Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009633.1 Hibiscus syriacus cultivar Beakdansim tig00117032_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: 2608659
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 13
Found at i:2673 original size:3 final size:3
Alignment explanation
Indices: 2665--2689 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2655 GAAAAATGCA
2665 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
2690 CACAACCATT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:3009 original size:44 final size:44
Alignment explanation
Indices: 2959--3044 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
2949 GTTGTGGAAA
* * * *
2959 AAATGATTGTCTTGTGTAGAGTCTCGTCGGAATTACATTTTGGT
1 AAATGATTGGCTCGTATAGAGTCTCATCGGAATTACATTTTGGT
* *
3003 AAATGATTGGCTCGTATAGGGTCTCATCGGAATTACTTTTTG
1 AAATGATTGGCTCGTATAGAGTCTCATCGGAATTACATTTTG
3045 ATTTAATGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (44 bp):
AAATGATTGGCTCGTATAGAGTCTCATCGGAATTACATTTTGGT
Found at i:3598 original size:15 final size:15
Alignment explanation
Indices: 3586--3615 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3576 TTTGAAAATT
3586 TTATTTTTAAAAAAAA
1 TTATTTTT-AAAAAAA
3602 TTATTTTTAAAAAA
1 TTATTTTTAAAAAA
3616 CCCTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATTTTTAAAAAAA
Found at i:3863 original size:20 final size:20
Alignment explanation
Indices: 3838--3892 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
3828 TTTGGTTCAC
*
3838 GGAATGTAAGATTACCAATG
1 GGAATGTAAGATTACCAATA
*
3858 GGAATGTAAGATTACCAGTA
1 GGAATGTAAGATTACCAATA
3878 GGAATGTAAGATTAC
1 GGAATGTAAGATTAC
3893 TAGGGAATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.25
Consensus pattern (20 bp):
GGAATGTAAGATTACCAATA
Found at i:6445 original size:6 final size:6
Alignment explanation
Indices: 6434--6459 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6424 GTGACAATGC
6434 TAAATT TAAATT TAAATT TAAATT TA
1 TAAATT TAAATT TAAATT TAAATT TA
6460 TTTATTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:8836 original size:95 final size:95
Alignment explanation
Indices: 8664--8924 Score: 321
Period size: 95 Copynumber: 2.7 Consensus size: 95
8654 AGATTATAAT
* *
8664 ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAAAACAATTGGTTAAACACCCCGACTTTATG
1 ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATG
* *
8729 GATAAGAGTCAGCTAGCCTGATAAA-GGTG
66 GATAAGAGTCAGCTAGCATGATAAATGGTA
* * * * *
8758 ATTATACTATACAATAAAGCTTGAGTTGCCCCCCTAAAGCAATTAGTTAAACGCCCTGGCTTTAT
1 ATTATA-TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTAT
** *
8823 GGATATTATTCAGCTAGCATGATAAATGTGGTA
65 GGATAAGAGTCAGCTAGCATGATAAA--TGGTA
* *
8856 ATTATATTTATACAATAATA--TTGAGTAGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTT
1 ATTATA--TATACAATAA-AGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTT
8919 ATGGAT
63 ATGGAT
8925 TTAGCTAGCC
Statistics
Matches: 141, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
94 6 0.04
95 73 0.52
98 51 0.36
99 10 0.07
100 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (95 bp):
ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTATG
GATAAGAGTCAGCTAGCATGATAAATGGTA
Found at i:10231 original size:84 final size:84
Alignment explanation
Indices: 10039--10547 Score: 477
Period size: 84 Copynumber: 6.2 Consensus size: 84
10029 TAAACAAACT
* * * *
10039 ATTTGCAGCATAGCTTAAGTCAAGAAGGGATAT-C-T-ACC-AAAGACCCTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCCGTCACCAAAAGACCTTCGAGTTCGACTACG
*
10100 CTCAGCTTCGAGGGCACATC
66 CTCAGC-TCGAAGGCACATC
* * * *
10120 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCCGTCACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCCGTCACCAAAAGACCTTCGAGTTCGACTACG
* * *
10185 CTCAGCTCTAAGACATATC
66 CTCAGCTCGAAGGCACATC
** * ** *
10204 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATATGCCAATAAAAGACCTTCGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCCGTCACCAAAAGACCTTCGAGTTCGACTACG
* *
10269 CTCAACTCCAAGGCACATC
66 CTCAGCTCGAAGGCACATC
* ** * * * *
10288 ATTTGCAGTATAGTTTAAGTCGAGAAGGGCTAT--AT-GCC-AAAGACCCTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCCGTCACCAAAAGACCTTCGAGTTCGACTACG
* *
10349 CTTAGCTTCGAGGGCACATC
66 CTCAGC-TCGAAGGCACATC
* * * * * *
10369 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCCGTCACCAAAAGACCTTCGAGTTCGACTACG
* *
10434 CTCAGCTCTAAGGCATATC
66 CTCAGCTCGAAGGCACATC
* * * * * * * *
10453 A-TTGTAGCATAGCTTAAGTCGAGAAGGGCTAT-C-T-GCC-AAAGGCTTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCCGTCACCAAAAGACCTTCGAGTTCGACTACG
*
10513 CTCAGCTCCGAGGGCACATC
66 CTCAGCT-CGAAGGCACATC
*
10533 ATTTACAGCATAACT
1 ATTTGCAGCATAACT
10548 CAAGGCTAGA
Statistics
Matches: 341, Mismatches: 76, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
79 26 0.08
80 37 0.11
81 73 0.21
82 1 0.00
83 25 0.07
84 124 0.36
85 55 0.16
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (84 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCCGTCACCAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCGAAGGCACATC
Found at i:10492 original size:164 final size:164
Alignment explanation
Indices: 10077--10582 Score: 559
Period size: 164 Copynumber: 3.1 Consensus size: 164
10067 GATATCTACC
* * * * * *
10077 AAAGACCCTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATT-TACAGCATAACTCAAGGC
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTGT--AGCATAGCTTAAGTC
* * * * * * *
10141 TAGAAGGGTTATCCGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCTAAGACATATCA
63 GAGAAGGGCTAT-C-T-GCC-AAAGACCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCA
* * * * * * *
10205 TTTGCAGCATAACTTAAGTCGAGAAGGGTTATATGCCAATA
124 TTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACA
* * * * *
10246 AAAGACCTTCGAGTTCGACTATGCTCAACTCCAAGGCACATCATTTGCAGTATAGTTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA-TTGTAGCATAGCTTAAGTCGA
* * *
10311 GAAGGGCTATATGCCAAAGACCCTCGAGTTCGACTACGCTTAGCTTCGAGGGCACATCATTTACA
65 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACA
* *
10376 ACATAACTCAAGGCTAGAAGGGTTATCTGTCACCA
130 GCATAACTCAAGGCTAGAAGGGTTATCTGTCAACA
* *
10411 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTGTAGCATAGCTTAAGTCGAG
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTGTAGCATAGCTTAAGTCGAG
* * * * *
10476 AAGGGCTATCTGCCAAAGGCTTTCGAGTTCGATTACACTCAGCTCCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAG
** *
10541 CATAACTCAAGGCTAGAAGAATTATCTGTGAACA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTCAACA
10575 AAA-ACCTT
1 AAAGACCTT
10583 TGAGATTGTT
Statistics
Matches: 284, Mismatches: 50, Indels: 12
0.82 0.14 0.03
Matches are distributed among these distances:
163 5 0.02
164 135 0.48
165 83 0.29
166 1 0.00
168 32 0.11
169 28 0.10
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (164 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTGTAGCATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTCAACA
Found at i:10630 original size:36 final size:36
Alignment explanation
Indices: 10590--10851 Score: 247
Period size: 36 Copynumber: 7.4 Consensus size: 36
10580 CTTTGAGATT
* *
10590 GTTTCCCTTTAAACAAATTTTGTCTCTCTTGAGATA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
10626 GTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
**
10662 GTTTCCCTTGAAACAAATCTTTG--AAT-TT-----A
1 GTTTCCCTTGAAACAAAT-TTTGTCTCTCTTGAGACA
* * * *
10691 -TTTCCCTTAAAACAAAATTTAT-TTTCCCTTAAGACA
1 GTTTCCCTTGAAAC-AAATTT-TGTCTCTCTTGAGACA
** *
10727 GTTTCTTTTGAAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
* *
10764 GTTTCTCTTGAAACAAATTTTGCCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
10800 TTTTCCCTTGAGACAAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACA
*
10837 GTTTCTCTTGAAACA
1 GTTTCCCTTGAAACA
10852 CCAATCTTTG
Statistics
Matches: 182, Mismatches: 30, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
28 14 0.08
29 6 0.03
31 2 0.01
34 2 0.01
36 86 0.47
37 72 0.40
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:10775 original size:37 final size:36
Alignment explanation
Indices: 10722--10851 Score: 188
Period size: 37 Copynumber: 3.6 Consensus size: 36
10712 TTTTCCCTTA
*
10722 AGACAGTTTCTTTTGAAACTAAGTTTTGTCTCTCTTG
1 AGACAGTTTCTCTTGAAAC-AAGTTTTGTCTCTCTTG
* *
10759 AGACAGTTTCTCTTGAAACAAATTTTGCCTCTCTTG
1 AGACAGTTTCTCTTGAAACAAGTTTTGTCTCTCTTG
* * *
10795 AGACATTTTCCCTTGAGACAAAGTTTTGTCTCTCTTG
1 AGACAGTTTCTCTTGAAAC-AAGTTTTGTCTCTCTTG
10832 AGACAGTTTCTCTTGAAACA
1 AGACAGTTTCTCTTGAAACA
10852 CCAATCTTTG
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
36 32 0.40
37 49 0.60
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (36 bp):
AGACAGTTTCTCTTGAAACAAGTTTTGTCTCTCTTG
Found at i:10998 original size:37 final size:36
Alignment explanation
Indices: 10904--11033 Score: 188
Period size: 36 Copynumber: 3.6 Consensus size: 36
10894 CTCTAAGACA
10904 GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAAAT
* * *
10940 GTTTATCTTGAAACACCAAAAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAAAT
*
10976 GTTTCTCTTGAAACACAAAAAAAACCCCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAAAA-ACCTTTGAAAAT
* *
11013 ATTTCTCTTTGAAACCCAAAA
1 GTTTCTC-TTGAAACACAAAA
11034 GACCTTCGAG
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
36 55 0.66
37 16 0.19
38 12 0.14
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (36 bp):
GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAAAT
Found at i:15071 original size:19 final size:19
Alignment explanation
Indices: 15047--15097 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
15037 ACCAACAAAA
15047 TCGCAATGCGATCGCTAAT
1 TCGCAATGCGATCGCTAAT
15066 TCGCAATGCGATCGCTAAT
1 TCGCAATGCGATCGCTAAT
*
15085 TCGCAACGCGATC
1 TCGCAATGCGATC
15098 TCCATTATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (19 bp):
TCGCAATGCGATCGCTAAT
Found at i:15213 original size:20 final size:20
Alignment explanation
Indices: 15188--15254 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
15178 TTTTCCCAAT
15188 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
15208 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
15228 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
15249 TCGCAA
1 TCGCAA
15255 CGTGAATTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:15230 original size:41 final size:41
Alignment explanation
Indices: 15185--15280 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
15175 CGATTTTCCC
15185 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
15226 AATTCGCAATGCGAATAAGTAAATCGCAACGTGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
15267 AAATCGCAATGCGA
1 AATTCGCAATGCGA
15281 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.20
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:15234 original size:21 final size:20
Alignment explanation
Indices: 15188--15280 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
15178 TTTTCCCAAT
*
15188 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
15208 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
15228 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* * **
15249 TCGCAACGTGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
15270 TCGCAATGCGA
1 TCGCAATGCGA
15281 TACTGACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 28 0.50
21 28 0.50
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:15294 original size:20 final size:20
Alignment explanation
Indices: 15269--15363 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
15259 AATTGGGAAA
*
15269 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
15289 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
15310 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
15330 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
15350 TTCGCAACGCGATA
1 ATCGCAACGCGATA
15364 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:15311 original size:41 final size:41
Alignment explanation
Indices: 15266--15343 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
15256 GTGAATTGGG
* * *
15266 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
* *
15307 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA
15344 CTGACTTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:15578 original size:22 final size:22
Alignment explanation
Indices: 15550--15593 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15540 CACTCTCTCA
15550 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
15572 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
15594 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:15881 original size:20 final size:20
Alignment explanation
Indices: 15856--15893 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15846 CGATTCTCTC
15856 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
15876 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
15894 AGAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:17234 original size:18 final size:18
Alignment explanation
Indices: 17213--17257 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
17203 TCCACTTCGG
*
17213 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
17231 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
17249 GAGCCATCA
1 GAGCCATCA
17258 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:17822 original size:14 final size:14
Alignment explanation
Indices: 17803--17839 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
17793 CATCAATTAA
17803 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
17817 ACAAATCACCTTTT
1 ACAAATCAACTTTT
17831 ACAAATCAA
1 ACAAATCAA
17840 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:19261 original size:21 final size:21
Alignment explanation
Indices: 19195--19261 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
19185 GTGAATCGAG
*
19195 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
19215 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
19237 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
19258 CTCT
1 CTCT
19262 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:19280 original size:42 final size:41
Alignment explanation
Indices: 19195--19317 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
19185 GTGAATCGAG
* * * * *
19195 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
19237 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
19279 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
19318 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:21403 original size:33 final size:33
Alignment explanation
Indices: 21346--21444 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
21336 ACGAGATAAT
*
21346 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
21380 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
21413 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
21445 GCGAAATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:21438 original size:19 final size:19
Alignment explanation
Indices: 21321--21486 Score: 136
Period size: 20 Copynumber: 9.1 Consensus size: 19
21311 TCTTTTGGTT
*
21321 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
21340 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
21360 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
21378 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
21394 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
21412 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
21427 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
21447 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
21466 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
21485 GA
1 GA
21487 TTTTGGTTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
14 19 0.16
15 3 0.03
16 2 0.02
17 1 0.01
18 4 0.03
19 43 0.36
20 45 0.38
21 2 0.02
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:21559 original size:20 final size:19
Alignment explanation
Indices: 21482--21565 Score: 114
Period size: 19 Copynumber: 4.4 Consensus size: 19
21472 AAAATCGCAA
**
21482 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
21501 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
21520 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
** *
21539 TGCGATAGTCATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
21559 TGCGATT
1 TGCGATT
21566 CTCATTCTCG
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 47 0.81
20 11 0.19
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.46
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:22115 original size:20 final size:20
Alignment explanation
Indices: 22087--22138 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
22077 CGCTATGTAA
* *
22087 ATCGCGTTGCGAAAGTCAGT
1 ATCGTGTTGCGAAAGTAAGT
22107 ATCGTGTTGCGAAAGTAAGT
1 ATCGTGTTGCGAAAGTAAGT
22127 ATC-TCGTTGCGA
1 ATCGT-GTTGCGA
22139 TTTTTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (20 bp):
ATCGTGTTGCGAAAGTAAGT
Found at i:22173 original size:21 final size:20
Alignment explanation
Indices: 22149--22241 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
22139 TTTTTTATTA
*
22149 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* * **
22170 TCGCGTTGTGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
*
22190 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACCAAT
* **
22211 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
22231 TCGCATTGCGA
1 TCGCATTGCGA
22242 ATTGGGAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:22194 original size:41 final size:41
Alignment explanation
Indices: 22131--22244 Score: 176
Period size: 41 Copynumber: 2.8 Consensus size: 41
22121 GTAAGTATCT
* *
22131 CGTTGCGATTT-TTTATTATCGCATTGCGATTTTCCCAATTCG
1 CGTTGCGATTTACTTA-T-TCGCATTGCGAATTTCCCAATTCG
*
22173 CGTTGTGATTTACTTATTCGCATTGCGAATTTCCCAATTCG
1 CGTTGCGATTTACTTATTCGCATTGCGAATTTCCCAATTCG
22214 CGTTGCGATTTACTTATTCGCATTGCGAATT
1 CGTTGCGATTTACTTATTCGCATTGCGAATT
22245 GGGAAAATCG
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
41 53 0.79
42 11 0.16
43 3 0.04
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (41 bp):
CGTTGCGATTTACTTATTCGCATTGCGAATTTCCCAATTCG
Found at i:27631 original size:28 final size:29
Alignment explanation
Indices: 27599--27657 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
27589 ATCTTAACCA
*
27599 AAAAG-TTTGAGTTCCTAACTAATTTCTG
1 AAAAGTTTTGAGTTCCTAACCAATTTCTG
27627 AAAAGTTTTGAGTTCCTAACCAATTTCTG
1 AAAAGTTTTGAGTTCCTAACCAATTTCTG
27656 AA
1 AA
27658 GTTGCATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (29 bp):
AAAAGTTTTGAGTTCCTAACCAATTTCTG
Found at i:29131 original size:55 final size:55
Alignment explanation
Indices: 29065--29218 Score: 299
Period size: 55 Copynumber: 2.8 Consensus size: 55
29055 GGTGTGGATG
29065 AAAAAGGCTACCCACGATATGTATGCATAATTTTATGGTAAGAGTAAAGATAGAC
1 AAAAAGGCTACCCACGATATGTATGCATAATTTTATGGTAAGAGTAAAGATAGAC
*
29120 AAAAAGGCTACCCACGATATGTATGCATAATTTTATGGTAAGAGTAAAGATGGAC
1 AAAAAGGCTACCCACGATATGTATGCATAATTTTATGGTAAGAGTAAAGATAGAC
29175 AAAAAGGCTACCCACGATATGTATGCATAATTTTATGGTAAGAG
1 AAAAAGGCTACCCACGATATGTATGCATAATTTTATGGTAAGAG
29219 AAACAAACTT
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 98 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (55 bp):
AAAAAGGCTACCCACGATATGTATGCATAATTTTATGGTAAGAGTAAAGATAGAC
Found at i:37814 original size:23 final size:23
Alignment explanation
Indices: 37788--37865 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
37778 CACCACAGCT
37788 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
37811 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
37834 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
37857 TATAATAAT
1 CAT-ATAAT
37866 GTCCATAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 43 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:38043 original size:103 final size:103
Alignment explanation
Indices: 37872--38089 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
37862 TAATGTCCAT
* *
37872 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
37937 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* * *
37975 AAGGACCACATATCATTCGTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACTA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
38040 GACTTCATACATGTTCCAAAGAATGCATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
38078 AAGGACCACATA
1 AAGGACCACATA
38090 GACCCTCGAC
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:42875 original size:23 final size:23
Alignment explanation
Indices: 42849--42926 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
42839 CACCACAGCT
42849 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* * *
42872 CATATAATTACACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
42895 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
42918 TATAATAAT
1 CAT-ATAAT
42927 GTCCATAAGG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:44078 original size:15 final size:15
Alignment explanation
Indices: 44048--44187 Score: 56
Period size: 16 Copynumber: 8.8 Consensus size: 15
44038 AACTATAAAT
*
44048 TATAATTTATA-AAA
1 TATAATTTATATTAA
*
44062 TATAGTTTATATTAA
1 TATAATTTATATTAA
44077 TATTAATTT-TA-TAGA
1 TA-TAATTTATATTA-A
*
44092 CTATATTTTATATTAA
1 -TATAATTTATATTAA
* *
44108 TATTAATTAAAAATT-A
1 TA-TAATT-TATATTAA
*
44124 TAAACTATATTATATTAA
1 TATA--AT-TTATATTAA
*
44142 TATAAGTTATTATTAA
1 TATAATTTA-TATTAA
44158 TTATAAATAGTT-TATTAA
1 -TAT-AAT--TTATATTAA
*
44176 TATAAATTATAT
1 TATAATTTATAT
44188 AGGGATGAAA
Statistics
Matches: 94, Mismatches: 14, Indels: 35
0.66 0.10 0.24
Matches are distributed among these distances:
14 14 0.15
15 21 0.22
16 26 0.28
17 18 0.19
18 13 0.14
20 2 0.02
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (15 bp):
TATAATTTATATTAA
Found at i:44102 original size:31 final size:31
Alignment explanation
Indices: 44053--44115 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
44043 TAAATTATAA
44053 TTTATAAAATATAGTTTATATTAATATTAAT
1 TTTATAAAATATAGTTTATATTAATATTAAT
* * *
44084 TTTATAGACTATATTTTATATTAATATTAAT
1 TTTATAAAATATAGTTTATATTAATATTAAT
44115 T
1 T
44116 AAAAATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (31 bp):
TTTATAAAATATAGTTTATATTAATATTAAT
Found at i:44940 original size:24 final size:24
Alignment explanation
Indices: 44903--44955 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
44893 CTCAAACCTT
*
44903 AAACCCAAACCTGAACCTAAATCC
1 AAACCCAAACCTGAACCCAAATCC
* * *
44927 AAACCCGAATCTGAACCCAAATCT
1 AAACCCAAACCTGAACCCAAATCC
44951 AAACC
1 AAACC
44956 AGAACCTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.36, G:0.06, T:0.13
Consensus pattern (24 bp):
AAACCCAAACCTGAACCCAAATCC
Found at i:44943 original size:12 final size:12
Alignment explanation
Indices: 44902--44955 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
44892 ACTCAAACCT
*
44902 TAAACCCAAACC
1 TAAACCCAAATC
* *
44914 TGAACCTAAATC
1 TAAACCCAAATC
* *
44926 CAAACCCGAATC
1 TAAACCCAAATC
*
44938 TGAACCCAAATC
1 TAAACCCAAATC
44950 TAAACC
1 TAAACC
44956 AGAACCTAAA
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.44, C:0.35, G:0.06, T:0.15
Consensus pattern (12 bp):
TAAACCCAAATC
Found at i:44946 original size:18 final size:18
Alignment explanation
Indices: 44897--44947 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
44887 CCAAAACTCA
*
44897 AACCTTAAACCCAAACCTG
1 AACC-TAAACCCAAACCCG
*
44916 AACCTAAATCCAAACCCG
1 AACCTAAACCCAAACCCG
* *
44934 AATCTGAACCCAAA
1 AACCTAAACCCAAA
44948 TCTAAACCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.45, C:0.35, G:0.06, T:0.14
Consensus pattern (18 bp):
AACCTAAACCCAAACCCG
Found at i:51871 original size:74 final size:74
Alignment explanation
Indices: 51750--51902 Score: 306
Period size: 74 Copynumber: 2.1 Consensus size: 74
51740 CCATGTCTGT
51750 GATCTTGCTTATGTCTCTTAGATATACACGCTGATCTGTTTAAGAAACCAGTAAGTAAAATTGGG
1 GATCTTGCTTATGTCTCTTAGATATACACGCTGATCTGTTTAAGAAACCAGTAAGTAAAATTGGG
51815 TGCATGAGA
66 TGCATGAGA
51824 GATCTTGCTTATGTCTCTTAGATATACACGCTGATCTGTTTAAGAAACCAGTAAGTAAAATTGGG
1 GATCTTGCTTATGTCTCTTAGATATACACGCTGATCTGTTTAAGAAACCAGTAAGTAAAATTGGG
51889 TGCATGAGA
66 TGCATGAGA
51898 GATCT
1 GATCT
51903 GGCATGGTGC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 79 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (74 bp):
GATCTTGCTTATGTCTCTTAGATATACACGCTGATCTGTTTAAGAAACCAGTAAGTAAAATTGGG
TGCATGAGA
Found at i:54203 original size:18 final size:18
Alignment explanation
Indices: 54178--54222 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
54168 TATAATTAAA
54178 TTTT-AATAAATGA-TTAT
1 TTTTAAATAAAT-ACTTAT
54195 TTTTAAATAAATACTTAT
1 TTTTAAATAAATACTTAT
54213 TTTGTAAATA
1 TTT-TAAATA
54223 TTAAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
19 6 0.24
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTAAATAAATACTTAT
Found at i:54236 original size:6 final size:6
Alignment explanation
Indices: 54222--54318 Score: 51
Period size: 6 Copynumber: 16.5 Consensus size: 6
54212 TTTTGTAAAT
* * * * *
54222 ATTAAA ATTATA ATTTTA A-TATA ATTATA ATTATA AGGATATA TTTAAA
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA A--TTATA ATTATA
* * * *
54271 ATTAATC ATT-T- ATTAAA ATT-TA ATTATA ATTTTA A-TAGA ATTATA
1 ATT-ATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA
54316 ATT
1 ATT
54319 TGTCCTTATA
Statistics
Matches: 67, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
4 3 0.04
5 12 0.18
6 44 0.66
7 4 0.06
8 4 0.06
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (6 bp):
ATTATA
Found at i:54246 original size:11 final size:12
Alignment explanation
Indices: 54222--54318 Score: 51
Period size: 11 Copynumber: 8.2 Consensus size: 12
54212 TTTTGTAAAT
*
54222 ATTAAAATTATA
1 ATTATAATTATA
*
54234 ATTTTAA-TATA
1 ATTATAATTATA
54245 ATTATAATTATA
1 ATTATAATTATA
* * *
54257 AGGATATATTTAAA
1 A--TTATAATTATA
*
54271 ATTAATCATT-T-
1 ATT-ATAATTATA
*
54282 ATTAAAATT-TA
1 ATTATAATTATA
*
54293 ATTATAATTTTA
1 ATTATAATTATA
*
54305 A-TAGAATTATA
1 ATTATAATTATA
54316 ATT
1 ATT
54319 TGTCCTTATA
Statistics
Matches: 63, Mismatches: 15, Indels: 14
0.68 0.16 0.15
Matches are distributed among these distances:
10 5 0.08
11 30 0.48
12 15 0.24
13 4 0.06
14 9 0.14
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (12 bp):
ATTATAATTATA
Found at i:63455 original size:29 final size:29
Alignment explanation
Indices: 63412--63494 Score: 148
Period size: 29 Copynumber: 2.8 Consensus size: 29
63402 CTCACCTAAC
63412 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
63442 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
63471 TAAATGATGTAAGCAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
63495 ATTTAGTTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 47 0.92
30 4 0.08
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:67934 original size:29 final size:29
Alignment explanation
Indices: 67891--67973 Score: 148
Period size: 29 Copynumber: 2.8 Consensus size: 29
67881 CTCACCTAAC
67891 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
67921 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
67950 TAAATGATGTAAGCAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
67974 ATTTAGTTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 47 0.92
30 4 0.08
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:75526 original size:51 final size:51
Alignment explanation
Indices: 75441--75553 Score: 124
Period size: 51 Copynumber: 2.2 Consensus size: 51
75431 GCTCTATGTC
** * *
75441 CCGCGCTATATGCTGATTTGGTACCACGTGGGGTACAATGCGCCCCCTG-T
1 CCGCGCTATATGCTGACATGGTACCACGTGGGGTACAACGCGACCCCTGAT
* *
75491 ACCGCGCTATATGCTGACATGGCTTA-CACGT-GGGTATAGCGCGACCCCTGAT
1 -CCGCGCTATATGCTGACATGG--TACCACGTGGGGTACAACGCGACCCCTGAT
75543 CCGCGCTATAT
1 CCGCGCTATAT
75554 TTTTTTATCT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
51 45 0.85
52 6 0.11
53 2 0.04
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.25
Consensus pattern (51 bp):
CCGCGCTATATGCTGACATGGTACCACGTGGGGTACAACGCGACCCCTGAT
Found at i:85030 original size:13 final size:14
Alignment explanation
Indices: 85012--85040 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
85002 TTATAAGGTA
85012 ATTTTGTTAT-ATT
1 ATTTTGTTATAATT
85025 ATTTTGTTATAATT
1 ATTTTGTTATAATT
85039 AT
1 AT
85041 ATATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (14 bp):
ATTTTGTTATAATT
Found at i:87846 original size:17 final size:16
Alignment explanation
Indices: 87800--87847 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
87790 TCTGTAAAAA
* *
87800 ATTAATTAAATAAAAT
1 ATTAAATAAATTAAAT
87816 ATTAAA-AAATTTAAAT
1 ATTAAATAAA-TTAAAT
87832 ACTTAAATAAATTAAA
1 A-TTAAATAAATTAAA
87848 AACAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.11
16 11 0.41
17 10 0.37
18 3 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
ATTAAATAAATTAAAT
Found at i:88991 original size:4 final size:4
Alignment explanation
Indices: 88975--89042 Score: 109
Period size: 4 Copynumber: 17.0 Consensus size: 4
88965 ACGTTTATTA
* *
88975 CTAT CTAT TTAT CTAT CTAT CTAT ATAT CTAT CTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
*
89023 CTAC CTAT CTAT CTAT CTAT
1 CTAT CTAT CTAT CTAT CTAT
89043 ATGTGTTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 58 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (4 bp):
CTAT
Found at i:89944 original size:43 final size:42
Alignment explanation
Indices: 89894--90204 Score: 263
Period size: 43 Copynumber: 7.3 Consensus size: 42
89884 TGAGAACAAA
* * *
89894 AAACGCCGCAATAGGTCAATATCTATTACGGCGTTTTTTGAAC
1 AAACGCCGCAAAAGGTC-AGATCTATTACGGCGTTTTTGGAAC
* *
89937 AAACGCCGCAAAAGGTCGATATCTA-TAGCGGCGTTTTTGGAAT
1 AAACGCCGCAAAAGGTC-AGATCTATTA-CGGCGTTTTTGGAAC
* * * * * *
89980 AAACGCCGCAAAAAGTTATGATATA-TAGCGGCGTTTCTAGAAA
1 AAACGCCGCAAAAGGTCA-GATCTATTA-CGGCGTTTTTGGAAC
* * *
90023 AAACGCCGCAAAAAGTCAGATCTATAACAGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATTACGGCGTTTTTGGA-AC
* * * *
90066 AAACGCCACAAAAGATAAGA-C-ATATACTGGCGTTTTTAGAAC
1 AAACGCCGCAAAAGGTCAGATCTAT-TAC-GGCGTTTTTGGAAC
* * *
90108 AAACGCCGTAAAAGGTCAGACCTA-TAGTGGCGTTTTTGGACAC
1 AAACGCCGCAAAAGGTCAGATCTATTA-CGGCGTTTTTGGA-AC
* * * *
90151 AAACGCCGCAAAATGTCAGACCTATAACGGCGTTTTTGAACAC
1 AAACGCCGCAAAAGGTCAGATCTATTACGGCGTTTTTGGA-AC
90194 AAACGCCGCAA
1 AAACGCCGCAA
90205 TGTCAAACAT
Statistics
Matches: 221, Mismatches: 36, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.01
42 52 0.24
43 165 0.75
44 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
AAACGCCGCAAAAGGTCAGATCTATTACGGCGTTTTTGGAAC
Found at i:90056 original size:128 final size:127
Alignment explanation
Indices: 89891--90204 Score: 321
Period size: 128 Copynumber: 2.4 Consensus size: 127
89881 GTTTGAGAAC
* * * * * *
89891 AAAAAACGCCGCAATAGGTCAATATCTATTACGGCGTTTTTTGA-ACAAACGCCGCAAAAGGT-C
1 AAAAAACGCCGCAAAAAGTC-AGATCTATAACGGCGTTTTTTGACACAAACGCCGCAAAAGATAA
* * * * *
89954 GATATCTATAGC-GGCGTTTTTGGAATAAACGCCGCAAAAAGTTATGATATATAGCGGCGTTTCT
65 GACA--TATA-CTGGCGTTTTTAGAACAAACGCCGCAAAAAGTCA-GACATATAGCGGCGTTTCT
90018 AG
126 AG
* * * *
90020 AAAAAACGCCGCAAAAAGTCAGATCTATAACAGCGTTTTTGGATACAAACGCCACAAAAGATAAG
1 AAAAAACGCCGCAAAAAGTCAGATCTATAACGGCGTTTTTTGACACAAACGCCGCAAAAGATAAG
* * * * * *
90085 ACATATACTGGCGTTTTTAGAACAAACGCCGTAAAAGGTCAGACCTATAGTGGCGTTTTTGG
66 ACATATACTGGCGTTTTTAGAACAAACGCCGCAAAAAGTCAGACATATAGCGGCGTTTCTAG
* * *
90147 ACACAAACGCCGCAAAATGTCAGACCTATAACGGCG-TTTTTGAACACAAACGCCGCAA
1 A-AAAAACGCCGCAAAAAGTCAGATCTATAACGGCGTTTTTTG-ACACAAACGCCGCAA
90205 TGTCAAACAT
Statistics
Matches: 153, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
127 23 0.15
128 93 0.61
129 34 0.22
130 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (127 bp):
AAAAAACGCCGCAAAAAGTCAGATCTATAACGGCGTTTTTTGACACAAACGCCGCAAAAGATAAG
ACATATACTGGCGTTTTTAGAACAAACGCCGCAAAAAGTCAGACATATAGCGGCGTTTCTAG
Found at i:90098 original size:85 final size:84
Alignment explanation
Indices: 89922--90231 Score: 317
Period size: 85 Copynumber: 3.7 Consensus size: 84
89912 ATATCTATTA
* * *
89922 CGGCGTTTTTTGAACAAACGCCGCAAAAGGTCGATATCTATAGCGGCGTTTTTGGAATAAACGCC
1 CGGCGTTTTTAGAACAAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAACAAACGCC
* * *
89987 GCAAAAAGTTATGATATATAG
65 GC-AAAAGATAAGACATATAG
* * * * *
90008 CGGCGTTTCTAGAAAAAACGCCGCAAAAAGTCAGATCTATAACAGCGTTTTTGGATACAAACGCC
1 CGGCGTTTTTAGAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAACGCC
*
90073 ACAAAAGATAAGACATATA-
65 GCAAAAGATAAGACATATAG
* * *
90092 CTGGCGTTTTTAGAACAAACGCCGTAAAAGGTCAGACCTATAGTGGCGTTTTTGGACACAAACGC
1 C-GGCGTTTTTAGAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGA-ACAAACGC
* * *
90157 CGCAAAATG-TCAGACCTATAA
64 CGCAAAA-GATAAGACATATAG
* *
90178 CGGCGTTTTT-GAACACAAACGCCGC--AATGTCA-AACATATAGCGGCGTTTTTGGA
1 CGGCGTTTTTAG-A-ACAAACGCCGCAAAAGGTCAGATC-TATAGCGGCGTTTTTGGA
90232 TTTAAGCCGC
Statistics
Matches: 189, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
83 2 0.01
84 25 0.13
85 113 0.60
86 49 0.26
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (84 bp):
CGGCGTTTTTAGAACAAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGAACAAACGCCG
CAAAAGATAAGACATATAG
Found at i:90223 original size:41 final size:42
Alignment explanation
Indices: 89874--90229 Score: 164
Period size: 43 Copynumber: 8.3 Consensus size: 42
89864 CCGCTAAAGT
** * *
89874 TAGCGGCGTTTGAGAACAAAAAACGCCGCAATAGGTCAATATC-TA
1 TAGCGGCGTTTTTGAAC-ACAAACGCCGCAA-ATGTCAA-A-CATA
* *
89919 TTA-CGGCGTTTTTTG-A-ACAAACGCCGCAAAAGGTCGATATC-TA
1 -TAGCGGCG-TTTTTGAACACAAACGCCGC-AAATGTC-A-AACATA
* * * * * *
89962 TAGCGGCGTTTTTGGA-ATAAACGCCGCAAAAAGTTATGATATA
1 TAGCGGCGTTTTTGAACACAAACGCCGC-AAATGTCA-AACATA
* * *
90005 TAGCGGCGTTTCTAGAA-A-AAACGCCGCAAAAAGTCAGATC-TA
1 TAGCGGCGTTT-TTGAACACAAACGCCGC-AAATGTCA-AACATA
* * * * * *
90047 TAACAGCGTTTTTGGATACAAACGCCACAAAAGAT-AAGACATA
1 TAGCGGCGTTTTTGAACACAAACGCCGCAAATG-TCAA-ACATA
* * * *
90090 TA-CTGGCGTTTTT-AGA-ACAAACGCCGTAAAAGGTCAGACCTA
1 TAGC-GGCGTTTTTGA-ACACAAACGCCG-CAAATGTCAAACATA
* * * *
90132 TAGTGGCGTTTTTGGACACAAACGCCGCAAAATGTCAGACCTA
1 TAGCGGCGTTTTTGAACACAAACGCCGC-AAATGTCAAACATA
*
90175 TAACGGCGTTTTTGAACACAAACGCCGC-AATGTCAAACATA
1 TAGCGGCGTTTTTGAACACAAACGCCGCAAATGTCAAACATA
90216 TAGCGGCGTTTTTG
1 TAGCGGCGTTTTTG
90230 GATTTAAGCC
Statistics
Matches: 249, Mismatches: 40, Indels: 47
0.74 0.12 0.14
Matches are distributed among these distances:
41 28 0.11
42 56 0.22
43 145 0.58
44 7 0.03
45 7 0.03
46 6 0.02
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (42 bp):
TAGCGGCGTTTTTGAACACAAACGCCGCAAATGTCAAACATA
Found at i:93937 original size:41 final size:41
Alignment explanation
Indices: 93878--94166 Score: 314
Period size: 41 Copynumber: 7.0 Consensus size: 41
93868 CACTTCATTT
93878 AGTATGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAA
1 AGTATGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAA
*
93919 ATTATGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAA
1 AGTATGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAA
* * * * * *
93960 ATTATGAGTCTTTAACGACGTTTGTAAACACAAACGCCATTAT
1 AGTATGAGTCTTTAGCGGCGTTTGTATA-A-AAACGCCACTAA
* * * *
94003 AGTA-CATGTGTATAACGGCGTTTGTATAAAAACGCCACTAA
1 AGTATGA-GTCTTTAGCGGCGTTTGTATAAAAACGCCACTAA
** * * *
94044 AGTACAATTCTATAGCGGCGTTTGTATAAAAATGCCACTAA
1 AGTATGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAA
* * *
94085 ATTACGAGTCTTTAGCGGCGTTTGTATAAAAACGGCACTAA
1 AGTATGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAA
* *
94126 AGTACT-ACTCTTTTGCGGCGTTTGT-TGAAAAAACGCCACTA
1 AGTA-TGAGTCTTTAGCGGCGTTTGTAT--AAAAACGCCACTA
94167 TTGATGATCC
Statistics
Matches: 211, Mismatches: 30, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.00
41 164 0.78
42 16 0.08
43 30 0.14
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (41 bp):
AGTATGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAA
Found at i:103992 original size:44 final size:46
Alignment explanation
Indices: 103929--104019 Score: 159
Period size: 44 Copynumber: 2.0 Consensus size: 46
103919 TAATGCTACA
103929 TATTTTACTTGGAAATCTGTGTCT-AAA-CTACTAAATATCTATAC
1 TATTTTACTTGGAAATCTGTGTCTAAAATCTACTAAATATCTATAC
*
103973 TATTTTACTTGGAAATCTGTGTCTAAAATCTACTATATATCTATAC
1 TATTTTACTTGGAAATCTGTGTCTAAAATCTACTAAATATCTATAC
104019 T
1 T
104020 TCATGTGAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 24 0.55
45 3 0.07
46 17 0.39
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (46 bp):
TATTTTACTTGGAAATCTGTGTCTAAAATCTACTAAATATCTATAC
Found at i:107526 original size:2 final size:2
Alignment explanation
Indices: 107519--107553 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
107509 GCCAATTTCT
107519 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
107554 TTCTATATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:110239 original size:41 final size:40
Alignment explanation
Indices: 110184--110281 Score: 169
Period size: 41 Copynumber: 2.4 Consensus size: 40
110174 CTTACAATAT
*
110184 ATTTATTTTAAGATATAACTTTCATCAAGTTAAAACTTAA
1 ATTTATGTTAAGATATAACTTTCATCAAGTTAAAACTTAA
110224 ATTTATGTTAAAGATATAACTTTCATCAAGTTAAAACTTAA
1 ATTTATGTT-AAGATATAACTTTCATCAAGTTAAAACTTAA
*
110265 ATTTAAGTTAAGATATA
1 ATTTATGTTAAGATATA
110282 TTTTAAATTA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
40 16 0.29
41 39 0.71
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (40 bp):
ATTTATGTTAAGATATAACTTTCATCAAGTTAAAACTTAA
Found at i:111522 original size:229 final size:228
Alignment explanation
Indices: 111122--111603 Score: 874
Period size: 229 Copynumber: 2.1 Consensus size: 228
111112 TTATCTGTCC
* * *
111122 TTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGTTAATA
1 TTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGTTAATA
*
111187 TTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGT
66 TTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTTTGTGT
111252 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
131 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
*
111317 TAAATTACATAACTTTCAAAAAAGTATATATCA
196 TAAATTACATAACTTTAAAAAAAGTATATATCA
* *
111350 TTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATTTTTATTATTATATTTGGTTAAT
1 TTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAGTTAAT
*
111415 ATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTTTGTG
65 ATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTTTGTG
*
111480 TAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
130 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
111545 ATAAATTACATAACTTTAAAAAAAGTATATATCA
195 ATAAATTACATAACTTTAAAAAAAGTATATATCA
111579 TTTTTATAAAAGTGTCCATACTTAT
1 TTTTTATAAAAGTGTCCATACTTAT
111604 AAAAGTATGT
Statistics
Matches: 244, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
228 31 0.13
229 213 0.87
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (228 bp):
TTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGTTAATA
TTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTTTGTGT
AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
TAAATTACATAACTTTAAAAAAAGTATATATCA
Found at i:111885 original size:20 final size:19
Alignment explanation
Indices: 111862--111908 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
111852 CGATATACCA
111862 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
111882 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
111902 GGTAAAA
1 GGTAAAA
111909 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:112026 original size:181 final size:182
Alignment explanation
Indices: 111709--112122 Score: 632
Period size: 181 Copynumber: 2.3 Consensus size: 182
111699 AGGTAAAACT
* * * * * * *
111709 ATGACAAAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGA
1 ATGATAAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGA
* * * *
111774 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTAAAAAATG
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAAAAAAATA
*
111839 TATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAA
131 TATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAA
*
111891 ATGATAAAACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGA
1 ATGATAAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGA
* ** *
111955 CACTTTGTGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATACTTTAAAAAAATA
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAAAAAAATA
* *
112020 TATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAA
131 TATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAA
* *
112072 ATGATAAAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
1 ATGATAAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
112123 CGTAAGTACG
Statistics
Matches: 211, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
181 167 0.79
182 44 0.21
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
ATGATAAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGA
CACTTCGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAAAAAAATA
TATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAA
Found at i:112066 original size:20 final size:19
Alignment explanation
Indices: 112043--112089 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
112033 CGATATAACA
112043 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
112063 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
112083 GGTAAAA
1 GGTAAAA
112090 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:112091 original size:17 final size:19
Alignment explanation
Indices: 112052--112094 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
112042 AGGTAAAAAT
112052 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
112072 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
112089 ATGATA
1 ATGATA
112095 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:114350 original size:21 final size:21
Alignment explanation
Indices: 114325--114389 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
114315 AAGACAATCA
*
114325 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* * *
114346 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
114367 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
114388 AG
1 AG
114390 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:114465 original size:33 final size:33
Alignment explanation
Indices: 114423--114488 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
114413 AAATAGATGG
*
114423 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
114456 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
114489 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:116304 original size:19 final size:19
Alignment explanation
Indices: 116280--116328 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
116270 AATGTAGGGT
116280 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
116299 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
116318 TATTTTTGTAT
1 TAATTTTGTAT
116329 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:116788 original size:199 final size:199
Alignment explanation
Indices: 116447--117815 Score: 2485
Period size: 199 Copynumber: 6.9 Consensus size: 199
116437 CAATATGGCC
* * *
116447 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
* *
116512 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
* *
116577 GAATATGTCTAAATAATGTGTCAACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 TAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
116642 TGGAA
195 TGGAA
*
116647 AACAGGGTGCACCCATAAAGTGACGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* * *
116712 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTGCAATTATACCAGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
116777 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
116842 GGAA
196 GGAA
116846 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
116911 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
116976 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
117041 GGAA
196 GGAA
117045 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
117110 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
117175 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
117239 GGAA
196 GGAA
117243 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
117308 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
117373 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTATCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
117438 GGAA
196 GGAA
*
117442 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
117507 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
117572 TAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
130 TAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
117636 TGGAA
195 TGGAA
117641 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* * * *
117706 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
117771 AATATGTCTAAATAATGTGTCGACACGT--TATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
117816 CTAATTTAAA
Statistics
Matches: 1137, Mismatches: 29, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
197 17 0.01
198 283 0.25
199 668 0.59
200 169 0.15
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:117645 original size:596 final size:597
Alignment explanation
Indices: 116447--117815 Score: 2521
Period size: 596 Copynumber: 2.3 Consensus size: 597
116437 CAATATGGCC
* * *
116447 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
*
116512 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
116577 GAATATGTCTAAATAATGTGTCAACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
116642 TGGAAAACAGGGTGCACCCATAAAGTGACGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
195 TGGAAAACAGGGTGCACCCATAAAGTGACGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
* *
116707 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTGCAATTATACCAGTTTTAT
260 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAATTATACCAGTTTTAT
*
116772 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAA
325 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTATCGATATTTTTTTTCCAGAA
116837 TGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
390 TGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
*
116902 CATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
455 CATCGAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
116967 TTATGAGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCC
520 TTATGAGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCC
117032 AGAATGAATGGAA
585 AGAATGAATGGAA
117045 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* * *
117110 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
117175 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
*
117239 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
196 GGAAAACAGGGTGCACCCATAAAGTGACGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
*
117304 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAATTATACCGGTTTTATG
261 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAATTATACCAGTTTTATG
*
117369 AGATAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTATCGATATTTTTTTTCCAGAAT
326 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTATCGATATTTTTTTTCCAGAAT
117434 GAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
391 GAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
117499 ATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
456 ATCG-AAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTT
117564 TTATGAGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCC
520 TTATGAGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCC
117628 AGAATGAATGGAA
585 AGAATGAATGGAA
117641 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* *
117706 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
117771 AATATGTCTAAATAATGTGTCGACACGT--TATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACAC-TAATATAGTTTGTGTCGATA
117816 CTAATTTAAA
Statistics
Matches: 747, Mismatches: 22, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
595 17 0.02
596 448 0.60
597 223 0.30
598 59 0.08
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (597 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAAAACAGGGTGCACCCATAAAGTGACGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAATTATACCAGTTTTATG
AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTATCGATATTTTTTTTCCAGAAT
GAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
ATCGAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
TATGAGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCA
GAATGAATGGAA
Found at i:118967 original size:18 final size:18
Alignment explanation
Indices: 118946--119007 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
118936 AGCGGTCGCA
118946 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
118964 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
118982 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
119000 GAAGATGA
1 GAAGATGA
119008 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:118970 original size:6 final size:6
Alignment explanation
Indices: 118946--119037 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
118936 AGCGGTCGCA
* * * * * *
118946 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
118994 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
119038 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:118981 original size:3 final size:3
Alignment explanation
Indices: 118961--119041 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
118951 TGAAGCTGAC
* * * * * ** *
118961 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
119009 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
119042 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:119000 original size:36 final size:36
Alignment explanation
Indices: 118949--119025 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
118939 GGTCGCAGAA
*
118949 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
118985 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
119021 GATGA
1 GATGA
119026 TGATGAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:119041 original size:12 final size:12
Alignment explanation
Indices: 118949--119037 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
118939 GGTCGCAGAA
*
118949 GATGAAGCTGAC
1 GATGAAGATGAC
118961 GATGAAGATGAC
1 GATGAAGATGAC
*
118973 GATGATGATGAC
1 GATGAAGATGAC
* *
118985 GATGAAGCTGGC
1 GATGAAGATGAC
*
118997 GATGAAGATGAT
1 GATGAAGATGAC
* * *
119009 GACGATGATGAT
1 GATGAAGATGAC
* *
119021 GATGATGATGAA
1 GATGAAGATGAC
119033 GATGA
1 GATGA
119038 TGATCCAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:119041 original size:18 final size:18
Alignment explanation
Indices: 118946--119037 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
118936 AGCGGTCGCA
*
118946 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
118964 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
118982 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* * *
119000 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
119018 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
119036 GA
1 GA
119038 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:120818 original size:183 final size:182
Alignment explanation
Indices: 120543--121035 Score: 878
Period size: 183 Copynumber: 2.7 Consensus size: 182
120533 GCAATGCTAT
*
120543 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
120608 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
*
120673 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
120726 CGGTATAAATATATCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
120791 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
120856 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
120909 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
120974 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
121036 GTAATTTTAA
Statistics
Matches: 296, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
183 292 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:121779 original size:13 final size:13
Alignment explanation
Indices: 121761--121787 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
121751 TATAATGTTG
121761 ACATTCATCTGAT
1 ACATTCATCTGAT
121774 ACATTCATCTGAT
1 ACATTCATCTGAT
121787 A
1 A
121788 AGGACTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (13 bp):
ACATTCATCTGAT
Found at i:123546 original size:25 final size:25
Alignment explanation
Indices: 123518--123582 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
123508 TTATCATTAA
123518 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
123543 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
123568 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
123583 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:123936 original size:23 final size:23
Alignment explanation
Indices: 123905--123977 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
123895 ATAGGTAAAC
*
123905 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
123928 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
123951 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
123974 ATAT
1 ATAT
123978 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:124425 original size:18 final size:18
Alignment explanation
Indices: 124404--124440 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
124394 GTAATTGGAG
124404 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
124422 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
124440 T
1 T
124441 ATATACTTCG
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:124741 original size:39 final size:39
Alignment explanation
Indices: 124698--124784 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
124688 TCCGATGCTC
*
124698 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
124737 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
124776 ATCAAAATC
1 ATCAAAATC
124785 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:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:125237 original size:23 final size:23
Alignment explanation
Indices: 125206--125278 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
125196 ATAGGTAAAA
*
125206 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * **
125229 ATATAATGTAATGGGTATCATTT
1 ATATAATGTAATAGGTAGCGCTT
* *
125252 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
125275 ATAT
1 ATAT
125279 TGTAAAGTGT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:125483 original size:30 final size:29
Alignment explanation
Indices: 125424--125490 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
125414 GTTACGATAT
* *
125424 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATAAAATTAAAAAATCTAAATA
125454 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAAT-T-AAAAAATCTAAATA
*
125484 ATTTTTT
1 ATATTTT
125491 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATAAAATTAAAAAATCTAAATA
Found at i:125667 original size:23 final size:23
Alignment explanation
Indices: 125636--125708 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
125626 ATAGGTAAAA
*
125636 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
125659 ATATAATGTAATGGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
125682 ATATAATGTAATAGGTAGCGGTT
1 ATATAATGTAATAGGTAGCGCTT
125705 ATAT
1 ATAT
125709 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:125733 original size:46 final size:45
Alignment explanation
Indices: 125636--125733 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
125626 ATAGGTAAAA
* * *
125636 ATATGATGTAATAGGTAGCGCTTATATAATGTAATGGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATGGCTATCCTTT
* *
125682 ATATAATGTAATAGGTAGCGGTTATAT-TGTAAAGTGTCTATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TGGCTATCCTTT
*
125728 TTATAA
1 ATATAA
125734 AAGTGTCCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.05
46 39 0.89
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATGGCTATCCTTT
Found at i:125803 original size:430 final size:430
Alignment explanation
Indices: 125003--126488 Score: 2828
Period size: 430 Copynumber: 3.5 Consensus size: 430
124993 GTTAATGTTG
*
125003 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
*
125068 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
125133 AATTACATAACTTTAAAATAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
125198 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATGGGTATCATTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATGGGTATCGTTTATATAATGTAA
*
125263 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
125328 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
125393 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
125433 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
125498 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
125563 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
125628 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATGGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATGGGTATCGTTTATATAATGTAA
*
125693 TAGGTAGCGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
125758 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
125823 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
125863 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
125928 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
125993 AATTACATAACTTTAAAAGAAGTATTGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
* *
126058 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATTATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATGGGTATCGTTTATATAATGTAA
126123 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
126188 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAAGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
126253 GTCTAATAATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
126293 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGAAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
126358 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
* *
126423 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
126488 A
196 A
126489 TAATATAATA
Statistics
Matches: 1036, Mismatches: 20, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
430 1036 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATGGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:126097 original size:23 final size:23
Alignment explanation
Indices: 126066--126138 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
126056 ATAGGTAAAA
*
126066 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
126089 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
126112 ATATTATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
126135 ATAT
1 ATAT
126139 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:126358 original size:31 final size:31
Alignment explanation
Indices: 126284--126350 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
126274 GTTACGATAT
* *
126284 ATATTATTATTAAAT-T-AAAAATTCTAAATA
1 ATATT-TTATAAAATATCAAAAAATCTAAATA
126314 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAATATCAAAAAATCTAAATA
*
126344 ATTTTTT
1 ATATTTT
126351 GTGAAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (31 bp):
ATATTTTATAAAATATCAAAAAATCTAAATA
Found at i:126601 original size:23 final size:23
Alignment explanation
Indices: 126555--126602 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
126545 AAATAGGTAA
* *
126555 ATATAAGCGCTATCTATTACATT
1 ATATAAGCGCTACCTAGTACATT
*
126578 ATATAAGCGCTACCTAGTATATT
1 ATATAAGCGCTACCTAGTACATT
126601 AT
1 AT
126603 TGTACTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAGTACATT
Found at i:130622 original size:38 final size:38
Alignment explanation
Indices: 130548--130625 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
130538 TTTGGTATTC
** * *
130548 GGGTCGGATTTTTTAAAAAAAATTTCGGGTTTGGGTCG
1 GGGTCGGATTTTTTAAAAAAAATTTCAAGATCGGGTCG
*
130586 GGGTCGGGTTTTTTTAAAAAAAA-TTCAAGATCGGGTCG
1 GGGTC-GGATTTTTTAAAAAAAATTTCAAGATCGGGTCG
130624 GG
1 GG
130626 TTTTTTTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 18 0.53
39 16 0.47
ACGTcount: A:0.26, C:0.09, G:0.32, T:0.33
Consensus pattern (38 bp):
GGGTCGGATTTTTTAAAAAAAATTTCAAGATCGGGTCG
Found at i:133142 original size:408 final size:408
Alignment explanation
Indices: 132387--133204 Score: 1431
Period size: 408 Copynumber: 2.0 Consensus size: 408
132377 AAAATTAAAT
*
132387 TCAGAGTAACTGAAATTTTAGTTTTTGTTCTATCTGTATGAGTTGGTATCAGTCTCATTTGCTTT
1 TCAGAGTAACTGAAATTTTAGTTTTTGTTCGATCTGTATGAGTTGGTATCAGTCTCATTTGCTTT
* *
132452 AAAATGATATAGTTTTAGTGTTTTACTAATTCATAGCATGAACTGGAAAACAACTTTCATACTTC
66 AAAATGATATAATTTTAGTGTTTTACTAATTCATAGCACGAACTGGAAAACAACTTTCATACTTC
*
132517 AATTTGAGAGATACTATAGTCGTGTTTCCTTAAAAATTGCTGTGAATTTCAAATGTTTTCCCCAG
131 AATTTGAGAGATACTATAGTCCTGTTTCCTTAAAAATTGCTGTGAATTTCAAATGTTTTCCCCAG
*
132582 TAGCGCATGTTTATTTATATGGAAATTGGAAACATTTTTGTGTGTTAACCATTGTGGTTTTATTG
196 TAGCGCATGTTTATTTATATGGAAATTGGAAACATTTTTGCGTGTTAACCATTGTGGTTTTATTG
**
132647 GGGTTGATATTGTTTGGAGAATCATTGAGATGTTACTCCGATAAGGTTATAATGAATTTTGTATT
261 GGGTTGATATTGTTTGGAGAATCATTGAGATGTTACTCCGATAAGGTTATAATGAATTTTACATT
*
132712 GAGGACCCATGCCATTTAAATAAGATTTGTACTCTAGGATATCCAATTGAATAATTTAAAATTAA
326 GAGGACACATGCCATTTAAATAAGATTTGTACTCTAGGATATCCAATTGAATAATTTAAAATTAA
132777 CTGTTGCTT-CTTGTGAAC
391 CTGTTG-TTACTTGTGAAC
132795 TCAGAGTAACTGAAATTTTAGTTTTTGTTCGATCTGTATGAGTTGGTATCAGTCTCATTTGCTTT
1 TCAGAGTAACTGAAATTTTAGTTTTTGTTCGATCTGTATGAGTTGGTATCAGTCTCATTTGCTTT
*
132860 AAAATGATATAATTTTAGTGTTTTACTAATTCATAGCACGAACTGGCAAACAACTTTCATACTTC
66 AAAATGATATAATTTTAGTGTTTTACTAATTCATAGCACGAACTGGAAAACAACTTTCATACTTC
* * *
132925 AATTTGAGTGATACTATAGTCCTGTTTCCTTAAAACTTGCTGTGAATTTCAAATGTTTTTCCCAG
131 AATTTGAGAGATACTATAGTCCTGTTTCCTTAAAAATTGCTGTGAATTTCAAATGTTTTCCCCAG
* * *
132990 TAGCGCATGTTTATTTTTATGGAAATTGGAAGCATTTTTGCGTTTTAACCATTGTGGTTTTATTG
196 TAGCGCATGTTTATTTATATGGAAATTGGAAACATTTTTGCGTGTTAACCATTGTGGTTTTATTG
* * * * *
133055 GGTTTGATATTGTTTGGAGAATCATTGAGATGTTACTTCGATGAGGTTATATTGAATTTTACGTT
261 GGGTTGATATTGTTTGGAGAATCATTGAGATGTTACTCCGATAAGGTTATAATGAATTTTACATT
*
133120 GAGGACACATGCCATTTAAATAAGATTTGTACTCTAGGATATCCATTTGAATAATTTAAAATTAA
326 GAGGACACATGCCATTTAAATAAGATTTGTACTCTAGGATATCCAATTGAATAATTTAAAATTAA
133185 CTGTTGTTACTTGTGAAC
391 CTGTTGTTACTTGTGAAC
133203 TC
1 TC
133205 TTGCTCTAAT
Statistics
Matches: 388, Mismatches: 21, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
407 2 0.01
408 386 0.99
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.41
Consensus pattern (408 bp):
TCAGAGTAACTGAAATTTTAGTTTTTGTTCGATCTGTATGAGTTGGTATCAGTCTCATTTGCTTT
AAAATGATATAATTTTAGTGTTTTACTAATTCATAGCACGAACTGGAAAACAACTTTCATACTTC
AATTTGAGAGATACTATAGTCCTGTTTCCTTAAAAATTGCTGTGAATTTCAAATGTTTTCCCCAG
TAGCGCATGTTTATTTATATGGAAATTGGAAACATTTTTGCGTGTTAACCATTGTGGTTTTATTG
GGGTTGATATTGTTTGGAGAATCATTGAGATGTTACTCCGATAAGGTTATAATGAATTTTACATT
GAGGACACATGCCATTTAAATAAGATTTGTACTCTAGGATATCCAATTGAATAATTTAAAATTAA
CTGTTGTTACTTGTGAAC
Found at i:134355 original size:13 final size:13
Alignment explanation
Indices: 134337--134361 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
134327 GATCGAATTT
134337 TTTTAACCGGTTA
1 TTTTAACCGGTTA
134350 TTTTAACCGGTT
1 TTTTAACCGGTT
134362 TGGGTTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTTAACCGGTTA
Found at i:134632 original size:15 final size:15
Alignment explanation
Indices: 134614--134669 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
134604 TAACCGGTTT
134614 CGGTTTTAAAAAAAC
1 CGGTTTTAAAAAAAC
134629 CGGTTTTTTAAAAAAAC
1 CGG--TTTTAAAAAAAC
* *
134646 CGGTTATAAAAAAAT
1 CGGTTTTAAAAAAAC
*
134661 CGATTTTAA
1 CGGTTTTAA
134670 TATTATTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 20 0.57
17 15 0.43
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (15 bp):
CGGTTTTAAAAAAAC
Found at i:134639 original size:17 final size:17
Alignment explanation
Indices: 134617--134650 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
134607 CCGGTTTCGG
134617 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
134634 TTTTAAAAAAACCGGTT
1 TTTTAAAAAAACCGGTT
134651 ATAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
TTTTAAAAAAACCGGTT
Found at i:134658 original size:17 final size:17
Alignment explanation
Indices: 134621--134659 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
134611 TTTCGGTTTT
* **
134621 AAAAAAACCGGTTTTTT
1 AAAAAAACCGGTTATAA
134638 AAAAAAACCGGTTATAA
1 AAAAAAACCGGTTATAA
134655 AAAAA
1 AAAAA
134660 TCGATTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.23
Consensus pattern (17 bp):
AAAAAAACCGGTTATAA
Found at i:134811 original size:32 final size:33
Alignment explanation
Indices: 134711--134813 Score: 165
Period size: 33 Copynumber: 3.2 Consensus size: 33
134701 ACAAAGTTTA
* *
134711 CGAT-AATTGAAATACTTAAATACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
*
134743 TGATAAATTCAAATACTTAAAAACTTCCAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
134776 CGATAAATTCAAATACTTAAAAACTT-CAAGTT
1 CGATAAATTCAAATACTTAAAAACTTCCAAGTT
134808 CGATAA
1 CGATAA
134814 CTGAAACAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
32 15 0.23
33 51 0.77
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (33 bp):
CGATAAATTCAAATACTTAAAAACTTCCAAGTT
Found at i:134832 original size:21 final size:21
Alignment explanation
Indices: 134808--134849 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
134798 ACTTCAAGTT
134808 CGATAACTGAAACAAAGTTTA
1 CGATAACTGAAACAAAGTTTA
* *
134829 CGATAATTGAAATAAAGTTTA
1 CGATAACTGAAACAAAGTTTA
134850 AAAATAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (21 bp):
CGATAACTGAAACAAAGTTTA
Found at i:139525 original size:33 final size:32
Alignment explanation
Indices: 139478--139556 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 32
139468 TTTTAAACTT
* *
139478 TATTTCAATTATCGAACTTGGAAGTTTTTAAG
1 TATTTCAATTATCGAACTTGAAAGTATTTAAG
*
139510 TATTTGAATTTATCGAACTTGAAAGTATTTAAG
1 TATTTCAA-TTATCGAACTTGAAAGTATTTAAG
139543 TATTTCAATTATCG
1 TATTTCAATTATCG
139557 TAAACTTTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 13 0.31
33 29 0.69
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (32 bp):
TATTTCAATTATCGAACTTGAAAGTATTTAAG
Found at i:141814 original size:36 final size:37
Alignment explanation
Indices: 141746--141816 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
141736 AATACTAAGA
*
141746 GGTACCGATACCCCTATAAATGGGTATTCATACCCTG
1 GGTACCGATACCCCTATAAATGGGTATCCATACCCTG
* **
141783 GGTACCGATACCCC-CTACCTGGGTATCCATACCC
1 GGTACCGATACCCCTATAAATGGGTATCCATACCC
141817 CTATGACTGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 16 0.53
37 14 0.47
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (37 bp):
GGTACCGATACCCCTATAAATGGGTATCCATACCCTG
Found at i:153883 original size:15 final size:15
Alignment explanation
Indices: 153859--153891 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
153849 TAATTTTACC
153859 CCAAGTATAAAA-CA
1 CCAAGTATAAAAGCA
153873 CCAATGTATAAAAGCA
1 CCAA-GTATAAAAGCA
153889 CCA
1 CCA
153892 TTTACTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 8 0.47
16 5 0.29
ACGTcount: A:0.52, C:0.24, G:0.09, T:0.15
Consensus pattern (15 bp):
CCAAGTATAAAAGCA
Found at i:155635 original size:2 final size:2
Alignment explanation
Indices: 155628--155652 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
155618 TACATTTCGT
155628 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
155653 TTGAATGTAA
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
Found at i:160038 original size:16 final size:16
Alignment explanation
Indices: 160000--160055 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
159990 TTTACTTCAG
* *
160000 AATGATT-AAATGTTG
1 AATGATTCAAATGCTA
160015 AATGATTCAAATGCTA
1 AATGATTCAAATGCTA
* *
160031 AATTATTCAAATGCTG
1 AATGATTCAAATGCTA
160047 AATGATTCA
1 AATGATTCA
160056 GAGACTCTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
15 7 0.20
16 28 0.80
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (16 bp):
AATGATTCAAATGCTA
Found at i:160769 original size:18 final size:17
Alignment explanation
Indices: 160742--160787 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
160732 GTTTTTAAGA
*
160742 GAATTAGAATCTGTGAAG
1 GAATTGGAATCT-TGAAG
160760 GAATTGGAATC-TGAAG
1 GAATTGGAATCTTGAAG
*
160776 GAATTGAAATCT
1 GAATTGGAATCT
160788 AAATCTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 15 0.60
18 10 0.40
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (17 bp):
GAATTGGAATCTTGAAG
Found at i:161278 original size:20 final size:20
Alignment explanation
Indices: 161253--161291 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
161243 TTTTCAAGGG
161253 CATGCACCGATGCATCAATC
1 CATGCACCGATGCATCAATC
*
161273 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
161292 TAATTTCTTG
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:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (20 bp):
CATGCACCGATGCATCAATC
Found at i:161371 original size:26 final size:26
Alignment explanation
Indices: 161338--161429 Score: 175
Period size: 26 Copynumber: 3.5 Consensus size: 26
161328 TGCACATACC
161338 ATGCATCGATGCACTCAGTGCATTTG
1 ATGCATCGATGCACTCAGTGCATTTG
161364 ATGCATCGATGCACTCAGTGCATTTG
1 ATGCATCGATGCACTCAGTGCATTTG
*
161390 ATGCATCGATGAACTCAGTGCATTTG
1 ATGCATCGATGCACTCAGTGCATTTG
161416 ATGCATCGATGCAC
1 ATGCATCGATGCAC
161430 AAGACCATGC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (26 bp):
ATGCATCGATGCACTCAGTGCATTTG
Found at i:167306 original size:24 final size:23
Alignment explanation
Indices: 167274--167354 Score: 73
Period size: 24 Copynumber: 3.6 Consensus size: 23
167264 GCACTTAACA
167274 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCAT-CCTTTGAAT
* *
167298 GTGCATCGATTCATCATGTTG-A-
1 GTGCATCGATGCATCCT-TTGAAT
167320 -TGCA-CTGATGCATGCC-TTGAAT
1 GTGCATC-GATGCAT-CCTTTGAAT
167342 GTGCATCGATGCA
1 GTGCATCGATGCA
167355 CAGGGTCATG
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
20 4 0.09
21 11 0.24
22 1 0.02
23 13 0.28
24 17 0.37
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.32
Consensus pattern (23 bp):
GTGCATCGATGCATCCTTTGAAT
Found at i:169502 original size:19 final size:20
Alignment explanation
Indices: 169478--169517 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
169468 GAGAAGTGTA
*
169478 AAATGTTTTA-AAGGGGGAG
1 AAATGTTATAGAAGGGGGAG
169497 AAATGTTATAGTAAGGGGGAG
1 AAATGTTATAG-AAGGGGGAG
169518 TAATTTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.25
Consensus pattern (20 bp):
AAATGTTATAGAAGGGGGAG
Found at i:169877 original size:20 final size:20
Alignment explanation
Indices: 169852--169890 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
169842 TTTTCAAGGG
169852 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
169872 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
169891 TAATTTCTTG
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:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:171993 original size:31 final size:31
Alignment explanation
Indices: 171923--171998 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
171913 CTTTTAAAAC
** * *
171923 TTATAATACAGTCCCTCAACATTTAGTCTGT
1 TTATAATATGGTCCCCCAACATTTAGTCCGT
171954 TTATAATATGGTCCCCCAACATTTAGTCCGT
1 TTATAATATGGTCCCCCAACATTTAGTCCGT
*
171985 TTGTAATATGGTCC
1 TTATAATATGGTCC
171999 TCGACGTAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (31 bp):
TTATAATATGGTCCCCCAACATTTAGTCCGT
Found at i:173765 original size:19 final size:19
Alignment explanation
Indices: 173741--173790 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
173731 ATGATATGTA
* *
173741 TTTTTCCATTTAAATTGTT
1 TTTTTCCACTTAAATTATT
*
173760 TTTTTCTACTTAAATTATT
1 TTTTTCCACTTAAATTATT
173779 TTGTTTCACACT
1 TT-TTTC-CACT
173791 GATACTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 4 0.16
21 3 0.12
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTTCCACTTAAATTATT
Found at i:174037 original size:31 final size:31
Alignment explanation
Indices: 173967--174043 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
173957 CTTTTAAAAC
** * * *
173967 TTGCAATACAATCCCTCAATATTTAGTCCGT
1 TTGCAATATGATCCCCCAACATTTAATCCGT
173998 TTGCAATATGATCCCCCAACATTTAATCCGT
1 TTGCAATATGATCCCCCAACATTTAATCCGT
*
174029 TTGCAATATGGTCCC
1 TTGCAATATGATCCC
174044 TGACGATTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (31 bp):
TTGCAATATGATCCCCCAACATTTAATCCGT
Found at i:174992 original size:2 final size:2
Alignment explanation
Indices: 174985--175023 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
174975 ATATGCCTTG
* *
174985 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AG AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
175024 CATCAAGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (2 bp):
AT
Found at i:181387 original size:26 final size:26
Alignment explanation
Indices: 181358--181450 Score: 107
Period size: 26 Copynumber: 3.3 Consensus size: 26
181348 CATCTATGTA
181358 TGATTTATTATTGTAGTTGTATGGAT
1 TGATTTATTATTGTAGTTGTATGGAT
*
181384 TGATTTATTTTAAATAATTTA-TTAGTATGGAT
1 TGATTTA--TT--AT--TGTAGTT-GTATGGAT
181416 TGATTTATTATTGTAGTTGTATGGAT
1 TGATTTATTATTGTAGTTGTATGGAT
181442 TGATTTATT
1 TGATTTATT
181451 TTAAATAATT
Statistics
Matches: 57, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
26 27 0.47
27 2 0.04
28 4 0.07
30 4 0.07
31 2 0.04
32 18 0.32
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (26 bp):
TGATTTATTATTGTAGTTGTATGGAT
Found at i:181417 original size:32 final size:32
Alignment explanation
Indices: 181376--181595 Score: 233
Period size: 32 Copynumber: 7.7 Consensus size: 32
181366 TATTGTAGTT
181376 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
181408 GTATGGATTGATTTA--TT--AT--TGTAGTT-
1 GTATGGATTGATTTATTTTAAATAATTTA-TTA
181434 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
181466 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
181489 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
181520 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
181543 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
181574 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
181596 ATATAGATTG
Statistics
Matches: 158, Mismatches: 2, Indels: 56
0.73 0.01 0.26
Matches are distributed among these distances:
22 28 0.18
23 8 0.05
25 2 0.01
26 24 0.15
27 2 0.01
28 10 0.06
29 2 0.01
30 4 0.03
31 10 0.06
32 68 0.43
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:181492 original size:22 final size:22
Alignment explanation
Indices: 181467--181509 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
181457 AATTTATTAG
181467 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
181489 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
181510 TAATTTATTA
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:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:181517 original size:54 final size:54
Alignment explanation
Indices: 181377--181612 Score: 400
Period size: 54 Copynumber: 4.3 Consensus size: 54
181367 ATTGTAGTTG
***
181377 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAA
181435 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
181489 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
181543 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
181597 TATAGATTGATTTATT
1 TATGGATTGATTTATT
181613 ATTGTAGTTG
Statistics
Matches: 174, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
54 123 0.71
55 2 0.01
56 2 0.01
57 1 0.01
58 46 0.26
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:181546 original size:22 final size:22
Alignment explanation
Indices: 181521--181563 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
181511 AATTTATTAG
181521 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
181543 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
181564 TAATTTATTA
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:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:181651 original size:14 final size:14
Alignment explanation
Indices: 181632--181684 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
181622 GTATGGATTG
181632 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
181646 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
181664 ATTTATTTTAAATA
1 ATTTATTTTAAATA
181678 ATTTATT
1 ATTTATT
181685 ATTGTAGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:181664 original size:32 final size:32
Alignment explanation
Indices: 181622--181685 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
181612 TATTGTAGTT
*
181622 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
181654 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATGAATTGATTTATTTTAAATAATTTATTA
181686 TTGTAGTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
GTATGAATTGATTTATTTTAAATAATTTATTA
Found at i:181735 original size:31 final size:31
Alignment explanation
Indices: 181700--181758 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
181690 AGTTGTATGG
* *
181700 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
181731 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
181759 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:182791 original size:21 final size:21
Alignment explanation
Indices: 182762--182804 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
182752 ACCGTGATTC
* *
182762 CGGTTGTCGCGGGCGCTATTG
1 CGGTCGTCGCGGACGCTATTG
182783 CGGTCGTCGCGGACGCTATTG
1 CGGTCGTCGCGGACGCTATTG
182804 C
1 C
182805 AGCTGTCGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.28, G:0.40, T:0.26
Consensus pattern (21 bp):
CGGTCGTCGCGGACGCTATTG
Found at i:182812 original size:21 final size:20
Alignment explanation
Indices: 182766--182814 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
182756 TGATTCCGGT
* *
182766 TGTCGCGGGCGCTATTGCGG
1 TGTCGCGGACGCTATTGCGC
182786 TCGTCGCGGACGCTATTGCAGC
1 T-GTCGCGGACGCTATTGC-GC
182808 TGTCGCG
1 TGTCGCG
182815 AGTAACTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.88
22 2 0.08
ACGTcount: A:0.08, C:0.29, G:0.39, T:0.24
Consensus pattern (20 bp):
TGTCGCGGACGCTATTGCGC
Done.