final size:73
Alignment explanation
Indices: 87798--88058 Score: 219
Period size: 73 Copynumber: 3.5 Consensus size: 73
87788 GACTCGATCT
* *
87798 TGATTTGCTTGACTACTCTTCAGTGAAGGTTTATAGATGATTCGCTTCACTACTCTTCCGTGAAG
1 TGATTTGCTTCACTACTCTTCAGTGAAGGCTTATAGATGATTCGCTTCACTACTCTTCCGTGAAG
87863 GCTTATAGA
66 GCTTA-AGA
* **
87872 TGATTTGCTTCACTACTATTTC-GTGAAGGCTTA-AGATGATTTTCTTCACTACTCTTCCGTGAA
1 TGATTTGCTTCACTACT-CTTCAGTGAAGGCTTATAGATGATTCGCTTCACTACTCTTCCGTGAA
87935 GGCTTAAGA
65 GGCTTAAGA
** * **** * * * *
87944 TGGCTCGGAGGACTTATCATCTTGC-TTGGAAGCCTTACT-GATGGCTT-GCTTTACTACTCTTC
1 TGATTTGCTTCAC-TA-C-TCTT-CAGT-GAAGGCTTA-TAGAT-GATTCGCTTCACTACTCTTC
88006 CGTGAAGGCTTAAGA
59 CGTGAAGGCTTAAGA
* * *
88021 TTGATTTGTTTCACTACTCTTCCGTGAAGGTTTA-AGAT
1 -TGATTTGCTTCACTACTCTTCAGTGAAGGCTTATAGAT
88059 TGACTTGCCT
Statistics
Matches: 147, Mismatches: 28, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
72 9 0.06
73 39 0.27
74 37 0.25
75 11 0.07
76 9 0.06
77 33 0.22
78 9 0.06
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (73 bp):
TGATTTGCTTCACTACTCTTCAGTGAAGGCTTATAGATGATTCGCTTCACTACTCTTCCGTGAAG
GCTTAAGA
Found at i:88061 original size:37 final size:36
Alignment explanation
Indices: 87798--88058 Score: 243
Period size: 37 Copynumber: 7.0 Consensus size: 36
87788 GACTCGATCT
* * *
87798 TGATTTGCTTGACTACTCTTCAGTGAAGGTTTATAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTA-AGA
*
87835 TGATTCGCTTCACTACTCTTCCGTGAAGGCTTATAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTA-AGA
* *
87872 TGATTTGCTTCACTACTATTTCGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
*
87908 TGATTTTCTTCACTACTCTTCCGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
** * **** * * * *
87944 TGGCTCGGAGGACTTATCATCTTGCTTGGAAGCCTTACTGA
1 TGATTTGCTTCAC-TA-C-TCTTCCGT-GAAGGCTTA-AGA
** *
87985 TGGCTTGCTTTACTACTCTTCCGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
* *
88021 TTGATTTGTTTCACTACTCTTCCGTGAAGGTTTAAGA
1 -TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
88058 T
1 T
88059 TGACTTGCCT
Statistics
Matches: 182, Mismatches: 36, Indels: 13
0.79 0.16 0.06
Matches are distributed among these distances:
36 44 0.24
37 104 0.57
38 7 0.04
39 7 0.04
40 10 0.05
41 10 0.05
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (36 bp):
TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
Found at i:89998 original size:19 final size:19
Alignment explanation
Indices: 89974--90025 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
89964 ATACTCAAAA
*
89974 AATATTATTTT-ATTTATTT
1 AATATTATTTTAATAT-TTT
* *
89993 AATATTAATATAATATTTT
1 AATATTATTTTAATATTTT
90012 AATATTATTTTAAT
1 AATATTATTTTAAT
90026 GAAAATATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 24 0.89
20 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AATATTATTTTAATATTTT
Found at i:90207 original size:27 final size:26
Alignment explanation
Indices: 90134--90212 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
90124 TAATTTATAA
*
90134 TAAATTATTAAT-ATAGTTAATATTAT
1 TAAATTATTAATAATA-ATAATATTAT
*
90160 CTATTAATTTTTAA-AAT-ATAATATTAT
1 -TA--AATTATTAATAATAATAATATTAT
90187 TAAATTATTAATAATGAATAATATTA
1 TAAATTATTAATAAT-AATAATATTA
90213 ATTTATACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
24 8 0.19
25 3 0.07
26 2 0.05
27 20 0.47
29 10 0.23
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (26 bp):
TAAATTATTAATAATAATAATATTAT
Found at i:90243 original size:19 final size:19
Alignment explanation
Indices: 90205--90250 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
90195 TAATAATGAA
*
90205 TAATATTAATTTATACATT
1 TAATATTAATTAATACATT
90224 TAATATTAATATAATA-ATT
1 TAATATTAAT-TAATACATT
*
90243 TAGTATTA
1 TAATATTA
90251 TGTTAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TAATATTAATTAATACATT
Found at i:90593 original size:30 final size:30
Alignment explanation
Indices: 90552--90610 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
90542 ACAGTTATAG
*
90552 GTAATTTATTTTACGTAAAATAATTTTCAT
1 GTAATTCATTTTACGTAAAATAATTTTCAT
* * *
90582 GTAATTCATTTTACTTAAATTATTTTTCA
1 GTAATTCATTTTACGTAAAATAATTTTCA
90611 GAAAACCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.53
Consensus pattern (30 bp):
GTAATTCATTTTACGTAAAATAATTTTCAT
Found at i:91162 original size:60 final size:61
Alignment explanation
Indices: 91091--91217 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 61
91081 AATAATATAT
* *
91091 TATATTATATTTTA-AATTAATAATGTATAATAAATTATTAAT-AT-AATTAATATTATATATTA
1 TATATTAT-TTTTATAAAT-ATAATAT-TAATAAATTATTAATAATGAA-TAATATTATATATTA
*
91153 TATATTATTTTTATAAATATAATATTATTAAATTATTAATAATGAATAATATTA-AT-TTA
1 TATATTATTTTTATAAATATAATATTAATAAATTATTAATAATGAATAATATTATATATTA
91212 TATATT
1 TATATT
91218 TAATATTAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
59 9 0.15
60 16 0.27
61 21 0.36
62 13 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (61 bp):
TATATTATTTTTATAAATATAATATTAATAAATTATTAATAATGAATAATATTATATATTA
Found at i:91235 original size:60 final size:60
Alignment explanation
Indices: 91091--91233 Score: 143
Period size: 62 Copynumber: 2.3 Consensus size: 60
91081 AATAATATAT
*
91091 TATATTATATT-TTAAAT-TAATAATGTATAATAAATTATTAATATAATTAATATTATATATTA
1 TATATTATATTAATAAATATAAT-AT-TAT--TAAATTATTAATATAATTAATATTATATATTA
* *
91153 TATATTATTTTTATAAATATAATATTATTAAATTATTAATAATGAA-TAATATTA-AT-TTA
1 TATATTATATTAATAAATATAATATTATTAAATTATTAAT-AT-AATTAATATTATATATTA
91212 TATATTTAATATTAATATAATA
1 TATA-TT-ATATTAATA-AATA
91234 ATTTAGTATT
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
59 7 0.10
60 16 0.23
61 17 0.24
62 19 0.27
63 7 0.10
64 4 0.06
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.50
Consensus pattern (60 bp):
TATATTATATTAATAAATATAATATTATTAAATTATTAATATAATTAATATTATATATTA
Found at i:91237 original size:19 final size:20
Alignment explanation
Indices: 91126--91244 Score: 69
Period size: 19 Copynumber: 6.2 Consensus size: 20
91116 TATAATAAAT
91126 TATTAATATAATTAATATTATA
1 TATTAATATAA-TAATATTA-A
**
91148 TATT-ATAT-AT--TATTTT
1 TATTAATATAATAATATTAA
* *
91164 TATAAATATAATATTATTAA
1 TATTAATATAATAATATTAA
*
91184 -ATT-AT-TAATAATGAATAA
1 TATTAATATAATAAT-ATTAA
*
91202 TATTAAT-TTAT-ATATTTAA
1 TATTAATATAATAATA-TTAA
*
91221 TATTAATATAATAAT-TTAG
1 TATTAATATAATAATATTAA
91240 TATTA
1 TATTA
91245 TGTTAATAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
16 3 0.04
17 14 0.19
18 9 0.12
19 26 0.35
20 13 0.17
21 6 0.08
22 4 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TATTAATATAATAATATTAA
Found at i:91251 original size:30 final size:27
Alignment explanation
Indices: 91205--91266 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
91195 TGAATAATAT
*
91205 TAATTTATATATTTAATATTAATA-TAA
1 TAATTTATATATTTAATA-AAATACTAA
91232 TAATTTAGTATTATGTTAATAAAATACTAA
1 TAATTTA-TA-TAT-TTAATAAAATACTAA
91262 TAATT
1 TAATT
91267 AAAATTAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 7 0.23
28 2 0.07
29 7 0.23
30 14 0.47
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (27 bp):
TAATTTATATATTTAATAAAATACTAA
Found at i:91569 original size:30 final size:31
Alignment explanation
Indices: 91534--91596 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
91524 AGTTCTAGGT
*
91534 AATTCATTTTACATAAAATAG-TTTTCATGA
1 AATTCATTTTACATAAAACAGTTTTTCATGA
*
91564 AATTCATTTTACGTAAAACAGTTTTTCATGA
1 AATTCATTTTACATAAAACAGTTTTTCATGA
91595 AA
1 AA
91597 ACTGTTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (31 bp):
AATTCATTTTACATAAAACAGTTTTTCATGA
Found at i:92803 original size:61 final size:63
Alignment explanation
Indices: 92693--92810 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 63
92683 TTGGGTAGTA
* * * *
92693 CTCGACTCGTACTCGTTAAACAATTTTGCTGCTCGACTCTATTCGTTGCTCGTTAAAATTGTG
1 CTCGACTCGTACTCGTTAAACAATATTGCTGCTCAACTCGACTCGTTGCTCGTTAAAATTGTG
* * *
92756 CTCGACTCGTGCTTGTTAAA-AA-ATTGCTGCTTAACTCGACTCGTTGCTCGTTAAA
1 CTCGACTCGTACTCGTTAAACAATATTGCTGCTCAACTCGACTCGTTGCTCGTTAAA
92811 CTCGACTCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
61 28 0.58
62 2 0.04
63 18 0.38
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (63 bp):
CTCGACTCGTACTCGTTAAACAATATTGCTGCTCAACTCGACTCGTTGCTCGTTAAAATTGTG
Found at i:92814 original size:21 final size:21
Alignment explanation
Indices: 92788--92830 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
92778 ATTGCTGCTT
92788 AACTCGACTCGTTGCTCGTTA
1 AACTCGACTCGTTGCTCGTTA
92809 AACTCGACTCGTTGCTCGTTA
1 AACTCGACTCGTTGCTCGTTA
92830 A
1 A
92831 GCTCACTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.28, G:0.19, T:0.33
Consensus pattern (21 bp):
AACTCGACTCGTTGCTCGTTA
Found at i:93868 original size:12 final size:12
Alignment explanation
Indices: 93851--93901 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
93841 TTCAAAAAGG
93851 TTTTATATTTAA
1 TTTTATATTTAA
93863 TTTTATA-TTATA
1 TTTTATATTTA-A
*
93875 TTTGAT-TTTAA
1 TTTTATATTTAA
93886 TTTTA-ATATTAA
1 TTTTATAT-TTAA
93898 TTTT
1 TTTT
93902 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:93917 original size:24 final size:27
Alignment explanation
Indices: 93884--93953 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 27
93874 ATTTGATTTT
*
93884 AATTTTAATATTAATTTTTTAA-A-TA
1 AATTATAATATTAATTTTTTAATATTA
*
93909 AATTA-AATATTATTTTTTTAATATTA
1 AATTATAATATTAATTTTTTAATATTA
*
93935 TATTATAGATATTAATTTT
1 AATTATA-ATATTAATTTT
93954 AATACTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 15 0.41
25 5 0.14
26 6 0.16
27 1 0.03
28 10 0.27
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (27 bp):
AATTATAATATTAATTTTTTAATATTA
Found at i:93963 original size:64 final size:64
Alignment explanation
Indices: 93863--94020 Score: 241
Period size: 64 Copynumber: 2.5 Consensus size: 64
93853 TTATATTTAA
* * *
93863 TTTT-ATATTATATT-T-GATTTTAATTTTAATATTAATTTTTTAAATAAATTAAATATTATTT
1 TTTTAATATTATATTATAGATATTAATTTTAATACTAATTTTTTAAATAAATTAAATATTAATT
93924 TTTTAATATTATATTATAGATATTAATTTTAATACTAATTTTTTAAATAAATTAAATATTAATT
1 TTTTAATATTATATTATAGATATTAATTTTAATACTAATTTTTTAAATAAATTAAATATTAATT
*
93988 TTTTAATATTTATAGTATAGATATTTAATTTTA
1 TTTTAATA-TTATATTATAGATA-TTAATTTTA
94021 TATCATATAA
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
61 4 0.05
62 10 0.11
63 1 0.01
64 51 0.58
65 13 0.15
66 9 0.10
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.57
Consensus pattern (64 bp):
TTTTAATATTATATTATAGATATTAATTTTAATACTAATTTTTTAAATAAATTAAATATTAATT
Found at i:93964 original size:12 final size:12
Alignment explanation
Indices: 93859--93965 Score: 60
Period size: 12 Copynumber: 8.7 Consensus size: 12
93849 GGTTTTATAT
93859 TTAATTTT-ATA
1 TTAATTTTAATA
* *
93870 TT-ATATTTGATT
1 TTAAT-TTTAATA
93882 TTAATTTTAATA
1 TTAATTTTAATA
93894 TTAATTTTTTAA-A
1 TTAA--TTTTAATA
* *
93907 -TAAATTAAATA
1 TTAATTTTAATA
*
93918 TTATTTTTTTAATA
1 TTA--ATTTTAATA
*
93932 TTATATTATAGATA
1 TTA-ATTTTA-ATA
93946 TTAATTTTAATA
1 TTAATTTTAATA
*
93958 CTAATTTT
1 TTAATTTT
93966 TTAAATAAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 19
0.70 0.11 0.18
Matches are distributed among these distances:
10 6 0.08
11 6 0.08
12 28 0.38
13 13 0.18
14 21 0.28
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:94075 original size:20 final size:19
Alignment explanation
Indices: 94015--94076 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
94005 TAGATATTTA
*
94015 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
94034 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
94052 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
94072 ATTTT
1 ATTTT
94077 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:101711 original size:240 final size:244
Alignment explanation
Indices: 101281--101759 Score: 759
Period size: 240 Copynumber: 2.0 Consensus size: 244
101271 CAGTACTGAA
*
101281 TAGGGTAGGTTATTTCTTGAATGCTTTTGTTTTTGAAGATTGGAGCAGATGGACATCTGTAGCTA
1 TAGGGTAGGTTATTTCTTGAATGCTTTTGTTTTCGAAGATTGGAGCAGATGGACATCTGTAGCTA
101346 TGTTACTTCTCAATTCTCATTTGTTTTAAAGTACAAGTGTCCAACAAATATCTGAAGGACATGTA
66 TGTTACTTCTCAA-T-T-ATTTGTTTTAAAGTACAAGTGTCCAACAAATATCTGAAGGACATGTA
* * * *
101411 CGCGTGTCCAAAATATAACCAAAAACTTTGAAACAATTGATGCGCCTTATCTCACACTCCTTGCT
128 CACGTGTCCAAAATATAACCAAAAACTTTGAAACAATCGATGCACCTTATCTCACACTCCTAGCT
* *
101476 GCATAATTTGTAATTTACTTCATTTTCATGCATTGAATTGTTCACTTTCAAC
193 GCATAATTTCTAATTTACTTCACTTTCATGCATTGAATTGTTCACTTTCAAC
* * *
101528 TAGGGTAGGTTCTTTCTTGAATTCTTTTGTTTTCGGAGATTGGAGCAGATGGACATCTGTAGCTA
1 TAGGGTAGGTTATTTCTTGAATGCTTTTGTTTTCGAAGATTGGAGCAGATGGACATCTGTAGCTA
* * * *
101593 TGTTACTTCTCAA-T-TTT-TTTT-AATTACAAGTGTCCAACAAATATTTGAAGGACATGTATAT
66 TGTTACTTCTCAATTATTTGTTTTAAAGTACAAGTGTCCAACAAATATCTGAAGGACATGTACAC
*
101654 GTGTCCAAAATATAACCAGAAACTTTGAAACAATCGATGCACCTTATCTCACACTCCTAGCTGCA
131 GTGTCCAAAATATAACCAAAAACTTTGAAACAATCGATGCACCTTATCTCACACTCCTAGCTGCA
*
101719 TAATTTCTAATTTACTTCACTTTCATGCATTGAATTTTTCA
196 TAATTTCTAATTTACTTCACTTTCATGCATTGAATTGTTCA
101760 TGTTATACTG
Statistics
Matches: 216, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
240 134 0.62
241 4 0.02
242 3 0.01
244 1 0.00
247 74 0.34
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (244 bp):
TAGGGTAGGTTATTTCTTGAATGCTTTTGTTTTCGAAGATTGGAGCAGATGGACATCTGTAGCTA
TGTTACTTCTCAATTATTTGTTTTAAAGTACAAGTGTCCAACAAATATCTGAAGGACATGTACAC
GTGTCCAAAATATAACCAAAAACTTTGAAACAATCGATGCACCTTATCTCACACTCCTAGCTGCA
TAATTTCTAATTTACTTCACTTTCATGCATTGAATTGTTCACTTTCAAC
Found at i:106640 original size:19 final size:21
Alignment explanation
Indices: 106618--106657 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
106608 TTTGGGAAAA
106618 ATCGG-TTTTTTTT-AACCGG
1 ATCGGATTTTTTTTAAACCGG
106637 ATCGGATTTTTTTTAAACCGG
1 ATCGGATTTTTTTTAAACCGG
106658 TTATTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (21 bp):
ATCGGATTTTTTTTAAACCGG
Found at i:106729 original size:15 final size:13
Alignment explanation
Indices: 106708--106748 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
106698 TTTTACCGGA
106708 TAAAAAACCGGTT
1 TAAAAAACCGGTT
106721 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
106735 TAAAAAACCGGTT
1 TAAAAAACCGGTT
106748 T
1 T
106749 TTATCCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:106739 original size:12 final size:12
Alignment explanation
Indices: 106702--106747 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
106692 CGTTTTTTTT
*
106702 ACCGGATAAAAA
1 ACCGGTTAAAAA
106714 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
106729 ACCGGTTAAAAA
1 ACCGGTTAAAAA
106741 ACCGGTT
1 ACCGGTT
106748 TTTATCCGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:109073 original size:21 final size:21
Alignment explanation
Indices: 109049--109088 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
109039 TTTATTTTAT
109049 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
109070 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
109089 AACTTGAAGT
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:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:109136 original size:33 final size:33
Alignment explanation
Indices: 109083--109176 Score: 163
Period size: 33 Copynumber: 2.9 Consensus size: 33
109073 TTTGTTTCAA
109083 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
109115 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* *
109148 TTATCAAACTTGGAAGTATTTAAGTATTT
1 TTATCGAACTTGGAAGTTTTTAAGTATTT
109177 CATTATGTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 11 0.19
33 48 0.81
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:109209 original size:13 final size:13
Alignment explanation
Indices: 109191--109220 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
109181 ATGTTGAGTT
*
109191 AATTAAGTATTTC
1 AATTAAGTATTTA
109204 AATTAAGTATTTA
1 AATTAAGTATTTA
109217 AATT
1 AATT
109221 TATCGAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (13 bp):
AATTAAGTATTTA
Found at i:109640 original size:15 final size:15
Alignment explanation
Indices: 109615--109670 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
109605 ATCTGGAATA
*
109615 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
109630 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
109645 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
109662 TTAAAACCG
1 TTAAAACCG
109671 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:109679 original size:21 final size:18
Alignment explanation
Indices: 109634--109667 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
109624 GTTTTTTTAT
109634 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
109651 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
109668 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:109787 original size:15 final size:17
Alignment explanation
Indices: 109761--109792 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
109751 TTCTATGAGA
109761 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
109777 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
109793 CGGTTTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:111189 original size:185 final size:187
Alignment explanation
Indices: 110872--111263 Score: 648
Period size: 185 Copynumber: 2.1 Consensus size: 187
110862 AACCGAAATT
* *
110872 AAATTTTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAAATCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAAATCAATTAATAA
*
110937 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATATATATAAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATACATATAAAATTT
111002 TTATTTTATAATTATATATCATTTAAATTAATT-GTAAACTATTTTTTT-AATT-AAA
131 TTATTTTATAATTATATATCATTTAAATTAATTAG-AAACTATTTTTTTGAATTAAAA
* *
111057 AAATATTAAATATATTATATATAACATATGAGCTCATCCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAAATCAATTAATAA
*
111122 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATGCATATAAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATACATATAAAATTT
* * *
111187 TTATTTTATAATTATATATTATTTCAATTAATTAGAAACTGTTTTTTTGAATTAAAA
131 TTATTTTATAATTATATATCATTTAAATTAATTAGAAACTATTTTTTTGAATTAAAA
* *
111244 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
111264 AATTAGAAAA
Statistics
Matches: 193, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
185 167 0.87
186 13 0.07
187 13 0.07
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.41
Consensus pattern (187 bp):
AAATATTAAATATATTATATATAACATATGAGCTCAGCCCAAACCATTTAAAAATCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATACATATAAAATTT
TTATTTTATAATTATATATCATTTAAATTAATTAGAAACTATTTTTTTGAATTAAAA
Found at i:112993 original size:3 final size:3
Alignment explanation
Indices: 112987--113011 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
112977 AGATGAAAAT
112987 GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA G
113012 AAGAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:114409 original size:46 final size:45
Alignment explanation
Indices: 114329--114416 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 45
114319 ATTTAACAAA
* *
114329 CATTTCATATTCTTTTCATTCGTACATGTTTCATAACTTTCATTT
1 CATTTCATATTCTTTTCATTCATACATGTGTCATAACTTTCATTT
* *
114374 CATTTCCATATTCTTTTCTTTCATATACT-TGTCATAACTTTCA
1 CATTT-CATATTCTTTTCATTCATACA-TGTGTCATAACTTTCA
114417 CATTTACATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 5 0.14
46 31 0.84
47 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.03, T:0.52
Consensus pattern (45 bp):
CATTTCATATTCTTTTCATTCATACATGTGTCATAACTTTCATTT
Found at i:114438 original size:32 final size:32
Alignment explanation
Indices: 114393--114460 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 32
114383 ATTCTTTTCT
*
114393 TTCATATACTTGTCATAACTTTCACATTTACA
1 TTCACATACTTGTCATAACTTTCACATTTACA
* *
114425 TTCACATATTTGTCATAACTTTCACATTTACT
1 TTCACATACTTGTCATAACTTTCACATTTACA
114457 TTCA
1 TTCA
114461 TAGCCTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.22, G:0.03, T:0.46
Consensus pattern (32 bp):
TTCACATACTTGTCATAACTTTCACATTTACA
Found at i:114681 original size:77 final size:78
Alignment explanation
Indices: 114554--114733 Score: 249
Period size: 77 Copynumber: 2.3 Consensus size: 78
114544 CATTTAGTGC
* * * *
114554 ATTTTCATCATATGCACCCTATAGTGCTTTATAACCAGTTTGACACCTTTTAT-CCT-TACACCT
1 ATTTTTATCATATGCACCCCATAGTACTTTATAACCAGTTTGACACCTTTTATGCCTCGA-ACCT
114617 TTTATGCCTGAATT
65 TTTATGCCTGAATT
* *
114631 ATTTTTATTATATGCACCCCATAGTACTTTATAACCAGTTT-AGCACCTTTTATGTCTCGAACCT
1 ATTTTTATCATATGCACCCCATAGTACTTTATAACCAGTTTGA-CACCTTTTATGCCTCGAACCT
*
114695 TTTATGCCTTAATT
65 TTTATGCCTGAATT
*
114709 ATTTTTATCATATTCACCCCATAGT
1 ATTTTTATCATATGCACCCCATAGT
114734 GCTATTTAAT
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
76 1 0.01
77 47 0.52
78 42 0.46
79 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.43
Consensus pattern (78 bp):
ATTTTTATCATATGCACCCCATAGTACTTTATAACCAGTTTGACACCTTTTATGCCTCGAACCTT
TTATGCCTGAATT
Found at i:114755 original size:78 final size:77
Alignment explanation
Indices: 114554--114756 Score: 257
Period size: 78 Copynumber: 2.6 Consensus size: 77
114544 CATTTAGTGC
* * * *
114554 ATTTTCATCATATGCACCCTATAGTGCTTTATAACCAGTTTGACACCTTTTATCCTTACACCTTT
1 ATTTTTATCATATGCACCCCATAGTGCTTTATAACCAGTTTGGCACCTTTTATCCTGACACCTTT
114619 TATGCCTGAATT
66 TATGCCTGAATT
* * * *
114631 ATTTTTATTATATGCACCCCATAGTACTTTATAACCAGTTTAGCACCTTTTATGTCTCGA-ACCT
1 ATTTTTATCATATGCACCCCATAGTGCTTTATAACCAGTTTGGCACCTTTTAT-CCT-GACACCT
*
114695 TTTATGCCTTAATT
64 TTTATGCCTGAATT
* * *
114709 ATTTTTATCATATTCACCCCATAGTGCTATT-TAATCGGTTTGGCACCT
1 ATTTTTATCATATGCACCCCATAGTGCT-TTATAACCAGTTTGGCACCT
114757 ATCATGCCTG
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
77 47 0.44
78 58 0.54
79 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (77 bp):
ATTTTTATCATATGCACCCCATAGTGCTTTATAACCAGTTTGGCACCTTTTATCCTGACACCTTT
TATGCCTGAATT
Found at i:119174 original size:77 final size:76
Alignment explanation
Indices: 119017--119174 Score: 169
Period size: 77 Copynumber: 2.1 Consensus size: 76
119007 ATTAAAATCT
* * * * *
119017 TATTTAATTAATTCAAATTAAATATCCATTAAAGACTTATAATCCGAATTATACTCTTTAATGTT
1 TATTTAATTAATTCAAATTAAACATCCATTAAAGAATTATAATCAGAACTACACTCTTTAATGTT
*
119082 TATTTAAACTCA
66 TACTT-AACTCA
* * *
119094 TATTTAATT-ATTCCAAATTAAACATTCATTAAAAGAATTATAATCAGAACTACATTTATTTTAA
1 TATTTAATTAATT-CAAATTAAACATCCATT-AAAGAATTATAATCAGAACTACA-CT-CTTTAA
119158 TGTTTACTT-ACT-A
62 TGTTTACTTAACTCA
119171 TATT
1 TATT
119175 CGGGATAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
76 3 0.04
77 29 0.43
78 22 0.32
79 1 0.01
80 13 0.19
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.44
Consensus pattern (76 bp):
TATTTAATTAATTCAAATTAAACATCCATTAAAGAATTATAATCAGAACTACACTCTTTAATGTT
TACTTAACTCA
Found at i:121284 original size:86 final size:86
Alignment explanation
Indices: 121139--121309 Score: 288
Period size: 86 Copynumber: 2.0 Consensus size: 86
121129 AGCTAACCAT
* * *
121139 GTCTTAACAGACTGTAAAATAAATATATCATTTCTTATGATGAGTATGTCGTTTACATACAAGAT
1 GTCTTAACAGACTGTAAAATAAATATATCATTTCTTATGATGAGTATGTCATCTACATACAAGAC
*
121204 TAGGAAAGAAACAATACTCCA
66 TAAGAAAGAAACAATACTCCA
**
121225 GTCTTAACAGACTGTAAAATAGTTATATCATTTCTTATGATGAGTATGTCATCTACATACAAGAC
1 GTCTTAACAGACTGTAAAATAAATATATCATTTCTTATGATGAGTATGTCATCTACATACAAGAC
121290 TAAGAAAGAAACAATACTCC
66 TAAGAAAGAAACAATACTCC
121310 CATTATATAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 79 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (86 bp):
GTCTTAACAGACTGTAAAATAAATATATCATTTCTTATGATGAGTATGTCATCTACATACAAGAC
TAAGAAAGAAACAATACTCCA
Found at i:127499 original size:2 final size:2
Alignment explanation
Indices: 127492--127516 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
127482 CTTGAAACTA
127492 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
127517 AGGGTTAAAA
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:129646 original size:200 final size:197
Alignment explanation
Indices: 129371--129990 Score: 554
Period size: 200 Copynumber: 3.1 Consensus size: 197
129361 TAAGGAAATA
* * * * * * * * * *
129371 TGATTTCCTGGAGATAATTTGATGAGAAAATGACTATGCTCCTTCGCGTTAAAGAGATATAGTCG
1 TGATTTTCTGGAGATAATTTGTTGAGAAAACGA-AATGTTCTTTCGCGTTGAAGAGATCTGGTCC
* * * * ***
129436 TTTATGATGACATTGCTCATTCTTGTTGATGAGGTCTAATCAGTAGATGACATTGTTCCTTTGTG
65 TTT-TGATGACATTGCTCCTTCATGTTGAGGAGGTATAATCAGT-GATGACATTGTTCCTTCACG
* *
129501 TTGAGGAAG-ACTAGTCATATTTGAATGATTGTATCTGAAGACAACACTT-TTCTTTCGCATTGA
128 TTGAGGAAGTA-TAGCCATACTTGAATGATTGTATCTGAAGACAACA-TTGTTCTTTCGCATTGA
*
129564 GGAAGTC
191 GAAAGTC
*
129571 TGATTTTCTGGAGATAATTTGTTGAGAAAACGAAACTGTTTTTTCGCGTTGAAGAGATCTGGTCA
1 TGATTTTCTGGAGATAATTTGTTGAGAAAACGAAA-TGTTCTTTCGCGTTGAAGAGATCTGGTC-
*
129636 CTTTTGATGACATTGCTCCTAT-ATGTTGAGGAGGTATAATCAGTGAACT-CCATTGTTCCTTCA
64 CTTTTGATGACATTGCTCCT-TCATGTTGAGGAGGTATAATCAGTG-A-TGACATTGTTCCTTCA
* * * * *
129699 CGTTGAGGACGTATAGCCATACTTGAATGATTTTATCTGATGACAACATTGTTCTTTTGCGTTGA
126 CGTTGAGGAAGTATAGCCATACTTGAATGATTGTATCTGAAGACAACATTGTTCTTTCGCATTGA
129764 GAAAGTC
191 GAAAGTC
* * * * * *
129771 TAATTGTCTGGAGATAATTTATTGAGAAAACGACATTATTCTTTCACGTTGAAGAGATCTGGTCG
1 TGATTTTCTGGAGATAATTTGTTGAGAAAACGA-AATGTTCTTTCGCGTTGAAGAGATCTGGTC-
* * * * * * *
129836 CTTATT-ATGACATTGTTCCTTCGTGTTTAGGAGGTTTAGTCAATGGATGACATTGTTCCTTCGC
64 CTT-TTGATGACATTGCTCCTTCATGTTGAGGAGGTATAATCAGT-GATGACATTGTTCCTTCAC
* * * *** * ** * * *
129900 ATTGAGGACGTCTAGTTGTACTTGAATGACTACA-CATAAAGACAAAATTGTTCCTTT-GTATTG
127 GTTGAGGAAGTATAGCCATACTTGAATGATTGTATC-TGAAGACAACATTGTT-CTTTCGCATTG
*
129963 AGGAAGTC
190 AGAAAGTC
129971 TGATTGTT-TGGAGATAATTT
1 TGATT-TTCTGGAGATAATTT
129991 AATTTTGGAA
Statistics
Matches: 346, Mismatches: 59, Indels: 30
0.80 0.14 0.07
Matches are distributed among these distances:
199 7 0.02
200 324 0.94
201 15 0.04
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (197 bp):
TGATTTTCTGGAGATAATTTGTTGAGAAAACGAAATGTTCTTTCGCGTTGAAGAGATCTGGTCCT
TTTGATGACATTGCTCCTTCATGTTGAGGAGGTATAATCAGTGATGACATTGTTCCTTCACGTTG
AGGAAGTATAGCCATACTTGAATGATTGTATCTGAAGACAACATTGTTCTTTCGCATTGAGAAAG
TC
Found at i:142360 original size:18 final size:18
Alignment explanation
Indices: 142328--142374 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
142318 AAGGAGTGGC
*
142328 GAGCTAG-GTGCCGATAG
1 GAGCTAGCGAGCCGATAG
142345 GAGCTAGCGAGCCGATAG
1 GAGCTAGCGAGCCGATAG
142363 GAGCTAGCGAGC
1 GAGCTAGCGAGC
142375 TAAGGTGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.26, C:0.21, G:0.40, T:0.13
Consensus pattern (18 bp):
GAGCTAGCGAGCCGATAG
Found at i:143716 original size:64 final size:64
Alignment explanation
Indices: 143648--143809 Score: 184
Period size: 64 Copynumber: 2.5 Consensus size: 64
143638 ATAGCTTGGG
* *
143648 GCATCAATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCA-GAGT
1 GCATCAATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAATTAAATCATGA-T
** ** * *
143712 GCATCGAA-GCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTTCAATTTATTCATTGA
1 GCATC-AATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAATTAAATCA-TGA
143776 T
64 T
*
143777 GCATCGATGCATGGTATTGATGCATCGGTGCAT
1 GCATCAATGCATGG-ATTG-TGCATCGGTGCAT
143810 GCCTTTGAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
64 50 0.62
65 14 0.17
66 4 0.05
67 13 0.16
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (64 bp):
GCATCAATGCATGGATTGTGCATCGGTGCATCAAATGCATTCGATGTTTCAATTAAATCATGAT
Found at i:143795 original size:21 final size:21
Alignment explanation
Indices: 143771--143810 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
143761 CAATTTATTC
143771 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
143792 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
143811 CCTTTGAAAA
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:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:145845 original size:18 final size:17
Alignment explanation
Indices: 145791--145839 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
145781 TTGGACTCCT
* *
145791 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
145809 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
145827 AGTGCATTCGATG
1 AGTGCA-TCGATG
145840 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:145924 original size:64 final size:65
Alignment explanation
Indices: 145856--146019 Score: 188
Period size: 64 Copynumber: 2.5 Consensus size: 65
145846 AAATAGCCTG
* * * *
145856 GTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCTATGTTTTAATTAAATCA-GA
1 GTGCATCGATGCATGGATTGTGCATCGGTGCATCAAATGAATTCGATGTTTCAATTAAATCATGA
** * ** * *
145920 GTGCATCGATGCATGGAGAGTTCATCGGTGCATGGAATGAATTCGATGTTTCAATTTATTCATTG
1 GTGCATCGATGCATGGATTGTGCATCGGTGCATCAAATGAATTCGATGTTTCAATTAAATCA-TG
145985 A
65 A
145986 -TGCATCGATGCATGGTATTGATGCATCGGTGCAT
1 GTGCATCGATGCATGG-ATTG-TGCATCGGTGCAT
146020 GCCTTTGAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
64 51 0.62
65 15 0.18
66 4 0.05
67 12 0.15
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.34
Consensus pattern (65 bp):
GTGCATCGATGCATGGATTGTGCATCGGTGCATCAAATGAATTCGATGTTTCAATTAAATCATGA
Found at i:145945 original size:19 final size:19
Alignment explanation
Indices: 145917--145955 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
145907 TAATTAAATC
145917 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
* *
145936 AGAGTTCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
145955 A
1 A
145956 ATGAATTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:146005 original size:21 final size:21
Alignment explanation
Indices: 145981--146020 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
145971 CAATTTATTC
145981 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
146002 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
146021 CCTTTGAAAA
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:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:148144 original size:64 final size:65
Alignment explanation
Indices: 148076--148239 Score: 197
Period size: 64 Copynumber: 2.5 Consensus size: 65
148066 AAATAGCCTG
* * *
148076 GTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATCA-GA
1 GTGCATCGATGCATGGATTGTGCATCGGTGCATCAAATGAATTCGATGTTTCAATTAAATCATGA
** * ** * *
148140 GTGCATCGATGCATGGAGAGTTCATCGGTGCATGGAATGAATTCGATGTTTCAATTTATTCATTG
1 GTGCATCGATGCATGGATTGTGCATCGGTGCATCAAATGAATTCGATGTTTCAATTAAATCA-TG
148205 A
65 A
148206 -TGCATCGATGCATGGTATTGATGCATCGGTGCAT
1 GTGCATCGATGCATGG-ATTG-TGCATCGGTGCAT
148240 GCCTTTGAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
64 52 0.63
65 15 0.18
66 4 0.05
67 12 0.14
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (65 bp):
GTGCATCGATGCATGGATTGTGCATCGGTGCATCAAATGAATTCGATGTTTCAATTAAATCATGA
Found at i:148165 original size:19 final size:19
Alignment explanation
Indices: 148137--148175 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
148127 TAATTAAATC
148137 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
* *
148156 AGAGTTCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
148175 A
1 A
148176 ATGAATTCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:148225 original size:21 final size:21
Alignment explanation
Indices: 148201--148240 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
148191 CAATTTATTC
148201 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
148222 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
148241 CCTTTGAAAA
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:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:150853 original size:22 final size:23
Alignment explanation
Indices: 150821--150865 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
150811 TTAAAAATTA
*
150821 ATTTCAGAAATTT-ATTTTTTTT
1 ATTTCAAAAATTTAATTTTTTTT
150843 ATTTCAAAAATTTAATTTTTTTT
1 ATTTCAAAAATTTAATTTTTTTT
150866 TTGAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTTCAAAAATTTAATTTTTTTT
Found at i:150863 original size:21 final size:22
Alignment explanation
Indices: 150821--150872 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
150811 TTAAAAATTA
* *
150821 ATTTCAGAAATTTATTTTTTTT
1 ATTTCAAAAATTTATATTTTTT
150843 ATTTCAAAAATTTA-ATTTTTT
1 ATTTCAAAAATTTATATTTTTT
* *
150864 TTTTGAAAA
1 ATTTCAAAA
150873 TTTGTGAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (22 bp):
ATTTCAAAAATTTATATTTTTT
Found at i:151009 original size:64 final size:63
Alignment explanation
Indices: 150927--151082 Score: 172
Period size: 64 Copynumber: 2.4 Consensus size: 63
150917 TCATCAAACA
* * * **
150927 ATCGATGCATGAAGTGCATTCAATGTTTGAA-AAAT-AGCCTGGTGCATCGATGCATGGATTGTG
1 ATCGATGCATGAAATGCATTCGATGTTTGAATAAATCAG---AGTGCATCGATGCATGGAGAGTG
150990 C
63 C
* * * *
150991 ATCGATGAATCAAATGCATTCGATATTTTAATTAAATCAGAGTGCATCGATGCATGGAGAGTGC
1 ATCGATGCATGAAATGCATTCGATGTTTGAA-TAAATCAGAGTGCATCGATGCATGGAGAGTGC
*
151055 ATCGGTGCATGAAATGCATTCGATGTTT
1 ATCGATGCATGAAATGCATTCGATGTTT
151083 CAATTTATTC
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
64 70 0.92
66 4 0.05
67 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (63 bp):
ATCGATGCATGAAATGCATTCGATGTTTGAATAAATCAGAGTGCATCGATGCATGGAGAGTGC
Found at i:151053 original size:19 final size:19
Alignment explanation
Indices: 151029--151065 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
151019 TAATTAAATC
151029 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
151048 AGAGTGCATCGGTGCATG
1 AGAGTGCATCGATGCATG
151066 AAATGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.22
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:151117 original size:21 final size:21
Alignment explanation
Indices: 151093--151132 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
151083 CAATTTATTC
151093 ATTGATGCATAGATGCATGGT
1 ATTGATGCATAGATGCATGGT
* *
151114 ATTGATGCATCGGTGCATG
1 ATTGATGCATAGATGCATG
151133 CCTTTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATAGATGCATGGT
Found at i:157927 original size:18 final size:17
Alignment explanation
Indices: 157873--157921 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
157863 TGGACTCCCT
* *
157873 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
157891 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
157909 AGTGCATTCGATG
1 AGTGCA-TCGATG
157922 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:157945 original size:64 final size:60
Alignment explanation
Indices: 157873--158052 Score: 175
Period size: 64 Copynumber: 2.8 Consensus size: 60
157863 TGGACTCCCT
*
157873 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA-AAAT-AG
1 AGTGCATCGATGCA-T-AGAGTGCATCGATGCATGAA-TGCATTCGATGTTTGAATAAATCAG
* * * *
157934 CCTGGTGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAATC
1 ---AGTGCATCGATGCATAGA--GTGCATCGATGCAT-GAATGCATTCGATGTTTGAA-TAAATC
157999 AG
59 AG
*
158001 AGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGCATCGATGCAT--AGAGTGCATCGATGCAT-GAATGCATTCGATGTTT
158053 CAATTTATTC
Statistics
Matches: 98, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
62 2 0.02
63 1 0.01
64 85 0.87
65 2 0.02
66 6 0.06
67 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (60 bp):
AGTGCATCGATGCATAGAGTGCATCGATGCATGAATGCATTCGATGTTTGAATAAATCAG
Found at i:158023 original size:19 final size:19
Alignment explanation
Indices: 157999--158049 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
157989 TAATTAAATC
157999 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
158018 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
158037 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
158050 TTTCAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:159113 original size:84 final size:83
Alignment explanation
Indices: 158905--159334 Score: 398
Period size: 85 Copynumber: 5.1 Consensus size: 83
158895 ACACGCAACA
* * * * *
158905 AGTTATGCTGCAAATGATGTGACCTCGAAGCTTAGTGTAATCAAACTCGACGGTCTTTGGTTGGC
1 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGGC
* * * *
158970 AGATAGCCCTTATCGACTTA
65 AGATAACCCTTCTAG-CTTG
* ** * * * * * *
158990 AGCTATATTGTAAATAATGTGTCTTTG-AGATGAGCGTAATCGAACTCGAAGGTCTTTGTTGGCA
1 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCA
*
159054 GTTAACCCTTCTAGCTTTG
66 GATAACCCTTCTAGC-TTG
* *
159073 AGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTCTTTGGTTGGC
1 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGGC
* * *
159138 AGATAGCCCTTCTCGACTTA
65 AGATAACCCTTCTAG-CTTG
* * * *** * * * *
159158 AGCTATGCTGTAAATGATGTGCCTTTG-AGCTGAACATAGTCTAACTCAAAGGTCTTTATTGGCA
1 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCA
159222 GATAACCCTTCTAGCCTTG
66 GATAACCCTTCTAG-CTTG
* * * * *
159241 AGTTATGTTGTAAATAATGTGCCAC-CGAAGCTGAGTGGAATTGAACTCGAAGGTCTTTTATTGG
1 AGTTATGCTGTAAATGATGTGCC-CTCGAAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGG
*
159305 TAGATAACCCTTCTAGCCTTG
64 CAGATAACCCTTCTAG-CTTG
159326 AGTTATGCT
1 AGTTATGCT
159335 ACAAATAAAT
Statistics
Matches: 274, Mismatches: 64, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
82 1 0.00
83 80 0.29
84 94 0.34
85 98 0.36
86 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (83 bp):
AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCA
GATAACCCTTCTAGCTTG
Found at i:159186 original size:168 final size:168
Alignment explanation
Indices: 158905--159318 Score: 551
Period size: 168 Copynumber: 2.5 Consensus size: 168
158895 ACACGCAACA
* * * * *
158905 AGTTATGCTGCAAATGATGTGACCTCGAAGCTTAGTGTAATCAAACTCGACGGTCTTTGGTTGGC
1 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGC
* * * * *
158970 AGATAGCCCTTATCGACTTAAGCTATATTGTAAATAATGTGTCTTTGAGATGAGCGTAATCGAAC
66 AGATAGCCCTTCTCGACTTAAGCTATACTGTAAATAATGTGCCTTTGAGATGAACATAATCGAAC
* * * *
159035 TCGAAGGTCTTTGTTGGCAGTTAACCCTTCTAGCTTTG
131 TCAAAGGTCTTTATTGGCAGATAACCCTTCTAGCCTTG
* *
159073 AGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTTGAAGGTCTTTGGTTGGC
1 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGC
* * * * *
159138 AGATAGCCCTTCTCGACTTAAGCTATGCTGTAAATGATGTGCCTTTGAGCTGAACATAGTCTAAC
66 AGATAGCCCTTCTCGACTTAAGCTATACTGTAAATAATGTGCCTTTGAGATGAACATAATCGAAC
159203 TCAAAGGTCTTTATTGGCAGATAACCCTTCTAGCCTTG
131 TCAAAGGTCTTTATTGGCAGATAACCCTTCTAGCCTTG
* * * * **
159241 AGTTATGTTGTAAATAATGTGCCAC-CGAAGCTGAGTGGAATTGAACTCGAAGGTCTTTTATTGG
1 AGTTATGCTGTAAATGATGTGCC-CTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGG
* *
159305 TAGATAACCCTTCT
65 CAGATAGCCCTTCT
159319 AGCCTTGAGT
Statistics
Matches: 214, Mismatches: 31, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
168 213 1.00
169 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (168 bp):
AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGC
AGATAGCCCTTCTCGACTTAAGCTATACTGTAAATAATGTGCCTTTGAGATGAACATAATCGAAC
TCAAAGGTCTTTATTGGCAGATAACCCTTCTAGCCTTG
Found at i:160362 original size:88 final size:88
Alignment explanation
Indices: 160257--160436 Score: 261
Period size: 88 Copynumber: 2.0 Consensus size: 88
160247 ATTATATAAA
* * * *
160257 TATTATAATAACCTTTATCAGGCTAGTTGAATATTATCCATAAAGGTGGGGCGTTTAACCAATTA
1 TATTATAATAACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCTGAGGCGCTTAACCAATTA
*
160322 CTCTAGAGGGACAACTCGAGCTT
66 CTCTAGAGGGACAACTCAAGCTT
* * * *
160345 TATTATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCTGAGGCGCTTAACCTATTG
1 TATTATAATAACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCTGAGGCGCTTAACCAATTA
* *
160410 CTTTAGAGGGACAGCTCAAGCTT
66 CTCTAGAGGGACAACTCAAGCTT
160433 TATT
1 TATT
160437 GTATATATAT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (88 bp):
TATTATAATAACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCTGAGGCGCTTAACCAATTA
CTCTAGAGGGACAACTCAAGCTT
Found at i:164272 original size:13 final size:12
Alignment explanation
Indices: 164256--164329 Score: 51
Period size: 13 Copynumber: 5.8 Consensus size: 12
164246 ATAAATTGAT
164256 AAATAAAATACAA
1 AAATAAAA-ACAA
164269 AAATAATAAATCAA
1 AAATAA-AAA-CAA
*
164283 AGGAA-AAAAATAA
1 A--AATAAAAACAA
*
164296 AAATAAAAATAA
1 AAATAAAAACAA
* *
164308 AAATAAAATAGAT
1 AAATAAAA-ACAA
164321 AAATAAAAA
1 AAATAAAAA
164330 AAGTTAAAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
11 2 0.04
12 17 0.33
13 20 0.38
14 9 0.17
15 2 0.04
16 2 0.04
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.16
Consensus pattern (12 bp):
AAATAAAAACAA
Found at i:164277 original size:20 final size:19
Alignment explanation
Indices: 164254--164313 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 19
164244 TAATAAATTG
*
164254 ATAAATAAAATACAAAAATA
1 ATAAATAAAA-AAAAAAATA
*
164274 ATAAATCAAAGGAAAAAAATA
1 ATAAAT-AAA-AAAAAAAATA
*
164295 A-AAATAAAAATAAAAATA
1 ATAAATAAAAAAAAAAATA
164313 A
1 A
164314 AATAGATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 9 0.26
19 3 0.09
20 10 0.29
21 12 0.35
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (19 bp):
ATAAATAAAAAAAAAAATA
Found at i:164303 original size:5 final size:6
Alignment explanation
Indices: 164256--164329 Score: 62
Period size: 6 Copynumber: 11.5 Consensus size: 6
164246 ATAAATTGAT
*
164256 AAATAA AATACAA AAATAA TAAATCAA AGGAA-AA AAATAA AAATAA AAATAA
1 AAATAA AA-ATAA AAATAA -AAAT-AA A--AATAA AAATAA AAATAA AAATAA
164308 AAAT-A AAATAGA TAAATAA AAA
1 AAATAA AAATA-A -AAATAA AAA
164330 AAGTTAAAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
5 7 0.12
6 26 0.46
7 15 0.26
8 7 0.12
9 2 0.04
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:164438 original size:13 final size:13
Alignment explanation
Indices: 164386--164443 Score: 50
Period size: 12 Copynumber: 4.6 Consensus size: 13
164376 GAAGTAACGA
*
164386 AAATAAAAAAAAT
1 AAATAAAAAATAT
*
164399 ATAT-AAAAATA-
1 AAATAAAAAATAT
**
164410 AGCTAAAAAATGAT
1 AAATAAAAAAT-AT
164424 AAATAAAAAATAT
1 AAATAAAAAATAT
164437 -AATAAAA
1 AAATAAAA
164444 TAGAAAAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
11 2 0.06
12 19 0.53
13 6 0.17
14 9 0.25
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (13 bp):
AAATAAAAAATAT
Found at i:165779 original size:42 final size:40
Alignment explanation
Indices: 165733--165860 Score: 134
Period size: 39 Copynumber: 3.1 Consensus size: 40
165723 TGAATAAGAA
*
165733 ATAATAATAAATAAATATAAAAATTATTTTTTTAAAAACTAT
1 ATAAT-ATAAATAAATTTAAAAATT-TTTTTTTAAAAACTAT
* *
165775 ATAATATAAAT--TTTTAAAAATGTTTCTTTTAAAAACTAT
1 ATAATATAAATAAATTTAAAAAT-TTTTTTTTAAAAACTAT
* * * *
165814 ATATTATATATAAATTTTCAAAAATGTTTTTTAAAAAACTAT
1 ATAATATAAATAAA-TTT-AAAAATTTTTTTTTAAAAACTAT
165856 ATAAT
1 ATAAT
165861 TTCCAAAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
39 32 0.45
40 1 0.01
41 6 0.08
42 26 0.37
43 6 0.08
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (40 bp):
ATAATATAAATAAATTTAAAAATTTTTTTTTAAAAACTAT
Found at i:165837 original size:43 final size:41
Alignment explanation
Indices: 165762--165858 Score: 137
Period size: 43 Copynumber: 2.4 Consensus size: 41
165752 AAAATTATTT
*
165762 TTTTAAAAACTATATA--ATATAAATTTTTAAAAATGTTTC
1 TTTTAAAAACTATATATTATATAAATTTTCAAAAATGTTTC
165801 TTTTAAAAACTATATATTATATATAAATTTTCAAAAATGTTT-
1 TTTTAAAAACTATATA-T-TATATAAATTTTCAAAAATGTTTC
*
165843 TTTAAAAAACTATATA
1 TTTTAAAAACTATATA
165859 ATTTCCAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
39 16 0.31
42 15 0.29
43 21 0.40
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (41 bp):
TTTTAAAAACTATATATTATATAAATTTTCAAAAATGTTTC
Found at i:165917 original size:29 final size:30
Alignment explanation
Indices: 165820--165917 Score: 126
Period size: 30 Copynumber: 3.2 Consensus size: 30
165810 CTATATATTA
* *
165820 TATATAAATTTTCAAAAATGTTTTTTAAAAAAC
1 TATAT-AATTTCCAAAAAAG-TTTTT-AAAAAC
165853 TATATAATTTCCAAAAAAGTTTTTAAAAAC
1 TATATAATTTCCAAAAAAGTTTTTAAAAAC
* *
165883 TGTATAATTTCCAAAAAAG-TTTTAAAAAT
1 TATATAATTTCCAAAAAAGTTTTTAAAAAC
165912 TATATA
1 TATATA
165918 TTATATATAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
29 14 0.23
30 24 0.40
31 5 0.08
32 12 0.20
33 5 0.08
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (30 bp):
TATATAATTTCCAAAAAAGTTTTTAAAAAC
Found at i:165937 original size:39 final size:38
Alignment explanation
Indices: 165885--166100 Score: 188
Period size: 39 Copynumber: 5.4 Consensus size: 38
165875 TTAAAAACTG
* *
165885 TATAA-TTTCCAAAAAAGTTTT-AAAAATTATATATTATA
1 TATAAGTTTTCAAAAAAGTTTTCAAAAACTATATA-T-TA
*
165923 TATAAGTTTTCAAAAATGTTTTCAAAAAACTATATATTA
1 TATAAGTTTTCAAAAAAGTTTTC-AAAAACTATATATTA
165962 TATAAGTTTTCAAAAAAAAAAAGTTTTCAAAAACTATATATTA
1 TATAAGTTTTC-----AAAAAAGTTTTCAAAAACTATATATTA
* *
166005 TATAAGTTTTC-AAAATGATTTT-AAAAACCATATATTA
1 TATAAGTTTTCAAAAAAG-TTTTCAAAAACTATATATTA
* ** *
166042 TATAATTTTTCTAAAATATTTCTTTTAAAAACTATATATTA
1 TATAAGTTTTC-AAAA-AAGT-TTTCAAAAACTATATATTA
*
166083 TATACATATTTTCAAAAA
1 TATA-A-GTTTTCAAAAA
166101 CCGTTTGCAA
Statistics
Matches: 152, Mismatches: 10, Indels: 29
0.80 0.05 0.15
Matches are distributed among these distances:
37 29 0.19
38 9 0.06
39 31 0.20
40 6 0.04
41 30 0.20
42 5 0.03
43 31 0.20
44 11 0.07
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (38 bp):
TATAAGTTTTCAAAAAAGTTTTCAAAAACTATATATTA
Found at i:165994 original size:43 final size:42
Alignment explanation
Indices: 165895--166100 Score: 164
Period size: 43 Copynumber: 5.0 Consensus size: 42
165885 TATAATTTCC
*
165895 AAAAAAGTTTT-AAAAATTATATATTATATATAAGTTTTC----
1 AAAAAAGTTTTCAAAAACTATATA-T-TATATAAGTTTTCAAAA
*
165934 AAAAATGTTTTCAAAAAACTATATATTATATAAGTTTTCAAAAA
1 AAAAAAGTTTTC-AAAAACTATATATTATATAAGTTTTC-AAAA
165978 AAAAAAGTTTTCAAAAACTATATATTATATAAGTTTTC---A
1 AAAAAAGTTTTCAAAAACTATATATTATATAAGTTTTCAAAA
** * * *
166017 AAATGA-TTTT-AAAAACCATATATTATATAATTTTTCTAAA
1 AAAAAAGTTTTCAAAAACTATATATTATATAAGTTTTCAAAA
* **** *
166057 ATATTTCTTTT-AAAAACTATATATTATATACATATTTTCAAAA
1 AAAAAAGTTTTCAAAAACTATATATTATATA-A-GTTTTCAAAA
166100 A
1 A
166101 CCGTTTGCAA
Statistics
Matches: 141, Mismatches: 13, Indels: 22
0.80 0.07 0.12
Matches are distributed among these distances:
37 24 0.17
38 4 0.03
39 28 0.20
40 5 0.04
41 33 0.23
42 1 0.01
43 35 0.25
44 11 0.08
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (42 bp):
AAAAAAGTTTTCAAAAACTATATATTATATAAGTTTTCAAAA
Found at i:166000 original size:82 final size:80
Alignment explanation
Indices: 165895--166057 Score: 215
Period size: 80 Copynumber: 2.0 Consensus size: 80
165885 TATAATTTCC
*
165895 AAAAAAGTTTTAAAAAT-TATATATTATATATAAGTTTTCAAAAATG-TTTTCAAAAAACTATAT
1 AAAAAAGTTTTAAAAATATATATA-T-TATATAAGTTTTC-AAAATGATTTT--AAAAACCATAT
165958 ATTATATAAGTTTTCAAAAA
61 ATTATATAAGTTTTCAAAAA
*
165978 AAAAAAGTTTTCAAAAA-CTATATATTATATAAGTTTTCAAAATGATTTTAAAAACCATATATTA
1 AAAAAAGTTTT-AAAAATATATATATTATATAAGTTTTCAAAATGATTTTAAAAACCATATATTA
* *
166042 TATAATTTTTCTAAAA
65 TATAAGTTTTCAAAAA
166058 TATTTCTTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 9
0.86 0.03 0.10
Matches are distributed among these distances:
80 28 0.38
81 6 0.08
82 17 0.23
83 12 0.16
84 11 0.15
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (80 bp):
AAAAAAGTTTTAAAAATATATATATTATATAAGTTTTCAAAATGATTTTAAAAACCATATATTAT
ATAAGTTTTCAAAAA
Found at i:166126 original size:2 final size:2
Alignment explanation
Indices: 166114--166152 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
166104 TTTGCAAACC
166114 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
166153 GGACGAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:166245 original size:3 final size:3
Alignment explanation
Indices: 166239--166271 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
166229 TATTAAACAT
*
166239 ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
166272 TCACCTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:179423 original size:2 final size:2
Alignment explanation
Indices: 179418--179445 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
179408 CGCGCGCGCA
179418 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
179446 AGAGAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:180568 original size:31 final size:30
Alignment explanation
Indices: 180475--180614 Score: 117
Period size: 29 Copynumber: 4.7 Consensus size: 30
180465 GCTTATATTA
*
180475 AAAATAAGTACCTAAAGTATACTCCTTTT-TTC
1 AAAATAAGTACCTAAAGTAT-CT--TTTTGGTC
** * *
180507 -ATCTAAGTACCTAAAGTAAC-TTTTGATC
1 AAAATAAGTACCTAAAGTATCTTTTTGGTC
*
180535 AAAATAAGTACCTAAACTTATCTTTTTGGTC
1 AAAATAAGTACCTAAA-GTATCTTTTTGGTC
* * *
180566 AAAATAGGCACCTAAAGTAT-TTGTTGGTC
1 AAAATAAGTACCTAAAGTATCTTTTTGGTC
* *
180595 AAAATAGGTACCCAAAGTAT
1 AAAATAAGTACCTAAAGTAT
180615 TCAATTTTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
27 4 0.04
28 2 0.02
29 39 0.44
30 7 0.08
31 37 0.42
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (30 bp):
AAAATAAGTACCTAAAGTATCTTTTTGGTC
Found at i:183433 original size:24 final size:24
Alignment explanation
Indices: 183399--183483 Score: 134
Period size: 24 Copynumber: 3.5 Consensus size: 24
183389 CTCTTTGATC
* *
183399 TCTTGTCTTTACATGTGACTTGAA
1 TCTTGTTTTTATATGTGACTTGAA
*
183423 TCTTGTTTTTATATGTGTCTTGAA
1 TCTTGTTTTTATATGTGACTTGAA
*
183447 TCTTGTTTTTATATGTGACATGAA
1 TCTTGTTTTTATATGTGACTTGAA
183471 TCTTGTTTTTATA
1 TCTTGTTTTTATA
183484 CCCTTCATTC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.20, C:0.11, G:0.15, T:0.54
Consensus pattern (24 bp):
TCTTGTTTTTATATGTGACTTGAA
Found at i:184846 original size:13 final size:13
Alignment explanation
Indices: 184828--184860 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
184818 CAGGGATTGG
184828 AAAGATTTCAAGT
1 AAAGATTTCAAGT
184841 AAAGATTTCAAGT
1 AAAGATTTCAAGT
184854 AAAGATT
1 AAAGATT
184861 GTGCACTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (13 bp):
AAAGATTTCAAGT
Found at i:199228 original size:32 final size:32
Alignment explanation
Indices: 199151--199238 Score: 95
Period size: 32 Copynumber: 2.8 Consensus size: 32
199141 CATAGTAATT
* *
199151 TTAGTATTGCATTCAGATAATGCACATCAAAA
1 TTAGTATTGCATTTAGATAATGCACAACAAAA
* * ** *
199183 TCAATATAACATTTAGATAATGCACAACAGAA
1 TTAGTATTGCATTTAGATAATGCACAACAAAA
* *
199215 TTAGTATTGCATTTGGATGATGCA
1 TTAGTATTGCATTTAGATAATGCA
199239 TAGCAGAGTT
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (32 bp):
TTAGTATTGCATTTAGATAATGCACAACAAAA
Found at i:200789 original size:17 final size:17
Alignment explanation
Indices: 200767--200802 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
200757 GAGTATGTTG
200767 TAAATAGAAAATTATTA
1 TAAATAGAAAATTATTA
200784 TAAATAGAAAATTATTA
1 TAAATAGAAAATTATTA
200801 TA
1 TA
200803 CGCAAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
TAAATAGAAAATTATTA
Found at i:201932 original size:40 final size:40
Alignment explanation
Indices: 201877--202078 Score: 305
Period size: 40 Copynumber: 5.0 Consensus size: 40
201867 ACCGTAGTAC
* *
201877 TACACATAAGGTCGTGCCCACCAAATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* * *
201917 TACACATATGGTCGTGTCCACCATATACACCGAAGTGTAA
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
201957 TACATATAAGATCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* * *
201997 TACACAAAAGGTCATGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
202037 TACATATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
202077 TA
1 TA
202079 TAAACTTGCA
Statistics
Matches: 143, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:202608 original size:45 final size:45
Alignment explanation
Indices: 202551--202709 Score: 248
Period size: 45 Copynumber: 3.6 Consensus size: 45
202541 CATATGTTAG
* * *
202551 TATGGAA-TAATGGCAAGTGTATTGGTAAAATAAGCTTACGAGCT
1 TATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCT
202595 TATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCT
1 TATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCT
*
202640 TATGGAACAAATGATAAGTATATTGGTAAAATAAGCTTACGAGCT
1 TATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCT
* * *
202685 TATGGGATAAATGGTAAGTAGATTG
1 TATGGAACAAATGGTAAGTATATTG
202710 ATAAGAAATG
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
44 7 0.07
45 99 0.93
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.30
Consensus pattern (45 bp):
TATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCT
Found at i:205291 original size:65 final size:64
Alignment explanation
Indices: 205222--205401 Score: 159
Period size: 65 Copynumber: 2.8 Consensus size: 64
205212 GTTTTAATTG
* * * *
205222 AACATTGAATAGCTTTTGTGTACCGATACAC-ATACCATGTATCGATGCACTCCATGTATTATTA
1 AACATTGAATAGCTTTTGTGCACCGATACACAAT-CCATGCATCGATGCACCCCATCTATT-TTA
205286 A
64 A
* * * * * * *
205287 AACATCGAATTGATTTTATGCACTGATGCACAATCTATGCATCGATGCACCCCATCTATTTTAA
1 AACATTGAATAGCTTTTGTGCACCGATACACAATCCATGCATCGATGCACCCCATCTATTTTAA
* ** *
205351 AACA-TCAA-AGCATATTTGTGCACCGATACACACCCCAGTGCACCGATGCAC
1 AACATTGAATAGC-T-TTTGTGCACCGATACACAATCCA-TGCATCGATGCAC
205402 TTGGTCAGCC
Statistics
Matches: 89, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
62 1 0.01
63 3 0.03
64 25 0.28
65 58 0.65
66 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (64 bp):
AACATTGAATAGCTTTTGTGCACCGATACACAATCCATGCATCGATGCACCCCATCTATTTTAA
Found at i:210930 original size:21 final size:21
Alignment explanation
Indices: 210906--210962 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 21
210896 TTTTGCATAA
210906 TGCATCGATACACTATGAATG
1 TGCATCGATACACTATGAATG
* *
210927 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGAT--A-CACTATGAATG
210951 TGCATCGATACA
1 TGCATCGATACA
210963 TCATGAAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 10 0.33
22 1 0.03
23 1 0.03
24 18 0.60
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (21 bp):
TGCATCGATACACTATGAATG
Found at i:210981 original size:45 final size:44
Alignment explanation
Indices: 210906--211003 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 44
210896 TTTTGCATAA
*
210906 TGCATCGATACACTATGAATGTGCATCGATGCA-TCCCTTTGAATG
1 TGCATCGATACACTATGAATGTGCACCGATGCACT-CC-TTGAATG
210951 TGCATCGATACA-TCATGAA-GATGCACCGATGCACTCCTTGAATG
1 TGCATCGATACACT-ATGAATG-TGCACCGATGCACTCCTTGAATG
*
210995 TGCAACGAT
1 TGCATCGAT
211004 GCACAATGCC
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
44 17 0.35
45 30 0.62
46 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
TGCATCGATACACTATGAATGTGCACCGATGCACTCCTTGAATG
Found at i:213722 original size:65 final size:65
Alignment explanation
Indices: 213577--213722 Score: 154
Period size: 65 Copynumber: 2.2 Consensus size: 65
213567 GTTTTAATTG
* * * * * * *
213577 AACATCGAATAGCTTTTGTGTACCGATGCACATACCATGCATCGATGCACTCTATGTATTATTAA
1 AACATCGAAAAGATTTTATGCACCGATGCACATACCATGCATCGATGCACCCCATGTATTATGAA
** *
213642 AACATCGAATTGATTTTATGCACCGATGCACA-ATTCATGCATCGATGCACCCCA-GCTATT-TG
1 AACATCGAAAAGATTTTATGCACCGATGCACATA-CCATGCATCGATGCACCCCATG-TATTATG
213704 AA
64 AA
213706 AACATCGAAGAAGATTT
1 AACATCGAA-AAGATTT
213723 GTGCACCAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
64 14 0.21
65 54 0.79
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (65 bp):
AACATCGAAAAGATTTTATGCACCGATGCACATACCATGCATCGATGCACCCCATGTATTATGAA
Found at i:213995 original size:11 final size:11
Alignment explanation
Indices: 213979--214008 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
213969 ACATTTAACA
213979 AGAATCAAGAG
1 AGAATCAAGAG
213990 AGAATCAAGAG
1 AGAATCAAGAG
214001 AGAATCAA
1 AGAATCAA
214009 AGATAAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.57, C:0.10, G:0.23, T:0.10
Consensus pattern (11 bp):
AGAATCAAGAG
Found at i:226396 original size:31 final size:31
Alignment explanation
Indices: 226358--226459 Score: 141
Period size: 31 Copynumber: 3.3 Consensus size: 31
226348 TGGGGCCTAT
* **
226358 GGGCCTACCCAAGAAAGTTCTTAGGGTTACG
1 GGGCCTACCCAAGAAAGATCTTAGGGCCACG
* *
226389 GGGCCTACCCAAGAAAGATCTTAGGGCCGCA
1 GGGCCTACCCAAGAAAGATCTTAGGGCCACG
* *
226420 GGGCCTACCCAAGAATGATCTCAGGGCCACG
1 GGGCCTACCCAAGAAAGATCTTAGGGCCACG
226451 GGGCCTACC
1 GGGCCTACC
226460 TAAGTAAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.25, C:0.29, G:0.29, T:0.16
Consensus pattern (31 bp):
GGGCCTACCCAAGAAAGATCTTAGGGCCACG
Found at i:226487 original size:62 final size:62
Alignment explanation
Indices: 226359--226510 Score: 162
Period size: 62 Copynumber: 2.5 Consensus size: 62
226349 GGGGCCTATG
* * * ** ** * *
226359 GGCCTACCCAAGAAAGTTCTTAGGGTTACGGGGCCTACCCAAGAAAGATCTTAGGGCCGCAG
1 GGCCTACCCAAGAATGATCTCAGGGCCACGGGGCCTACCCAAGAAAGATCCCAGGGCCACAA
* *
226421 GGCCTACCCAAGAATGATCTCAGGGCCACGGGGCCTACCTAAGTAAA-ATCCCATGGCCACAA
1 GGCCTACCCAAGAATGATCTCAGGGCCACGGGGCCTACCCAAG-AAAGATCCCAGGGCCACAA
* * *
226483 GGCCTAACCAAGAATAATCTCGGGGCCA
1 GGCCTACCCAAGAATGATCTCAGGGCCA
226511 TAGAGCCTGC
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
62 72 0.96
63 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.26, T:0.16
Consensus pattern (62 bp):
GGCCTACCCAAGAATGATCTCAGGGCCACGGGGCCTACCCAAGAAAGATCCCAGGGCCACAA
Found at i:226510 original size:31 final size:30
Alignment explanation
Indices: 226389--226510 Score: 102
Period size: 31 Copynumber: 3.9 Consensus size: 30
226379 TAGGGTTACG
* * *
226389 GGGCCTACCCAAGAAAGATCTTAGGGCCGCA
1 GGGCCTAACCAAGAAA-ATCTCAGGGCCACA
* * *
226420 GGGCCTACCCAAGAATGATCTCAGGGCCACG
1 GGGCCTAACCAAGAA-AATCTCAGGGCCACA
* *
226451 GGGCCT-ACCTAAGTAAAATCCCATGGCCACA
1 GGGCCTAACC-AAG-AAAATCTCAGGGCCACA
* *
226482 AGGCCTAACCAAGAATAATCTCGGGGCCA
1 GGGCCTAACCAAGAA-AATCTCAGGGCCA
226511 TAGAGCCTGC
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
30 4 0.05
31 64 0.88
32 5 0.07
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.14
Consensus pattern (30 bp):
GGGCCTAACCAAGAAAATCTCAGGGCCACA
Found at i:228149 original size:2 final size:2
Alignment explanation
Indices: 228142--228194 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
228132 TAGACTAATC
228142 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
228184 AT AT AT AT AT A
1 AT AT AT AT AT A
228195 CATGCATTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:228709 original size:15 final size:14
Alignment explanation
Indices: 228669--228709 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
228659 TTAACCCAGT
228669 GAGTTGACTCAGCC
1 GAGTTGACTCAGCC
*
228683 GAGTTAACTCAGCGC
1 GAGTTGACTCAGC-C
*
228698 GGGTTGACTCAG
1 GAGTTGACTCAG
228710 TCGACTCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.22
Consensus pattern (14 bp):
GAGTTGACTCAGCC
Found at i:230755 original size:31 final size:31
Alignment explanation
Indices: 230717--230851 Score: 127
Period size: 31 Copynumber: 4.4 Consensus size: 31
230707 GCCTATAGGA
*
230717 CTACCCAAGAAAGTTCTCAGGGCCACGAGGC
1 CTACCCAAGAAAGATCTCAGGGCCACGAGGC
* *
230748 CTTCCCAAGAAAGATC-CTAAGG-C-CGTAGGGC
1 CTACCCAAGAAAGATCTC-AGGGCCACG-A-GGC
*
230779 CTACCCAAGAATGATCTCAGGGCCACG-GGTC
1 CTACCCAAGAAAGATCTCAGGGCCACGAGG-C
* * *
230810 CTACCCAAGAAAAATCCCAGGGCCA-TAGGAC
1 CTACCCAAGAAAGATCTCAGGGCCACGAGG-C
230841 CTACCCAAGAA
1 CTACCCAAGAA
230852 TGATATCGGG
Statistics
Matches: 85, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
29 2 0.02
30 5 0.06
31 74 0.87
32 2 0.02
33 2 0.02
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (31 bp):
CTACCCAAGAAAGATCTCAGGGCCACGAGGC
Found at i:230817 original size:62 final size:62
Alignment explanation
Indices: 230706--230855 Score: 196
Period size: 62 Copynumber: 2.4 Consensus size: 62
230696 AGCATCTTGG
* * * * *
230706 GGCCTATAGGA-CTACCCAAGAAAGTTCTCAGGGCCACGAGGCCTTCCCAAGAAAGATCCTAA
1 GGCC-ATAGGACCTACCCAAGAATGATCTCAGGGCCACGAGGCCTACCCAAGAAAAATCCCAA
* * *
230768 GGCCGTAGGGCCTACCCAAGAATGATCTCAGGGCCACG-GGTCCTACCCAAGAAAAATCCCAG
1 GGCCATAGGACCTACCCAAGAATGATCTCAGGGCCACGAGG-CCTACCCAAGAAAAATCCCAA
230830 GGCCATAGGACCTACCCAAGAATGAT
1 GGCCATAGGACCTACCCAAGAATGAT
230856 ATCGGGGCTG
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
61 6 0.08
62 70 0.92
ACGTcount: A:0.31, C:0.30, G:0.24, T:0.15
Consensus pattern (62 bp):
GGCCATAGGACCTACCCAAGAATGATCTCAGGGCCACGAGGCCTACCCAAGAAAAATCCCAA
Found at i:233667 original size:31 final size:31
Alignment explanation
Indices: 233599--233708 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 31
233589 TGGGGCCTAT
* *
233599 GGGCCTATACAAGAAAGTTCTCAGGGCCACG
1 GGGCCTATCCAAGAAAGATCTCAGGGCCACG
** * *
233630 TTGCCTATCCAAGAAAGATCTTAGGGCCGCG
1 GGGCCTATCCAAGAAAGATCTCAGGGCCACG
* * * * *
233661 GGGCCTAACTAATAATGATCTCAGGGAACACG
1 GGGCCTATCCAAGAAAGATCTCAGGG-CCACG
233693 GGGCCTATCCAAGAAA
1 GGGCCTATCCAAGAAA
233709 AATCCTAGGG
Statistics
Matches: 59, Mismatches: 19, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
31 44 0.75
32 15 0.25
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.18
Consensus pattern (31 bp):
GGGCCTATCCAAGAAAGATCTCAGGGCCACG
Found at i:234300 original size:26 final size:26
Alignment explanation
Indices: 234271--234321 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
234261 AGTAGTTTCA
*
234271 GGTTTACCTAAGAGGTAAGTGGATTG
1 GGTTTACCCAAGAGGTAAGTGGATTG
234297 GGTTTACCCAAGAGGTAAGTGGATT
1 GGTTTACCCAAGAGGTAAGTGGATT
234322 CCATGAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.33, T:0.29
Consensus pattern (26 bp):
GGTTTACCCAAGAGGTAAGTGGATTG
Found at i:237167 original size:20 final size:20
Alignment explanation
Indices: 237138--237176 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
237128 AGAGCTCATA
*
237138 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
237158 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
237177 GTGGTGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:247118 original size:90 final size:88
Alignment explanation
Indices: 246963--247128 Score: 210
Period size: 87 Copynumber: 1.9 Consensus size: 88
246953 TACACACAGG
246963 TATAGGTAGGCTAGAGGGGTGCGTGAGCTCCAAGATGTACCTCAGTCACACCATGATGTCTACCT
1 TATAGGTAGGCTAGAGGGGTGCGTGAGCTCCAAGATGTACCTCAGTCACACCATGATGTCTACCT
*
247028 CTGCT-TGTGTGTTGTATAGTAA
66 CAGCTATGTGTGTTGTATAGTAA
* * * * * **
247050 TATATGTAGGCTAGAGGGGTGTGTGATCTTCGAGATGTAGCCCCTCAGTCGTACCATGATG-CTT
1 TATAGGTAGGCTAGAGGGGTGCGTGAGCTCCAAGATGTA---CCTCAGTCACACCATGATGTC-T
247114 ACCTCAGCTATGTGT
62 ACCTCAGCTATGTGT
247129 ATATGTTTGT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
87 34 0.52
89 1 0.02
90 26 0.39
91 5 0.08
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (88 bp):
TATAGGTAGGCTAGAGGGGTGCGTGAGCTCCAAGATGTACCTCAGTCACACCATGATGTCTACCT
CAGCTATGTGTGTTGTATAGTAA
Found at i:249586 original size:40 final size:40
Alignment explanation
Indices: 249542--249651 Score: 184
Period size: 40 Copynumber: 2.8 Consensus size: 40
249532 AGGAAACTAA
249542 GTGTATATGGTGGGCATGACCTTATGTGTAATACACTTCG
1 GTGTATATGGTGGGCATGACCTTATGTGTAATACACTTCG
* *
249582 GTGTATATGGTGTGCATGACCTTATGTATAATACACTTCG
1 GTGTATATGGTGGGCATGACCTTATGTGTAATACACTTCG
* *
249622 ATGTATATGGTGGGCACGACCTTATGTGTA
1 GTGTATATGGTGGGCATGACCTTATGTGTA
249652 GCACTACGGT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (40 bp):
GTGTATATGGTGGGCATGACCTTATGTGTAATACACTTCG
Found at i:250184 original size:2 final size:2
Alignment explanation
Indices: 250177--250201 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
250167 GAATTTTATT
250177 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
250202 GCTGAAATTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.