Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000305.1 Hibiscus syriacus cultivar Beakdansim tig00000574_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: 199618
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:12425 original size:17 final size:17
Alignment explanation
Indices: 12403--12436 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12393 GAAGTTTAGA
12403 CGTTAAAATAAAATTTT
1 CGTTAAAATAAAATTTT
12420 CGTTAAAATAAAATTTT
1 CGTTAAAATAAAATTTT
12437 AACCTTTCAT
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:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
CGTTAAAATAAAATTTT
Found at i:12719 original size:18 final size:18
Alignment explanation
Indices: 12677--12711 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12667 CAATATTCAT
*
12677 AGTAATCTTATTCCCGCC
1 AGTAATCCTATTCCCGCC
12695 AGTAATCCTATTCCCGC
1 AGTAATCCTATTCCCGC
12712 TGATAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.34, G:0.11, T:0.31
Consensus pattern (18 bp):
AGTAATCCTATTCCCGCC
Found at i:13108 original size:74 final size:73
Alignment explanation
Indices: 13001--13225 Score: 213
Period size: 74 Copynumber: 3.0 Consensus size: 73
12991 TATACATCAT
* * * * *
13001 TTTTGAAAATGCTTTTGAAATGATATAATATATAATTTTCAGAAAACGGTTTTCGAAAATGTATA
1 TTTTGAAAACGTTTTTAAAAT-ATATAATATATAATTTT-AGAAAACGATTTTCGAAAATATATA
*
13066 AATTATATAG
64 TATTATATAG
* * *
13076 TTTTGAAAACGTTTTTAAAATATAT-ATCATATAGTTTT-GAAAACGATTTTTTGGGAAATATAT
1 TTTTGAAAACGTTTTTAAAATATATAAT-ATATAATTTTAGAAAACGA--TTTTCGAAAATATAT
*
13139 ATATTATATAA
63 ATATTATATAG
* * * * * * **
13150 TTTTTAAAACATTTTGAAAATAAATAATATATATTTTTGAAAAAAC-ATTTTTTAAAATATATAT
1 TTTTGAAAACGTTTTTAAAATATATAATATATAATTTT-AGAAAACGATTTTCGAAAATATATAT
13214 ATTATATAG
65 ATTATATAG
13223 TTT
1 TTT
13226 AAAAAAAATT
Statistics
Matches: 124, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
72 7 0.06
73 27 0.22
74 64 0.52
75 21 0.17
76 5 0.04
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (73 bp):
TTTTGAAAACGTTTTTAAAATATATAATATATAATTTTAGAAAACGATTTTCGAAAATATATATA
TTATATAG
Found at i:13110 original size:34 final size:33
Alignment explanation
Indices: 13001--13215 Score: 124
Period size: 34 Copynumber: 5.9 Consensus size: 33
12991 TATACATCAT
* * * *
13001 TTTTGAAAATGCTTTTGAAATGATATAATATATAA
1 TTTTGAAAACGTTTTTAAAAT-ATAT-ATATATAG
* *
13036 TTTTCAGAAAACGGTTTTCGAAAATGTATAAATTATATAG
1 TTTT--GAAAAC-GTTTT-TAAAA--TATATA-TATATAG
13076 TTTTGAAAACGTTTTTAAAATATATATCATATAG
1 TTTTGAAAACGTTTTTAAAATATATAT-ATATAG
*
13110 TTTTGAAAACGATTTTTTGGGAAATATATATATTATATAA
1 TTTTGAAAACG--TTTTT---AAA-ATATATA-TATATAG
* * * * *
13150 TTTTTAAAACATTTTGAAAATAAATAATATATAT
1 TTTTGAAAACGTTTTTAAAATATAT-ATATATAG
*
13184 TTTTGAAAAAACATTTTTTAAAATATATATAT
1 TTTTG--AAAAC-GTTTTTAAAATATATATAT
13216 TATATAGTTT
Statistics
Matches: 143, Mismatches: 18, Indels: 37
0.72 0.09 0.19
Matches are distributed among these distances:
33 1 0.01
34 37 0.26
35 8 0.06
36 18 0.13
37 22 0.15
38 14 0.10
39 7 0.05
40 34 0.24
41 2 0.01
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (33 bp):
TTTTGAAAACGTTTTTAAAATATATATATATAG
Found at i:13324 original size:37 final size:37
Alignment explanation
Indices: 13272--13347 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
13262 CATTTTGAAA
* * *
13272 ATATAGTTTTCAAAACATTTTTGAAAAATTATATAAT
1 ATATAGTTATAAAAACATTTTTGAAAAATCATATAAT
* *
13309 ATATAGTTATAAAAACATTTTTTAAAACTCATATAAT
1 ATATAGTTATAAAAACATTTTTGAAAAATCATATAAT
13346 AT
1 AT
13348 TTTTAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (37 bp):
ATATAGTTATAAAAACATTTTTGAAAAATCATATAAT
Found at i:13422 original size:32 final size:31
Alignment explanation
Indices: 13276--13432 Score: 93
Period size: 33 Copynumber: 4.7 Consensus size: 31
13266 TTGAAAATAT
*
13276 AGTTTTCAAAACATTTTTGAAAAATTATATAATATA
1 AGTTTT-AAAAAATTTTTGAAAAA-TA-AT-ATA-A
* * * *
13312 TAGTTATAAAAACATTTTTTAAAACTCATATAA
1 -AGTTTTAAAAA-ATTTTTGAAAAATAATATAA
* *
13345 TATTTTTAAAATACTTTTTGAAAACTATAATAT--
1 -AGTTTTAAAA-AATTTTTGAAAA--ATAATATAA
**
13378 AGTTTTGGAAAATTTTTAGAAAAATAATATAA
1 AGTTTTAAAAAATTTTT-GAAAAATAATATAA
13410 AGTTTTAAAAAATGTTTTTGAAA
1 AGTTTTAAAAAA--TTTTTGAAA
13433 CATATATTAT
Statistics
Matches: 94, Mismatches: 17, Indels: 22
0.71 0.13 0.17
Matches are distributed among these distances:
30 7 0.07
31 6 0.06
32 22 0.23
33 23 0.24
34 9 0.10
35 7 0.07
36 5 0.05
37 15 0.16
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.42
Consensus pattern (31 bp):
AGTTTTAAAAAATTTTTGAAAAATAATATAA
Found at i:14660 original size:12 final size:12
Alignment explanation
Indices: 14645--14675 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
14635 TTTATTTATT
14645 TATATATGTATG
1 TATATATGTATG
14657 TATATATGTATG
1 TATATATGTATG
14669 TATATAT
1 TATATAT
14676 TTTATGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (12 bp):
TATATATGTATG
Found at i:14753 original size:15 final size:14
Alignment explanation
Indices: 14711--14754 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
14701 TTTATAGCAA
14711 TTTTCATTATTATT
1 TTTTCATTATTATT
14725 TTTTC-TCTATTTATT
1 TTTTCAT-TA-TTATT
14740 TATTTCATTATTATT
1 T-TTTCATTATTATT
14755 ATTATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 1 0.04
14 7 0.27
15 11 0.42
16 6 0.23
17 1 0.04
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTCATTATTATT
Found at i:14832 original size:36 final size:36
Alignment explanation
Indices: 14763--14833 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
14753 TTATTATATT
* **
14763 TTTTTTACCTTTTTGACTTTCTTTTTTTTTATTTTC
1 TTTTTTACCTTTTTGACTTTATTTTTTGGTATTTTC
*
14799 TTTTTTCCCTTTTTGA-TTTATTATTTTGGTATTTT
1 TTTTTTACCTTTTTGACTTTATT-TTTTGGTATTTT
14834 ATCTATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 5 0.17
36 25 0.83
ACGTcount: A:0.10, C:0.11, G:0.06, T:0.73
Consensus pattern (36 bp):
TTTTTTACCTTTTTGACTTTATTTTTTGGTATTTTC
Found at i:20390 original size:84 final size:84
Alignment explanation
Indices: 20211--20997 Score: 712
Period size: 84 Copynumber: 9.5 Consensus size: 84
20201 TTAAAGATAA
* * * ** *
20211 CATTTGCAGCATAGA-TTAAGTCGAGAAGGGCTATCTG---CC-AAAGACCCACGAGTTCGATTA
1 CATTTACAGCATA-ACTTAAGTCAAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTA
* * * *
20271 CACTCAGCTTCGAGGGCATAT
65 CGCTCAGC-TCCAAGGCACAT
* * * *
20292 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
*
20357 GCTCAGCTCCAAGGCATAT
66 GCTCAGCTCCAAGGCACAT
* * * * * *
20376 CATTTGCATCATAACTTAAGTCGAGAAGGGTTATCT-TCCAACTAAAGACCTTTGAGTTCGACTA
1 CATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGT-CACCAAAAGACCTTCGAGTTCGACTA
20440 CGCTCAGCT-CAAGGCACAT
65 CGCTCAGCTCCAAGGCACAT
* * * * *
20459 CATTTGCAGCATAACTTAAGTCAAGAAGGGCTATATG---CC-AAAGACCCTCGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* * *
20520 ACTCAGCTTCGAGGGCACAT
66 GCTCAGC-TCCAAGGCACAT
* * * * *
20540 TATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
*
20605 GCTCAGCTCCAAGGCATAT
66 GCTCAGCTCCAAGGCACAT
* * * * *
20624 CATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTG-C-CAATAAAGTCCTACGAGTACGACTA
1 CATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGTCACCA-AAAGACCTTCGAGTTCGACTA
* *
20687 CGCTCAGTTCCAAGGCATAT
65 CGCTCAGCTCCAAGGCACAT
** * * * * * *
20707 CATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTG---CC-AAAGACCCTCGAGTTCGATTAC
1 CATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
* * *
20768 ACTCAGCTTCGAGGGCACAT
66 GCTCAGC-TCCAAGGCACAT
* * * *
20788 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
20853 GCTCAGCTCCAAGGCACAT
66 GCTCAGCTCCAAGGCACAT
* * * * *
20872 CATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAACC-GAAGACCTTCGAGTTCGATTA
1 CATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGACTA
** * *
20936 CATTCAACT-CAGAGGCAAAT
65 CGCTCAGCTCCA-AGGCACAT
* * * * *
20956 CAAGCTTACATCATAGCTCAAGGCAAGAAGGGTTATCTGTCA
1 C-A-TTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGTCA
20998 ATAAAATTGT
Statistics
Matches: 577, Mismatches: 106, Indels: 42
0.80 0.15 0.06
Matches are distributed among these distances:
79 25 0.04
80 25 0.04
81 103 0.18
82 3 0.01
83 114 0.20
84 194 0.34
85 82 0.14
86 31 0.05
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (84 bp):
CATTTACAGCATAACTTAAGTCAAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCACAT
Found at i:20589 original size:164 final size:163
Alignment explanation
Indices: 20250--20991 Score: 603
Period size: 164 Copynumber: 4.5 Consensus size: 163
20240 GCTATCTGCC
** * * * * * *
20250 AAAGACCCACGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TC-AAGGCATATCATTTACAGCATAACTTAAGTCA
* * * *
20315 AGAAGGGTTATTTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
64 AGAAGGGTTATATG---CC-AAAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
* * * * *
20380 TGCATCATAACTTAAGTCGAGAAGGGTTATCTTCCAACT
125 TACAGCATAACTCAAGGCGAGAAGGGTTATCTTCCAACA
* * *
20419 AAAGACCTTTGAGTTCGACTACGCTCAGCTCAAGGCACATCATTTGCAGCATAACTTAAGTCAAG
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCATATCATTTACAGCATAACTTAAGTCAAG
* * * * *
20484 AAGGGCTATATGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATTATTTACAG
66 AAGGGTTATATGCCAAAGACCCTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAG
* *
20549 CATAACTCAAGGCTAGAAGGGTTATCTAT-CACCA
130 CATAACTCAAGGCGAGAAGGGTTATCT-TCCAACA
*
20583 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAGGCATATCATTTACAGCATAACTTAAGTCAA
* * * * * * * *
20648 GAAGGGTTATCTGCCAATAAAGTCCTACGAGTACGACTACGCTCAGTTCCAAGGCATATCATTTG
65 GAAGGGTTATATGCCAA-AGA-CCCT-CGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTA
* * * * * * *
20713 TAGTATAGCTTAAGTCGAGAAGGGCTATC-TGC--C-
127 CAGCATAACTCAAGGCGAGAAGGGTTATCTTCCAACA
* * * * * * * * *
20746 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TC-AAGGCATATCATTTACAGCATAACTTAAGTCA
* * *
20811 AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
64 AGAAGGGTTATATG---CC-AAAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATT
* * * * * * *
20876 TGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAACC
125 TACAGCATAACTCAAGGCGAGAAGGGTTATCTTCCAACA
* * ** * * * * * * *
20915 GAAGACCTTCGAGTTCGATTACATTCAACTCAGAGGCAAATCAAGCTTACATCATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCA-AGGCATATC-A-TTTACAGCATAACTTAAGTC
20980 AAGAAGGGTTAT
63 AAGAAGGGTTAT
20992 CTGTCAATAA
Statistics
Matches: 471, Mismatches: 82, Indels: 39
0.80 0.14 0.07
Matches are distributed among these distances:
163 53 0.11
164 115 0.24
165 108 0.23
166 6 0.01
167 81 0.17
168 30 0.06
169 50 0.11
170 28 0.06
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (163 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCAAGGCATATCATTTACAGCATAACTTAAGTCAAG
AAGGGTTATATGCCAAAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGC
ATAACTCAAGGCGAGAAGGGTTATCTTCCAACA
Found at i:20649 original size:248 final size:249
Alignment explanation
Indices: 20211--20932 Score: 1189
Period size: 248 Copynumber: 2.9 Consensus size: 249
20201 TTAAAGATAA
*
20211 CATTTGCAGCATAGA-TTAAGTCGAGAAGGGCTATCTGCCAAAGACCCACGAGTTCGATTACACT
1 CATTTGCAGCATA-ACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACT
* *
20275 CAGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATTTGTCACCAAAAGA
65 CAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGA
*
20340 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCATCATAACTTAAGTCGAGAAGG
130 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGG
* *
20405 GTTATCTTCCAACTAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAAGGCACAT
195 GTTATCTGCCAACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* *
20459 CATTTGCAGCATAACTTAAGTCAAGAAGGGCTATATGCCAAAGACCCTCGAGTTCGATTACACTC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTC
* *
20524 AGCTTCGAGGGCACATTATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGAC
66 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC
*
20589 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTACAGCATAACTTAAGTCGAGAAGGG
131 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* * * * *
20654 TTATCTGCCAA-TAAAGTCCTACGAGTACGACTACGCTCAGTTCCAAGGCATAT
196 TTATCTGCCAACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * *
20707 CATTTGTAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTC
*
20772 AGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC
66 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC
* * *
20837 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGG
131 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
**
20902 TTATCTGCCAACCGAAGACCTTCGAGTTCGA
196 TTATCTGCCAACTAAAGACCTTCGAGTTCGA
20933 TTACATTCAA
Statistics
Matches: 438, Mismatches: 33, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
247 27 0.06
248 397 0.91
249 14 0.03
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (249 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTC
AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGAC
CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGG
TTATCTGCCAACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
Found at i:21663 original size:38 final size:37
Alignment explanation
Indices: 21620--21861 Score: 170
Period size: 38 Copynumber: 6.6 Consensus size: 37
21610 ATAATTTCCA
*
21620 GAAAACGATTTTCGAAAATGTATA-AATTATATAGTTTT
1 GAAAACGATTTT-GAAAATATATATAA-TATATAGTTTT
* *
21658 GAAAACG-TTTTTAAAATATATATCATATATAGTTTT
1 GAAAACGATTTTGAAAATATATATAATATATAGTTTT
* *
21694 GAAAACGATTTTTTGGGAAATATATAT--TATATAATTTT
1 GAAAACGA--TTTT-GAAAATATATATAATATATAGTTTT
* * * *
21732 TAAAA--AATTTGAAAATA-AAATAATATATATTTTT
1 GAAAACGATTTTGAAAATATATATAATATATAGTTTT
* *
21766 GAAAAAAC-ATTTTTTAAAATATATATATTATATAGTTTT
1 G--AAAACGA-TTTTGAAAATATATATAATATATAGTTTT
* *
21805 TAATAAC-ATTTT----TTATATATAATATATAGTTTTT
1 GAA-AACGATTTTGAAAATATATATAATATATAG-TTTT
21839 GAAAAAC-ATTTTGAAAATATATA
1 G-AAAACGATTTTGAAAATATATA
21862 GTTTTAAAAA
Statistics
Matches: 163, Mismatches: 22, Indels: 38
0.73 0.10 0.17
Matches are distributed among these distances:
32 3 0.02
33 21 0.13
34 25 0.15
35 2 0.01
36 32 0.20
37 12 0.07
38 40 0.25
39 18 0.11
40 10 0.06
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (37 bp):
GAAAACGATTTTGAAAATATATATAATATATAGTTTT
Found at i:21748 original size:33 final size:36
Alignment explanation
Indices: 21621--21861 Score: 142
Period size: 33 Copynumber: 6.6 Consensus size: 36
21611 TAATTTCCAG
* *
21621 AAAACGATTTTCGAAAATGTATAAATTATAT-AGTTTTG-
1 AAAAC-ATTTT-GAAAA--TATATATTATATAATTTTTGA
* * * *
21659 AAAACGTTTTTAAAATATATATCATATATAGTTTTG-
1 AAAACATTTTGAAAATATATATTATATA-ATTTTTGA
*
21695 AAAACGATTTTTTGGGAAATATATATTATATAATTTTT-A
1 AAAAC-A--TTTT-GAAAATATATATTATATAATTTTTGA
* *
21734 AAAA-A-TTTGAAAATA-AAATAATATATATTTTTGAA
1 AAAACATTTTGAAAATATATATTATATA-ATTTTTG-A
* *
21769 AAAACATTTTTTAAAATATATATATTATATAGTTTTT-A
1 AAAACA--TTTTGAAA-ATATATATTATATAATTTTTGA
* ** * *
21807 ATAACATTTT--TTATATATAATATATAGTTTTTGA
1 AAAACATTTTGAAAATATATATTATATAATTTTTGA
21841 AAAACATTTTGAAAATATATA
1 AAAACATTTTGAAAATATATA
21862 GTTTTAAAAA
Statistics
Matches: 161, Mismatches: 23, Indels: 40
0.72 0.10 0.18
Matches are distributed among these distances:
32 8 0.05
33 31 0.19
34 23 0.14
35 5 0.03
36 28 0.17
37 5 0.03
38 11 0.07
39 19 0.12
40 23 0.14
41 8 0.05
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.44
Consensus pattern (36 bp):
AAAACATTTTGAAAATATATATTATATAATTTTTGA
Found at i:21779 original size:72 final size:71
Alignment explanation
Indices: 21667--21861 Score: 191
Period size: 72 Copynumber: 2.7 Consensus size: 71
21657 TGAAAACGTT
* * **
21667 TTTAAAATATATATCATATATAGTTTTG-AAAACGATTTTTTGGGAA-ATATATATTATATAATT
1 TTTAAAATA-A-ATAATATATATTTTTGAAAAAC-A-TTTTTGAAAATATATATATTATATAATT
21730 TTTAA-AAAA
62 TTTAATAAAA
* *
21739 TTTGAAAATAAAATAATATATATTTTTGAAAAAACATTTTTTAAAATATATATATTATATAGTTT
1 TTT-AAAAT-AAATAATATATATTTTTG-AAAAACATTTTTGAAAATATATATATTATATAATTT
*
21804 TTAATAACA
63 TTAATAAAA
*** *
21813 TTTTTTATATATAATATATAGTTTTTGAAAAACA-TTTTGAAAATATATA
1 TTTAAAATAAATAATATATA-TTTTTGAAAAACATTTTTGAAAATATATA
21862 GTTTTAAAAA
Statistics
Matches: 104, Mismatches: 12, Indels: 15
0.79 0.09 0.11
Matches are distributed among these distances:
71 14 0.13
72 42 0.40
73 36 0.35
74 12 0.12
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (71 bp):
TTTAAAATAAATAATATATATTTTTGAAAAACATTTTTGAAAATATATATATTATATAATTTTTA
ATAAAA
Found at i:21796 original size:73 final size:71
Alignment explanation
Indices: 21713--21861 Score: 185
Period size: 73 Copynumber: 2.1 Consensus size: 71
21703 TTTTTGGGAA
21713 ATATATATTATATAATTTTTAA-AAAATTTGAAAATAAAATAATATATA-TTTTTGAAAAAACAT
1 ATATATATTATATAATTTTTAATAAAATTT-AAAAT-AAATAATATATAGTTTTTG-AAAAACA-
*
21776 TTTTTAAAAT
62 TTTTGAAAAT
* * *** *
21786 ATATATATTATATAGTTTTTAATAACATTTTTTATATATAATATATAGTTTTTGAAAAACATTTT
1 ATATATATTATATAATTTTTAATAAAATTTAAAATAAATAATATATAGTTTTTGAAAAACATTTT
21851 GAAAAT
66 GAAAAT
21857 ATATA
1 ATATA
21862 GTTTTAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
71 14 0.21
72 18 0.27
73 29 0.43
74 6 0.09
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (71 bp):
ATATATATTATATAATTTTTAATAAAATTTAAAATAAATAATATATAGTTTTTGAAAAACATTTT
GAAAAT
Found at i:21870 original size:27 final size:30
Alignment explanation
Indices: 21794--21923 Score: 115
Period size: 33 Copynumber: 4.2 Consensus size: 30
21784 ATATATATAT
* *
21794 TATATAGTTTTT-AATAACATTTTTTATATATAA
1 TATATAGTTTTTGAAAAACA-TTTTT-GA-A-AA
21827 TATATAGTTTTTGAAAAACA-TTTTGAAAA
1 TATATAGTTTTTGAAAAACATTTTTGAAAA
21856 TATATAG-TTTT-AAAAACATTTTTGAAAA
1 TATATAGTTTTTGAAAAACATTTTTGAAAA
* * *
21884 CTCATATAATATTTTTAAAATCATTTTTGAAAA
1 -T-ATATAGT-TTTTGAAAAACATTTTTGAAAA
21917 CTATATA
1 -TATATA
21924 ATATATAGTT
Statistics
Matches: 86, Mismatches: 4, Indels: 15
0.82 0.04 0.14
Matches are distributed among these distances:
27 7 0.08
28 13 0.15
29 10 0.12
30 6 0.07
31 1 0.01
32 13 0.15
33 30 0.35
34 6 0.07
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (30 bp):
TATATAGTTTTTGAAAAACATTTTTGAAAA
Found at i:21891 original size:61 final size:63
Alignment explanation
Indices: 21794--21923 Score: 153
Period size: 61 Copynumber: 2.1 Consensus size: 63
21784 ATATATATAT
* * *
21794 TATATAGTTTTTAATAACATTTTTTATATATAATAT-ATAGTTTTTGAAAAACA-TTTTGAAAA-
1 TATATAGTTTTTAAAAACATTTTTGATAAATAATATAATA-TTTTT-AAAAACATTTTTGAAAAC
* *
21856 TATATAG-TTTTAAAAACATTTTTGA-AAACTCATATAATATTTTTAAAATCATTTTTGAAAAC
1 TATATAGTTTTTAAAAACATTTTTGATAAA-TAATATAATATTTTTAAAAACATTTTTGAAAAC
21918 TATATA
1 TATATA
21924 ATATATAGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
60 8 0.14
61 35 0.59
62 16 0.27
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (63 bp):
TATATAGTTTTTAAAAACATTTTTGATAAATAATATAATATTTTTAAAAACATTTTTGAAAAC
Found at i:21900 original size:33 final size:32
Alignment explanation
Indices: 21826--21927 Score: 117
Period size: 33 Copynumber: 3.3 Consensus size: 32
21816 TTTATATATA
21826 ATAT-ATAGTTTTTGAAAAACA-TTTTG-AAA--
1 ATATAATA-TTTTT-AAAAACATTTTTGAAAACT
*
21855 ATAT-ATAGTTTTAAAAACATTTTTGAAAACT
1 ATATAATATTTTTAAAAACATTTTTGAAAACT
*
21886 CATATAATATTTTTAAAATCATTTTTGAAAACT
1 -ATATAATATTTTTAAAAACATTTTTGAAAACT
21919 ATATAATAT
1 ATATAATAT
21928 ATAGTTTTGG
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
27 7 0.11
28 9 0.14
29 10 0.16
32 13 0.20
33 25 0.39
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (32 bp):
ATATAATATTTTTAAAAACATTTTTGAAAACT
Found at i:21952 original size:69 final size:69
Alignment explanation
Indices: 21854--22001 Score: 169
Period size: 69 Copynumber: 2.1 Consensus size: 69
21844 ACATTTTGAA
* * *
21854 AATATATAGTTTTAAAAACATTTTTGAAAACTCATATAATA-TTTT-TAAAATCATTTTTGAAA-
1 AATATATAGTTTTAAAAACATTTTTGAAAAATAATATAA-AGTTTTAAAAAAT-ATTTTTGAAAC
21916 ACTATAT
64 A-TATAT
** *
21923 AATATATAGTTTTGGAAA-ATTTTTAGAAAAATAATATAAAGTTTTAAAAAATGTTTTTGAAACA
1 AATATATAGTTTTAAAAACATTTTT-GAAAAATAATATAAAGTTTTAAAAAATATTTTTGAAACA
21987 TATAT
65 TATAT
*
21992 ATTATATAGT
1 AATATATAGT
22002 ACATATTATA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
68 7 0.10
69 55 0.81
70 6 0.09
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (69 bp):
AATATATAGTTTTAAAAACATTTTTGAAAAATAATATAAAGTTTTAAAAAATATTTTTGAAACAT
ATAT
Found at i:21957 original size:32 final size:33
Alignment explanation
Indices: 21854--21993 Score: 94
Period size: 33 Copynumber: 4.2 Consensus size: 33
21844 ACATTTTGAA
*
21854 AATATATAGTTTTAAAAACAT-TTTT-GAAAACT
1 AATATATAGTTTTAAAAA-ATGTTTTAGAAAAAT
* * *
21886 CATATAATATTTTTAAAATCAT-TTTT-GAAAACTATAT
1 AATAT-ATAGTTTTAAAA-AATGTTTTAG-AAA--A-AT
**
21923 AATATATAGTTTTGGAAAAT-TTTTAGAAAAAT
1 AATATATAGTTTTAAAAAATGTTTTAGAAAAAT
* * *
21955 AATATAAAGTTTTAAAAAATGTTTTTGAAACAT
1 AATATATAGTTTTAAAAAATGTTTTAGAAAAAT
21988 -ATATAT
1 AATATAT
21994 TATATAGTAC
Statistics
Matches: 85, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
32 28 0.33
33 29 0.34
34 3 0.04
35 9 0.11
36 11 0.13
37 5 0.06
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.42
Consensus pattern (33 bp):
AATATATAGTTTTAAAAAATGTTTTAGAAAAAT
Found at i:33092 original size:3 final size:3
Alignment explanation
Indices: 33079--33118 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
33069 TTTTTTATCG
33079 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
33119 GTTTATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:33111 original size:22 final size:22
Alignment explanation
Indices: 33083--33126 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
33073 TTATCGTTAT
33083 TTTATTATTATTAT-TATTATTA
1 TTTATTATTATTATGT-TTATTA
33105 TTTATTATTATTATGTTTATTA
1 TTTATTATTATTATGTTTATTA
33127 ATTACATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTATTATTATTATGTTTATTA
Found at i:40021 original size:11 final size:11
Alignment explanation
Indices: 39993--40030 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
39983 AAGAGCAAAG
39993 AGAAAAATCAA
1 AGAAAAATCAA
40004 AGCAAAAATCAA
1 AG-AAAAATCAA
*
40016 AGAAAAAGCAA
1 AGAAAAATCAA
40027 AGAA
1 AGAA
40031 CAAAAAGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.71, C:0.11, G:0.13, T:0.05
Consensus pattern (11 bp):
AGAAAAATCAA
Found at i:41225 original size:12 final size:12
Alignment explanation
Indices: 41205--41257 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 12
41195 GATCGAGAAA
41205 ACATACATATAT
1 ACATACATATAT
*
41217 ACATGCATATAT
1 ACATACATATAT
*
41229 --ATACATACAT
1 ACATACATATAT
*
41239 ACAT--ATATAC
1 ACATACATATAT
41249 ACATACATA
1 ACATACATA
41258 CATAATCCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
10 16 0.50
12 16 0.50
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (12 bp):
ACATACATATAT
Found at i:41230 original size:4 final size:4
Alignment explanation
Indices: 41205--41261 Score: 50
Period size: 4 Copynumber: 15.2 Consensus size: 4
41195 GATCGAGAAA
* * * *
41205 ACAT ACAT ATAT ACAT GCAT --AT ATAT ACAT ACAT ACAT ATAT AC--
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
41249 ACAT ACAT ACAT A
1 ACAT ACAT ACAT A
41262 ATCCATAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.09
4 39 0.91
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (4 bp):
ACAT
Found at i:41238 original size:18 final size:18
Alignment explanation
Indices: 41215--41261 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
41205 ACATACATAT
* *
41215 ATACATGCATATATATAC
1 ATACATACATATATACAC
41233 ATACATACATATATACAC
1 ATACATACATATATACAC
41251 ATACATACATA
1 ATACATACATA
41262 ATCCATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (18 bp):
ATACATACATATATACAC
Found at i:41252 original size:14 final size:14
Alignment explanation
Indices: 41205--41257 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
41195 GATCGAGAAA
41205 ACATACATATATAC
1 ACATACATATATAC
* * *
41219 ATGCATATATATACAT
1 A--CATACATATATAC
41235 ACATACATATATAC
1 ACATACATATATAC
41249 ACATACATA
1 ACATACATA
41258 CATAATCCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 20 0.65
16 11 0.35
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (14 bp):
ACATACATATATAC
Found at i:41855 original size:105 final size:101
Alignment explanation
Indices: 41714--41944 Score: 252
Period size: 105 Copynumber: 2.2 Consensus size: 101
41704 TGAGAATTTT
* * * *
41714 AAAACAAATTGTGTTTCGCTTGAGACATTTTTCCTTTTAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATT-TGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
*
41778 TAAAAACAAAATTAATCTCACCTT-AGATTCTTGTTTCTTTC-
65 T-AAAACAAAATTAATCTCA-CTTGAGA-TC--GTTTC-CTCA
* * *
41819 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATTCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTT-GTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * * *
41884 TTAGACAAAGTTGATCTCACTTGAGATCGTTTCCTCA
65 TAAAACAAAATTAATCTCACTTGAGATCGTTTCCTCA
41921 AAAACAAATTTTGTCTCGCTTGAG
1 AAAACAAA-TTTGTCTCGCTTGAG
41945 GCAATTTATT
Statistics
Matches: 109, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
101 2 0.02
102 25 0.23
103 3 0.03
104 6 0.06
105 72 0.66
106 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (101 bp):
AAAACAAATTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACAT
AAAACAAAATTAATCTCACTTGAGATCGTTTCCTCA
Found at i:42154 original size:36 final size:34
Alignment explanation
Indices: 42099--42190 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 34
42089 ATCGTTTTCT
* * * *
42099 CAAACTTTGTCTCGCTTGAGACAATTTCTCTAAAAA
1 CAAATTTTGTCTCACTTGAGAC--TGTATCTAAAAA
* * *
42135 CAAATTTTGTCTCATTTGAGACTGTATCTTAAAG
1 CAAATTTTGTCTCACTTGAGACTGTATCTAAAAA
* *
42169 CAAATTTTGTCTCGCTTAAGAC
1 CAAATTTTGTCTCACTTGAGAC
42191 ATCATTTTCT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
34 27 0.59
36 19 0.41
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (34 bp):
CAAATTTTGTCTCACTTGAGACTGTATCTAAAAA
Found at i:42481 original size:27 final size:28
Alignment explanation
Indices: 42442--42598 Score: 187
Period size: 29 Copynumber: 5.6 Consensus size: 28
42432 TTTCTTTTGA
42442 GAAAAAAATCTTTGAGTTTGTTCCTCTT
1 GAAAAAAATCTTTGAGTTTGTTCCTCTT
*
42470 G-AAAAAGTCTTTGAGTTTGTTCCTCTT
1 GAAAAAAATCTTTGAGTTTGTTCCTCTT
*
42497 GAAAAAAATCTTTGAGTTTGTTCCTTTT
1 GAAAAAAATCTTTGAGTTTGTTCCTCTT
* *
42525 GAATAAAAATCTTGGAGTTTATTCCT-TT
1 GAA-AAAAATCTTTGAGTTTGTTCCTCTT
* *
42553 GGAATAAAAATCTGTGAG-TTGTTTCGT-TT
1 -GAA-AAAAATCTTTGAGTTTG-TTCCTCTT
*
42582 GAAAAAAATCTTCGAGT
1 GAAAAAAATCTTTGAGT
42599 CTATTTACTT
Statistics
Matches: 113, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
27 37 0.33
28 35 0.31
29 41 0.36
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (28 bp):
GAAAAAAATCTTTGAGTTTGTTCCTCTT
Found at i:42532 original size:29 final size:28
Alignment explanation
Indices: 42442--42598 Score: 192
Period size: 28 Copynumber: 5.6 Consensus size: 28
42432 TTTCTTTTGA
*
42442 GAAAAAAATCTTTGAGTTTGTTCCTCTT
1 GAAAAAAATCTTTGAGTTTGTTCCTTTT
* *
42470 G-AAAAAGTCTTTGAGTTTGTTCCTCTT
1 GAAAAAAATCTTTGAGTTTGTTCCTTTT
42497 GAAAAAAATCTTTGAGTTTGTTCCTTTT
1 GAAAAAAATCTTTGAGTTTGTTCCTTTT
* * *
42525 GAATAAAAATCTTGGAGTTTATTCCTTTG
1 GAA-AAAAATCTTTGAGTTTGTTCCTTTT
* * *
42554 GAATAAAAATCTGTGAG-TTGTTTCGTTT
1 GAA-AAAAATCTTTGAGTTTGTTCCTTTT
*
42582 GAAAAAAATCTTCGAGT
1 GAAAAAAATCTTTGAGT
42599 CTATTTACTT
Statistics
Matches: 112, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
27 37 0.33
28 38 0.34
29 37 0.33
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (28 bp):
GAAAAAAATCTTTGAGTTTGTTCCTTTT
Found at i:42583 original size:57 final size:56
Alignment explanation
Indices: 42442--42603 Score: 179
Period size: 57 Copynumber: 2.9 Consensus size: 56
42432 TTTCTTTTGA
* * * *
42442 GAAAAAAATCTTTGAGTTTGTTCC-TCTTG-AAAAAGTCTTTGAGTTTGTTCCTCTT
1 GAAAAAAATCTGTGAGTTTGTTCCGT-TTGAAAAAAATCTTCGAGTTTATTCCTCTT
* * *
42497 GAAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTATTCCT-TT
1 GAAAAAAATCTGTGAGTTTGTTCCGTTTGAA-AAAAATCTTCGAGTTTATTCCTCTT
* *
42553 GGAATAAAAATCTGTGAG-TTGTTTCGTTTGAAAAAAATCTTCGAGTCTATT
1 -GAA-AAAAATCTGTGAGTTTGTTCCGTTTGAAAAAAATCTTCGAGTTTATT
42604 TACTTTGAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
55 27 0.29
56 21 0.22
57 34 0.36
58 12 0.13
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.42
Consensus pattern (56 bp):
GAAAAAAATCTGTGAGTTTGTTCCGTTTGAAAAAAATCTTCGAGTTTATTCCTCTT
Found at i:42683 original size:30 final size:30
Alignment explanation
Indices: 42647--42777 Score: 127
Period size: 30 Copynumber: 4.1 Consensus size: 30
42637 AATTTTGTGA
*
42647 AAAAATCTTTGAGATTGTTTCTTTTGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
*
42677 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
* * ** *
42707 AAAATTTTGTCTCTTTTAAGATAATTTCTTTTGAAAC
1 AAAA------ATC-TTTGAGATTGTTTCTTTGGAAAC
*
42744 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
42774 AAAA
1 AAAA
42778 TTTTGTCTCT
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
30 54 0.68
31 2 0.03
36 2 0.03
37 22 0.28
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.44
Consensus pattern (30 bp):
AAAAATCTTTGAGATTGTTTCTTTGGAAAC
Found at i:42706 original size:92 final size:95
Alignment explanation
Indices: 42558--42777 Score: 256
Period size: 92 Copynumber: 2.3 Consensus size: 95
42548 CCTTTGGAAT
* * *
42558 AAAAATCTGTGAGTTGTTTCGTTTG-AA-AAAAATCTTCGAGTCTATTTACTTTGAAACAAAGTT
1 AAAAATCTTTGAGTTGTTTCTTTTGAAACAAAAATCTTCGAGTCTATTTACTTTGAAACAAAATT
*
42621 TTGTCTCTCTTGAGACAA-TT-TTGTG-A-
66 TTGTCTCTCTTAAGACAATTTCTTGTGAAC
* * *
42647 AAAAATCTTTGAGATTGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTT-CTTTGGAAACAAAA
1 AAAAATCTTTGAG-TTGTTTCTTTTGAAACAAAAATCTTCGAGTCTATTTACTTT-GAAACAAAA
* * *
42711 TTTTGTCTCTTTTAAGATAATTTCTTTTGAAAC
64 TTTTGTCTCTCTTAAGACAATTTCTTGTG-AAC
*
42744 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAA
1 AAAAATCTTTGAG-TTGTTTCTTTTGAAACAAAA
42778 TTTTGTCTCT
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
89 12 0.11
90 11 0.10
91 6 0.05
92 42 0.38
93 2 0.02
94 4 0.04
96 1 0.01
97 32 0.29
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (95 bp):
AAAAATCTTTGAGTTGTTTCTTTTGAAACAAAAATCTTCGAGTCTATTTACTTTGAAACAAAATT
TTGTCTCTCTTAAGACAATTTCTTGTGAAC
Found at i:42741 original size:67 final size:68
Alignment explanation
Indices: 42664--42855 Score: 318
Period size: 67 Copynumber: 2.9 Consensus size: 68
42654 TTTGAGATTG
*
42664 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCT-TTTAAGA
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAAGA
*
42728 TAA
66 CAA
42731 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAAGA
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAAGA
42796 CAA
66 CAA
* *
42799 TTTCTTTTGAAA-AAAAATCTCTGAGTTTGTTTCCTTT-GAAACAAAATTTCGTCTCTC
1 TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTT-CTTTGGAAACAAAATTTTGTCTCTC
42856 GAGACAACTT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
67 95 0.80
68 24 0.20
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (68 bp):
TTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAAGA
CAA
Found at i:42912 original size:40 final size:40
Alignment explanation
Indices: 42857--42936 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
42847 TCGTCTCTCG
*
42857 AGACAACTTCTTTTGAAAATACCCACCTTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
*
42897 AGACAACTTCTTTTGAAAATACCCACATTTGATATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
42937 CTATTAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
Found at i:43364 original size:35 final size:36
Alignment explanation
Indices: 43298--43372 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
43288 TATTTCTTTG
* *
43298 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
*
43334 GAAACAAAA-TAAACATCTTTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCTGTTTCCCTT
43369 GAAA
1 GAAA
43373 TGAATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
Found at i:43695 original size:28 final size:28
Alignment explanation
Indices: 43645--43698 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
43635 TCAAAATCCA
* *
43645 ATCTTTGAGTTTGTTTCTATTGAAACAC
1 ATCTTTGAGTTGGTTCCTATTGAAACAC
43673 ATCTTTGAGTTGGTCTCCT-TTGAAAC
1 ATCTTTGAGTTGGT-TCCTATTGAAAC
43699 CATTATCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (28 bp):
ATCTTTGAGTTGGTTCCTATTGAAACAC
Found at i:43861 original size:43 final size:43
Alignment explanation
Indices: 43801--44052 Score: 190
Period size: 43 Copynumber: 5.8 Consensus size: 43
43791 TCATTCCCCG
* *
43801 ACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATA
1 ACCAGAACTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
* * * * * *
43844 ACCAG-CCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATG
1 ACCAGAAC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATA
* * * * **
43890 GCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---
1 ACCAGAACTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
*
43930 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
1 ACCAGAACTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
* * * * *
43973 ACCAG-CCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATA
1 ACCAGAAC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATA
* *
44019 GCCAAGAACTCTTCATCACGTAGGAGCCGTGTCA
1 ACC-AGAACTCCTCATCACGTAGGAGCCGTGTCA
44053 CCTTTAGACG
Statistics
Matches: 160, Mismatches: 35, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
40 33 0.21
42 2 0.01
43 55 0.34
44 2 0.01
45 6 0.04
46 37 0.23
47 24 0.15
48 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (43 bp):
ACCAGAACTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
Found at i:43945 original size:129 final size:129
Alignment explanation
Indices: 43710--44052 Score: 616
Period size: 129 Copynumber: 2.7 Consensus size: 129
43700 ATTATCCTAG
43710 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
43775 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
* *
43839 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
43904 TCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
43968 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAAGAACTCTTC
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCTTC
*
44033 ATCACGTAGGAGCCGTGTCA
65 ATCACGTATGAGCCGTGTCA
44053 CCTTTAGACG
Statistics
Matches: 205, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
128 5 0.02
129 171 0.83
130 29 0.14
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.24
Consensus pattern (129 bp):
AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
Found at i:43946 original size:40 final size:40
Alignment explanation
Indices: 43762--43962 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 40
43752 CTTTAGATGG
*
43762 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCC-GA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCA-TCCCCAGA
* * **
43802 CCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAG---A
* * * * * *
43845 CCAG-CCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGA
1 CCAGAAC-TCTTCATCACGTAGGAGCCGTGTCATC-CC--CAGA
*
43888 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGA
1 ---CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAGA
* *
43931 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCA
43963 ACCATAGATA
Statistics
Matches: 127, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
39 2 0.02
40 60 0.47
42 1 0.01
43 31 0.24
44 1 0.01
45 2 0.02
46 29 0.23
47 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAGA
Found at i:44083 original size:43 final size:41
Alignment explanation
Indices: 43729--44094 Score: 188
Period size: 43 Copynumber: 8.4 Consensus size: 41
43719 GCCGTCCTCG
* *
43729 TCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 TCACGTAGGAGCCGTG---TCACC-TTAGA-GACCAGAACTCTTCA
* *** *
43775 TCACGTATGAGCCGTGTCA--TTCCCCGACCAGATCTCTTCA
1 TCACGTAGGAGCCGTGTCACCTT-AGAGACCAGAACTCTTCA
* * * *
43815 TCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CCGTCCTCA
1 TCACGTAGGAGCCGTGTC-ACCTTAGA-GACCAGAAC-TCTTCA
* * *
43858 TCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 TCACGTAGGAGCC--G-TGTCACC-TTAGA-GACCAGAACTCTTCA
* ** * *
43904 TCACGTATGAGCCGTGTCATCC--CCAGACCAGATCTCCTCA
1 TCACGTAGGAGCCGTGTCA-CCTTAGAGACCAGAACTCTTCA
* * * * *
43944 TCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CCGTCCTCG
1 TCACGTAGGAGCCGTGTC-ACCTTAGA-GACCAGAAC-TCTTCA
* *
43987 TCACGTAGGAACCGTGTTATCACCTTTAGATAGCCAAGAACTCTTCA
1 TCACGTAGGAGCCGTG---TCACC-TTAGAGA-CC-AGAACTCTTCA
44034 TCACGTAGGAGCCGTGTCACCTTTAGACGACCCA-AACTCTTCA
1 TCACGTAGGAGCCGTGTCACC-TTAGA-GA-CCAGAACTCTTCA
* *
44077 TCACGTATGAGCAGTGTC
1 TCACGTAGGAGCCGTGTC
44095 GTCCCCAACA
Statistics
Matches: 248, Mismatches: 47, Indels: 53
0.71 0.14 0.15
Matches are distributed among these distances:
40 63 0.25
41 3 0.01
42 3 0.01
43 80 0.32
44 15 0.06
45 11 0.04
46 50 0.20
47 22 0.09
48 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (41 bp):
TCACGTAGGAGCCGTGTCACCTTAGAGACCAGAACTCTTCA
Found at i:44262 original size:3 final size:3
Alignment explanation
Indices: 44249--44291 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
44239 TTTTTTATCG
44249 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
44292 GTTTATTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:44298 original size:19 final size:19
Alignment explanation
Indices: 44249--44291 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
44239 TTTTTTATCG
44249 TTATT-TTATTA-TTATTA
1 TTATTATTATTATTTATTA
44266 TTATTATTATTATTTATTA
1 TTATTATTATTATTTATTA
44285 TTATTAT
1 TTATTAT
44292 GTTTATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 5 0.21
18 6 0.25
19 13 0.54
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTATTATTATTTATTA
Found at i:44435 original size:25 final size:25
Alignment explanation
Indices: 44406--44453 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
44396 CCAACCTATC
44406 AGATTAGGGTTTCAAACCCTAAAAT
1 AGATTAGGGTTTCAAACCCTAAAAT
44431 AGATTAGGGTTTCAAACCCTAAA
1 AGATTAGGGTTTCAAACCCTAAA
44454 TGTTCCAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (25 bp):
AGATTAGGGTTTCAAACCCTAAAAT
Found at i:49647 original size:19 final size:22
Alignment explanation
Indices: 49625--49674 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
49615 AAAAAATAGA
49625 AATAAAAAT-AAGTAA-TA-AT
1 AATAAAAATAAAGTAATTATAT
49644 AATAAAAATAAAGTAATTATAT
1 AATAAAAATAAAGTAATTATAT
*
49666 AATATAAAT
1 AATAAAAAT
49675 TTTAAAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 9 0.33
20 6 0.22
21 2 0.07
22 10 0.37
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (22 bp):
AATAAAAATAAAGTAATTATAT
Found at i:49794 original size:35 final size:35
Alignment explanation
Indices: 49705--49801 Score: 124
Period size: 36 Copynumber: 2.7 Consensus size: 35
49695 CTATATACTA
*** *
49705 TATATAAATTTTCAAAAACGTTGTTTTTTTTAAAAC
1 TATAT-AATTTTCAAAAAAAATGTTTTTTTAAAAAC
49741 TATATAATTTTCAAAAAAAAATGTTTTTTTAAAAAC
1 TATATAATTTTC-AAAAAAAATGTTTTTTTAAAAAC
*
49777 TATATGATTTTC-AAAAAAATGTTTT
1 TATATAATTTTCAAAAAAAATGTTTT
49802 CAAAAATTAG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
34 13 0.24
35 7 0.13
36 35 0.64
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.45
Consensus pattern (35 bp):
TATATAATTTTCAAAAAAAATGTTTTTTTAAAAAC
Found at i:49915 original size:36 final size:37
Alignment explanation
Indices: 49777--50005 Score: 241
Period size: 36 Copynumber: 6.2 Consensus size: 37
49767 TTTTAAAAAC
* * * *
49777 TATATGATTTTCAAAAAAATGTTTTCAAAAATTAGATAT
1 TATATAATTTTC--AAAAATGTTTTTAAAAACTATATAT
*
49816 TATATAAGTTTTCAAAAATGTTTTTAAAATCTATATAT
1 TATATAA-TTTTCAAAAATGTTTTTAAAAACTATATAT
* *
49854 TATTTAAATTTCAAAAAATGTTTTTAAAAACTATATAT
1 TATATAATTTTC-AAAAATGTTTTTAAAAACTATATAT
* *
49892 TATAT-ATTTTGCAAAAAT-ATTTTAAAAACTATATTT
1 TATATAATTTT-CAAAAATGTTTTTAAAAACTATATAT
*** * * *
49928 TATACGGTTTTCAAAAGTG-CTTTAAAAACCATATAT
1 TATATAATTTTCAAAAATGTTTTTAAAAACTATATAT
*
49964 TATATAATTTT-TAAAATGTTTTTAAAAACTATATAT
1 TATATAATTTTCAAAAATGTTTTTAAAAACTATATAT
50000 TATATA
1 TATATA
50006 CGTATTTTCA
Statistics
Matches: 159, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
35 5 0.03
36 69 0.43
37 18 0.11
38 56 0.35
39 6 0.04
40 5 0.03
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (37 bp):
TATATAATTTTCAAAAATGTTTTTAAAAACTATATAT
Found at i:55991 original size:21 final size:21
Alignment explanation
Indices: 55961--56002 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
55951 AGGTCGGTTA
*
55961 CAACCTTTGTAATGTGGAACT
1 CAACCATTGTAATGTGGAACT
55982 CAACCATTGTAATGTGGAACT
1 CAACCATTGTAATGTGGAACT
56003 AAGTATTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (21 bp):
CAACCATTGTAATGTGGAACT
Found at i:62885 original size:113 final size:113
Alignment explanation
Indices: 62739--63005 Score: 412
Period size: 113 Copynumber: 2.4 Consensus size: 113
62729 GAGCAAGTTA
* *
62739 TTCCTTCTTCAGATGAGTTTTTCTCATTATGAACTCT-CTCTGG-AAAAATTGATCCATCAAGTG
1 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGTAAAAA-TGATCCATCAAATG
* * *
62802 ATGAATTCGAGCAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTATTC
64 ATGAATTCAAACAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTATCC
**
62852 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGTAATGATGATCCATCAAATGAT
1 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGTAAAAATGATCCATCAAATGAT
* *
62917 GAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTCC
66 GAATTCAAACAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTATCC
*
62965 TTCATTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCT
1 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCT
63006 CTTCTTCAGA
Statistics
Matches: 142, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
113 138 0.97
114 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (113 bp):
TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGTAAAAATGATCCATCAAATGAT
GAATTCAAACAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTATCC
Found at i:62984 original size:40 final size:39
Alignment explanation
Indices: 62939--63038 Score: 159
Period size: 38 Copynumber: 2.6 Consensus size: 39
62929 AAAGTTGAAC
62939 AAGTTCTTCTCATTATGAACTTCT-CCTTCATTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTCTACC-TC-TTCTTCAGAT
*
62979 GAGTTCTTCTCATTATGAAC-TCTACCTCTTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTCTACCTCTTCTTCAGAT
63017 AAGTTCTTCTCATTATGAACTT
1 AAGTTCTTCTCATTATGAACTT
63039 TCTCTGGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
38 29 0.52
39 6 0.11
40 21 0.38
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (39 bp):
AAGTTCTTCTCATTATGAACTTCTACCTCTTCTTCAGAT
Found at i:63081 original size:151 final size:151
Alignment explanation
Indices: 62830--63150 Score: 441
Period size: 151 Copynumber: 2.1 Consensus size: 151
62820 TTGAACAAGC
* *
62830 TCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGG
1 TCTTCTCATTATGAACTTA-TCCTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTACCTGG
* * *
62895 TAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
65 AAAAGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGCTCTTCTCATTATGAACT
*
62960 TCTCCTTCATTCTTCAGATGAGT
130 TCTCCTTC-TTCTTCAGATAAGT
*
62983 TCTTCTCATTATGAACTCTA-CCT-CTTCTTCAGATAAGTTCTTCTCATTATGAACT-TTCTCTG
1 TCTTCTCATTATGAACT-TATCCTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTAC-CTG
* * * * * * * *
63045 GAAAAGCTGATCCATCGAGTGATGGATTCGAGCAAAAGGTTGAACAAGCTCTTCTGATTATGAAC
64 GAAAAGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGCTCTTCTCATTATGAAC
*
63110 TTCTTCTTCTTCTTCAGATAAGT
129 TTCTCCTTCTTCTTCAGATAAGT
63133 TCTTCTCATTATGAACTT
1 TCTTCTCATTATGAACTT
63151 TCTCTGAAAA
Statistics
Matches: 150, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
149 1 0.01
150 32 0.21
151 96 0.64
152 2 0.01
153 17 0.11
154 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (151 bp):
TCTTCTCATTATGAACTTATCCTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTACCTGGA
AAAGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGCTCTTCTCATTATGAACTT
CTCCTTCTTCTTCAGATAAGT
Found at i:63350 original size:224 final size:224
Alignment explanation
Indices: 63096--63522 Score: 766
Period size: 224 Copynumber: 1.9 Consensus size: 224
63086 GAACAAGCTC
* *
63096 TTCTGATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGAAAA
1 TTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGAAAA
*
63161 AGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACACA-TTCTTCTTA
66 AGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACA-AGTTCTTCTCA
63225 TTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTTATTATGAACTTTCTCTGGAAAAGTTG
130 TTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTTATTATGAACTTTCTCTGGAAAAGTTG
63290 ATCCATCGAGTGATGAATTCAAGAAAAAGG
195 ATCCATCGAGTGATGAATTCAAGAAAAAGG
* * * *
63320 TTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTTTGAACTTTCTCTGGAAA
1 TTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGAAAA
63385 AGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGTTCTTCTCAT
66 AGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGTTCTTCTCAT
*
63450 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTGGAAAAGTTGA
131 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTTATTATGAACTTTCTCTGGAAAAGTTGA
63515 TCCATCGA
196 TCCATCGA
63523 AGGTTTTGAA
Statistics
Matches: 194, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
223 1 0.01
224 193 0.99
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (224 bp):
TTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGAAAA
AGTTGATGTTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAGGTTGAACAAGTTCTTCTCAT
TATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTTATTATGAACTTTCTCTGGAAAAGTTGA
TCCATCGAGTGATGAATTCAAGAAAAAGG
Found at i:63653 original size:76 final size:76
Alignment explanation
Indices: 63522--63668 Score: 258
Period size: 76 Copynumber: 1.9 Consensus size: 76
63512 TGATCCATCG
* * *
63522 AAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTA
1 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGATTTTTGGAAACATCATGCACTGCAGGACTTA
63587 CAGATGACCCT
66 CAGATGACCCT
*
63598 AAGGCTTTGAAAACATCAAAAAGCTTCCGAAGGATTTTTGGAAACATCATGCACTGCAGGACTTA
1 AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGATTTTTGGAAACATCATGCACTGCAGGACTTA
63663 CAGATG
66 CAGATG
63669 TAGGAAATAG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 67 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (76 bp):
AAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGATTTTTGGAAACATCATGCACTGCAGGACTTA
CAGATGACCCT
Found at i:64363 original size:22 final size:22
Alignment explanation
Indices: 64338--64397 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
64328 AATAAAGCTT
*
64338 TCATTTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
64360 TCATCTTTAAAAAGATAATCTA
1 TCATCTTTGAAAAGAGAATCTA
64382 TCATCTTTGAAAAGAG
1 TCATCTTTGAAAAGAG
64398 TGTAGATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:65425 original size:36 final size:34
Alignment explanation
Indices: 65385--65458 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 34
65375 CATTACTTCT
65385 TATTG-AGATGAGCCTCCAAGAATGCCCAAATATTC
1 TATTGTAG-TGAGCCTCCAA-AATGCCCAAATATTC
* * *
65420 ATATTGTTGTGAGCCTTCAAAATGCCCTAATATTC
1 -TATTGTAGTGAGCCTCCAAAATGCCCAAATATTC
65455 TATT
1 TATT
65459 TTTGGTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 4 0.12
35 14 0.41
36 15 0.44
37 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (34 bp):
TATTGTAGTGAGCCTCCAAAATGCCCAAATATTC
Found at i:66575 original size:114 final size:114
Alignment explanation
Indices: 66375--66712 Score: 613
Period size: 114 Copynumber: 3.0 Consensus size: 114
66365 GATTATGCAG
* * * * *
66375 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
66440 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
*
66489 TTCATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
66554 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66603 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
*
66668 ACACTTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACTATGAG
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAG
66713 AACGTGGCAC
Statistics
Matches: 216, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 216 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:68883 original size:15 final size:15
Alignment explanation
Indices: 68860--68890 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
68850 ATTCAATTTC
68860 TCCCCTTTTTCTTTT
1 TCCCCTTTTTCTTTT
*
68875 TCCCTTTTTTCTTTT
1 TCCCCTTTTTCTTTT
68890 T
1 T
68891 TCTCATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TCCCCTTTTTCTTTT
Found at i:68888 original size:7 final size:7
Alignment explanation
Indices: 68865--68957 Score: 55
Period size: 7 Copynumber: 12.3 Consensus size: 7
68855 ATTTCTCCCC
68865 TTTTTCT
1 TTTTTCT
*
68872 TTTTCCCT
1 TTTT-TCT
68880 TTTTTCT
1 TTTTTCT
68887 TTTTTCT
1 TTTTTCT
*
68894 CATTTTTCC
1 --TTTTTCT
68903 TTTTTC-
1 TTTTTCT
* *
68909 ATCTT-T
1 TTTTTCT
68915 TTTTTCT
1 TTTTTCT
68922 TTCTTTCT
1 TT-TTTCT
68930 TTCTTTGCT
1 TT-TTT-CT
68939 GGATTTTTCT
1 ---TTTTTCT
68949 TTTTTCT
1 TTTTTCT
68956 TT
1 TT
68958 CTTTGCTGGA
Statistics
Matches: 69, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
6 6 0.09
7 31 0.45
8 17 0.25
9 8 0.12
10 2 0.03
11 3 0.04
12 2 0.03
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.74
Consensus pattern (7 bp):
TTTTTCT
Found at i:68890 original size:16 final size:15
Alignment explanation
Indices: 68860--68908 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
68850 ATTCAATTTC
*
68860 TCCCCTTTTTCTTTT
1 TCCCATTTTTCTTTT
*
68875 TCCCTTTTTTCTTTTT
1 TCCCATTTTTC-TTTT
*
68891 TCTCATTTTTCCTTTT
1 TCCCATTTTT-CTTTT
68907 TC
1 TC
68909 ATCTTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 10 0.34
16 18 0.62
17 1 0.03
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (15 bp):
TCCCATTTTTCTTTT
Found at i:68906 original size:15 final size:15
Alignment explanation
Indices: 68865--68921 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 15
68855 ATTTCTCCCC
* *
68865 TTTTTCTTTTTCCCT
1 TTTTTCTTTTTCTCA
68880 TTTTTCTTTTTTCTCA
1 TTTTTC-TTTTTCTCA
*
68896 TTTTTCCTTTT-TCA
1 TTTTTCTTTTTCTCA
*
68910 TCTTT-TTTTTCT
1 TTTTTCTTTTTCT
68922 TTCTTTCTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
13 4 0.11
14 8 0.23
15 10 0.29
16 13 0.37
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTCTTTTTCTCA
Found at i:68907 original size:32 final size:31
Alignment explanation
Indices: 68865--68925 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
68855 ATTTCTCCCC
*
68865 TTTTTCTTTTTC-CCTTTTTTCTTTTTTCTCA
1 TTTTTCTTTTTCACCTTTTTT-TTCTTTCTCA
*
68896 TTTTTCCTTTTTCATCTTTTTTTTCTTTCT
1 TTTTT-CTTTTTCACCTTTTTTTTCTTTCT
68926 TTCTTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 5 0.19
32 14 0.54
33 7 0.27
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.75
Consensus pattern (31 bp):
TTTTTCTTTTTCACCTTTTTTTTCTTTCTCA
Found at i:68930 original size:17 final size:16
Alignment explanation
Indices: 68865--68931 Score: 55
Period size: 17 Copynumber: 4.0 Consensus size: 16
68855 ATTTCTCCCC
**
68865 TTTTTC-TTTTTCCCT
1 TTTTTCTTTTTTCTTT
*
68880 TTTTTCTTTTTTCTCAT
1 TTTTTCTTTTTTCT-TT
*
68897 TTTTCCTTTTTCATCTTT
1 TTTTTCTTTTT--TCTTT
68915 TTTTTCTTTCTTTCTTT
1 TTTTTCTTT-TTTCTTT
68932 CTTTGCTGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
15 6 0.14
16 6 0.14
17 16 0.38
18 9 0.21
19 5 0.12
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTT
Found at i:68945 original size:26 final size:26
Alignment explanation
Indices: 68915--68968 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 26
68905 TTTCATCTTT
68915 TTTTTCTTTCTTTCTTTCTTTGCTGGA
1 TTTTTCTTT-TTTCTTTCTTTGCTGGA
68942 TTTTTCTTTTTTCTTTCTTTGCTGGA
1 TTTTTCTTTTTTCTTTCTTTGCTGGA
68968 T
1 T
68969 GAGTATAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.04, C:0.17, G:0.11, T:0.69
Consensus pattern (26 bp):
TTTTTCTTTTTTCTTTCTTTGCTGGA
Found at i:71728 original size:12 final size:12
Alignment explanation
Indices: 71688--71746 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 12
71678 TTATGGAAAT
71688 ATGCAAATGTAA
1 ATGCAAATGTAA
* *
71700 ATACAAACGTAA
1 ATGCAAATGTAA
71712 A---AAATGTAA
1 ATGCAAATGTAA
*
71721 ATGTAAATGTAA
1 ATGCAAATGTAA
*
71733 ATGCAAATATAA
1 ATGCAAATGTAA
71745 AT
1 AT
71747 ATGTGAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 8 0.21
12 31 0.79
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.25
Consensus pattern (12 bp):
ATGCAAATGTAA
Found at i:71748 original size:6 final size:6
Alignment explanation
Indices: 71713--71746 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
71703 CAAACGTAAA
* *
71713 AAATGT AAATGT AAATGT AAATGC AAATAT AAAT
1 AAATGT AAATGT AAATGT AAATGT AAATGT AAAT
71747 ATGTGAATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (6 bp):
AAATGT
Found at i:73413 original size:44 final size:38
Alignment explanation
Indices: 73330--73413 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 38
73320 CCTCTGACAG
* *
73330 AAAAATAAATAATAAAATTTAATATATGAAAATAAAGT
1 AAAAATAAAAAATAAAATTGAATATATGAAAATAAAGT
73368 AAAAATAAAAAATAAATATAATGAATATTATGAAAATCATAAGT
1 AAAAATAAAAAATAAA-AT--TGAATA-TATGAAAAT-A-AAGT
73412 AA
1 AA
73414 TAAAAATTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
38 15 0.39
39 2 0.05
41 5 0.13
42 9 0.24
43 1 0.03
44 6 0.16
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.27
Consensus pattern (38 bp):
AAAAATAAAAAATAAAATTGAATATATGAAAATAAAGT
Found at i:76312 original size:26 final size:28
Alignment explanation
Indices: 76283--76343 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 28
76273 AAATCGAATC
* *
76283 ATTTTAATT-TAA-TTAATATTTTTATT
1 ATTTTAATTAAAAGTTAATATTTTAATT
76309 A-TTT-ATTAAAAGTTAATATTTTAATT
1 ATTTTAATTAAAAGTTAATATTTTAATT
76335 ACTTTTAAT
1 A-TTTTAAT
76344 AAATAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
25 5 0.18
26 15 0.54
28 3 0.11
29 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
ATTTTAATTAAAAGTTAATATTTTAATT
Found at i:76350 original size:25 final size:26
Alignment explanation
Indices: 76296--76351 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
76286 TTAATTTAAT
* * *
76296 TAATATTTTTATTATTTATTAAAAGT
1 TAATATTTTAATTACTTATTAAAAGA
76322 TAATATTTTAATTACTT-TTAATAA-A
1 TAATATTTTAATTACTTATTAA-AAGA
76347 TAATA
1 TAATA
76352 AAAATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
TAATATTTTAATTACTTATTAAAAGA
Found at i:88086 original size:27 final size:26
Alignment explanation
Indices: 88016--88087 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 26
88006 AATTCGAATT
* **
88016 TTTTA-TTATTAATAATATATTAAAA
1 TTTTATTTATTAATATTATACAAAAA
*
88041 TTTTATTTATGT-TTAATTATACAAAAA
1 TTTTATTTAT-TAAT-ATTATACAAAAA
88068 TTTTATGTTATTAATATTAT
1 TTTTAT-TTATTAATATTAT
88088 TTGTACGCGT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
25 5 0.14
26 5 0.14
27 22 0.59
28 5 0.14
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (26 bp):
TTTTATTTATTAATATTATACAAAAA
Found at i:90423 original size:18 final size:16
Alignment explanation
Indices: 90403--90434 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
90393 AAAAATATTA
90403 AAAATTTAAATTATATG
1 AAAATTTAAA-TATATG
90420 AAAATTTAAATATAT
1 AAAATTTAAATATAT
90435 AAAGAAAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AAAATTTAAATATATG
Found at i:90700 original size:33 final size:33
Alignment explanation
Indices: 90663--90729 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
90653 TATTAAAGTG
*
90663 ATAAAATGATTACTTGACTATTCATATAATTCA
1 ATAAAATGATCACTTGACTATTCATATAATTCA
90696 ATAAAATGATCACTTGACTATTCATATAATTCA
1 ATAAAATGATCACTTGACTATTCATATAATTCA
90729 A
1 A
90730 ACTCTTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.37
Consensus pattern (33 bp):
ATAAAATGATCACTTGACTATTCATATAATTCA
Found at i:97674 original size:14 final size:15
Alignment explanation
Indices: 97641--97686 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
97631 TTTTCTTCGA
*
97641 TATTGAAAAATAAA-
1 TATTTAAAAATAAAT
*
97655 TA-TT-AAAATAATT
1 TATTTAAAAATAAAT
97668 TATTTAAAAATAAAT
1 TATTTAAAAATAAAT
97683 TATT
1 TATT
97687 ATTTATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 4 0.15
15 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
TATTTAAAAATAAAT
Found at i:99143 original size:3 final size:3
Alignment explanation
Indices: 99135--99273 Score: 233
Period size: 3 Copynumber: 46.3 Consensus size: 3
99125 TTAATATATT
*
99135 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
99183 TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
99231 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
99274 GATATGGGTA
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 128 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:100134 original size:113 final size:113
Alignment explanation
Indices: 99597--100155 Score: 949
Period size: 113 Copynumber: 5.0 Consensus size: 113
99587 AGAATTATGC
* * * *
99597 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
99662 TATGAAC-TTCTCCGGAAAAGATAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
*
99709 AAAAGGTTGAACAAATTCTTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
99774 TATGAACTTTCTCTGGAAAAGATGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
99822 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
99887 TATGAACTTTCTCTGGAAAAGCTGATCCCTCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
*
99935 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTACTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
100000 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
100048 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* ** *
100113 TATGAACTTTCTCTGGAAAAGCTAATCTTTCAAATGATAGATT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATT
100156 TGAATCTTTG
Statistics
Matches: 428, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
112 68 0.16
113 360 0.84
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
Found at i:101103 original size:82 final size:82
Alignment explanation
Indices: 100947--101621 Score: 966
Period size: 82 Copynumber: 8.1 Consensus size: 82
100937 TTTACTATGA
* * * * *
100947 GCAAATTCATCTTCCAAATTCAATGATTGGTTTTTTGGGTTCATACCAAACCAGATAACTCAAAG
1 GCAAATTCATCTTCTAAATTCAATGATT-G--TTCT--GTCCA-ACCAGATCAGATAACTCAAAG
101012 AACACTTCCAGAAGATGCTATTG
60 AACACTTCCAGAAGATGCTATTG
*
101035 GCAAATTCATCTTCTAAACTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
101100 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
* * * * *
101117 GCAAATTCATTTGTTCT--ATTTAATGTTTGATTCTGTCCAATCAGATCAGATAACTCAAAGGAC
1 GCAAATTCA--TCTTCTAAATTCAATGATTG-TTCTGTCCAACCAGATCAGATAACTCAAAGAAC
101180 ACTTCCAGAAGATGCTATTG
63 ACTTCCAGAAGATGCTATTG
101200 GCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
101265 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
* *
101282 GCAAATTCATTTGTTCT--ATTTAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACA
1 GCAAATTCA--TCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACA
101345 CTTCCAGAAGATGCTA-TG
64 CTTCCAGAAGATGCTATTG
* ** * *
101363 AGCACATTCATCTTCCCAATTCAATGATTGGTTCTG-CTAAACCAGGTCAGATAACTCAAAGAAC
1 -GCAAATTCATCTTCTAAATTCAATGATT-GTTCTGTC-CAACCAGATCAGATAACTCAAAGAAC
*
101427 ACTTCCAGAAGATGCTATTA
63 ACTTCCAGAAGATGCTATTG
* * *
101447 ACAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGATCAAATAACTCAAAGAACAC
1 GCAAATTCATCTTCTAAATTCAATGATT-GTTCTGTCCAACCAGATCAGATAACTCAAAGAACAC
*
101512 TTCCAGAAGATGCTATTA
65 TTCCAGAAGATGCTATTG
101530 GCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
1 GCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
101595 TCCAGAAGATGCTATTG
66 TCCAGAAGATGCTATTG
101612 GCAAATTCAT
1 GCAAATTCAT
101622 TTGTTCTATT
Statistics
Matches: 536, Mismatches: 37, Indels: 34
0.88 0.06 0.06
Matches are distributed among these distances:
80 4 0.01
81 7 0.01
82 261 0.49
83 222 0.41
84 12 0.02
85 3 0.01
87 1 0.00
88 26 0.05
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (82 bp):
GCAAATTCATCTTCTAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACT
TCCAGAAGATGCTATTG
Found at i:101270 original size:165 final size:164
Alignment explanation
Indices: 100998--101636 Score: 1043
Period size: 165 Copynumber: 3.9 Consensus size: 164
100988 CATACCAAAC
*
100998 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGATT
101063 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATT
66 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATT
* *
101128 TGTTCTATTTAATGTTTGATTCTGTCCAATCAGAT
131 TGTTCTATTTAATGATTG-TTCTGTCCAACCAGAT
*
101163 CAGATAACTCAAAGGACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGATT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGATT
101228 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATT
66 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATT
101293 TGTTCTATTTAATGATTGTTCTGTCCAACCAGAT
131 TGTTCTATTTAATGATTGTTCTGTCCAACCAGAT
* **
101327 CAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTCCCAATTCAATGAT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCTAAATTCAATGAT
* * **
101391 TGGTTCTG-CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTC
65 T-GTTCTGTC-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTC
* * *
101455 A--TCTTCTAAATTCAATGATTGGTTCTGTCTAACCAGAT
128 ATTTGTTCT--ATTTAATGATT-GTTCTGTCCAACCAGAT
* *
101493 CAAATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCTAAATTCAATGATT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGATT
101558 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATT
66 GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATT
101623 TGTTCTATTTAATG
131 TGTTCTATTTAATG
101637 TTTGGACTGG
Statistics
Matches: 438, Mismatches: 26, Indels: 20
0.90 0.05 0.04
Matches are distributed among these distances:
163 7 0.02
164 74 0.17
165 276 0.63
166 75 0.17
167 6 0.01
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (164 bp):
CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATGATT
GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATT
TGTTCTATTTAATGATTGTTCTGTCCAACCAGAT
Found at i:107122 original size:17 final size:16
Alignment explanation
Indices: 107100--107135 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
107090 ATACGAACGT
107100 AAAAATGCAAATATGAA
1 AAAAATGCAAATAT-AA
107117 AAAAATGCAAATATAA
1 AAAAATGCAAATATAA
107133 AAA
1 AAA
107136 TATGAATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (16 bp):
AAAAATGCAAATATAA
Found at i:108679 original size:19 final size:19
Alignment explanation
Indices: 108656--108699 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
108646 ATATTAATAA
108656 AAAAATATATAAATAT-TAT
1 AAAAATA-ATAAATATATAT
* *
108675 GAAAATAATAAGTATATAT
1 AAAAATAATAAATATATAT
108694 AAAAAT
1 AAAAAT
108700 TTTGAAAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAAATAATAAATATATAT
Found at i:109394 original size:14 final size:15
Alignment explanation
Indices: 109361--109406 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
109351 TTTTCTTCGA
*
109361 TATTGAAAAATAAA-
1 TATTTAAAAATAAAT
*
109375 TA-TT-AAAATAATT
1 TATTTAAAAATAAAT
109388 TATTTAAAAATAAAT
1 TATTTAAAAATAAAT
109403 TATT
1 TATT
109407 ATTATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
12 7 0.27
13 3 0.12
14 4 0.15
15 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
TATTTAAAAATAAAT
Found at i:110301 original size:15 final size:15
Alignment explanation
Indices: 110281--110315 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
110271 CCTCGGTAAG
*
110281 TCTTTCTCTTCTTTT
1 TCTTTCTCTTCTGTT
*
110296 TCTTTCTTTTCTGTT
1 TCTTTCTCTTCTGTT
110311 TCTTT
1 TCTTT
110316 GCTACTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.74
Consensus pattern (15 bp):
TCTTTCTCTTCTGTT
Found at i:110858 original size:3 final size:3
Alignment explanation
Indices: 110850--111006 Score: 269
Period size: 3 Copynumber: 52.3 Consensus size: 3
110840 TTAATATATT
*
110850 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
110898 TAA TAA TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
110946 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
110994 TAA TAA TGA TAA T
1 TAA TAA TAA TAA T
111007 GATATGGGTA
Statistics
Matches: 146, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 146 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:112696 original size:23 final size:22
Alignment explanation
Indices: 112668--112731 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
112658 ATAGAATTTT
112668 AATCTTTACTTTCTTTAAATTA
1 AATCTTTACTTTCTTTAAATTA
* * * *
112690 ATTTCTTT-GTTTTTTCTAGATTA
1 A-ATCTTTACTTTCTT-TAAATTA
112713 AATCTTTCACTTTCTTTAA
1 AATCTTT-ACTTTCTTTAA
112732 TAACTTCTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 7
0.67 0.18 0.16
Matches are distributed among these distances:
22 11 0.37
23 14 0.47
24 5 0.17
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (22 bp):
AATCTTTACTTTCTTTAAATTA
Found at i:114076 original size:18 final size:18
Alignment explanation
Indices: 114053--114094 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
114043 CTGGGGCCAT
114053 ATTCTTCTAAATTTCCAA
1 ATTCTTCTAAATTTCCAA
114071 ATTCTTCTAAATTTCCAA
1 ATTCTTCTAAATTTCCAA
114089 ATTCTT
1 ATTCTT
114095 TGTATCCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTCTTCTAAATTTCCAA
Found at i:116211 original size:25 final size:24
Alignment explanation
Indices: 116169--116242 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 24
116159 AATATTCCAA
116169 TTTTATATAATATGTTAATTTTTTAAT
1 TTTTATA-AATAT-TTAATTTTTT-AT
116196 TTTTATAGAAT-TTTAATATATTTTAT
1 TTTTATA-AATATTTAAT-T-TTTTAT
*
116222 TTTGATAAATATTTGAATTTT
1 TTTTATAAATATTT-AATTTT
116243 ATAGCAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
25 10 0.24
26 14 0.34
27 17 0.41
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (24 bp):
TTTTATAAATATTTAATTTTTTAT
Found at i:121666 original size:11 final size:11
Alignment explanation
Indices: 121650--121678 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
121640 TGATCTTATA
121650 TAAGCTTTCCT
1 TAAGCTTTCCT
121661 TAAGCTTTCCT
1 TAAGCTTTCCT
121672 TAAGCTT
1 TAAGCTT
121679 ATATAACACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.10, T:0.45
Consensus pattern (11 bp):
TAAGCTTTCCT
Found at i:124764 original size:9 final size:9
Alignment explanation
Indices: 124750--124775 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
124740 AATTTTAATA
124750 TAAAATATC
1 TAAAATATC
124759 TAAAATATC
1 TAAAATATC
124768 TAAAATAT
1 TAAAATAT
124776 ATAACACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAATATC
Found at i:124898 original size:6 final size:6
Alignment explanation
Indices: 124887--124915 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
124877 TATCATTTTT
124887 TCTTCC TCTTCC TCTTCC TCTTCC TCTTC
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTC
124916 ATCTCTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTTCC
Found at i:125825 original size:17 final size:16
Alignment explanation
Indices: 125784--125828 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
125774 TATAAAATTA
*
125784 TTCTTTTCTTT-AGTT
1 TTCTTTACTTTCAGTT
125799 TTCTTTTACTTTCAGGTT
1 TTC-TTTACTTTCA-GTT
125817 TTCTTTACTTTC
1 TTCTTTACTTTC
125829 TTTTAAAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 3 0.12
16 7 0.27
17 10 0.38
18 6 0.23
ACGTcount: A:0.09, C:0.18, G:0.07, T:0.67
Consensus pattern (16 bp):
TTCTTTACTTTCAGTT
Found at i:127525 original size:13 final size:13
Alignment explanation
Indices: 127507--127531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
127497 TTAATATATC
127507 TTTTAAAATTATA
1 TTTTAAAATTATA
127520 TTTTAAAATTAT
1 TTTTAAAATTAT
127532 GAAAAAAAAG
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTAAAATTATA
Found at i:133520 original size:23 final size:21
Alignment explanation
Indices: 133469--133529 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 21
133459 TTTGGTGCAG
*
133469 AGGGAATCGA-TCCCCCCTTA
1 AGGGAACCGATTCCCCCCTTA
*
133489 AGGGAACCGATTCCCCCTTTGA
1 AGGGAACCGATTCCCCCCTT-A
133511 AGGGGAACCGATTCCCCCC
1 A-GGGAACCGATTCCCCCC
133530 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.26
21 8 0.23
22 2 0.06
23 16 0.46
ACGTcount: A:0.23, C:0.36, G:0.23, T:0.18
Consensus pattern (21 bp):
AGGGAACCGATTCCCCCCTTA
Found at i:133555 original size:20 final size:21
Alignment explanation
Indices: 133470--133555 Score: 68
Period size: 21 Copynumber: 4.1 Consensus size: 21
133460 TTGGTGCAGA
* * *
133470 GGGAATCGA-TCCCCCCTTAA
1 GGGAACCGATTCCCCCCATAG
**
133490 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCAT--AG
*
133513 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCCATAG
* *
133534 GGGAATCGATACCCCCC-TAG
1 GGGAACCGATTCCCCCCATAG
133554 GG
1 GG
133556 TTCTGGTTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
20 12 0.22
21 25 0.46
23 17 0.31
ACGTcount: A:0.23, C:0.35, G:0.26, T:0.16
Consensus pattern (21 bp):
GGGAACCGATTCCCCCCATAG
Found at i:137272 original size:72 final size:73
Alignment explanation
Indices: 137148--137293 Score: 242
Period size: 72 Copynumber: 2.0 Consensus size: 73
137138 GTACCATTAT
*
137148 TGAACCAGACTGCAGTATACGAATATCCAATAATAAGATGAGTAAATGAGTAGTGTACATTCCTC
1 TGAACCAGACTGCAGCATACGAATATCCAATAATAAGATGAGTAAATGAGTAGTGTACATTCCTC
*
137213 ACTGAAGC
66 ACTAAAGC
*
137221 TGAACCAGACTGTAGCATACG-ATATCCAATAATAAGATGAGTAAA-GAAGTAGTGTACATTCCT
1 TGAACCAGACTGCAGCATACGAATATCCAATAATAAGATGAGTAAATG-AGTAGTGTACATTCCT
137284 CACTAAAGC
65 CACTAAAGC
137293 T
1 T
137294 TAAAGCTACC
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
71 1 0.01
72 49 0.71
73 19 0.28
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (73 bp):
TGAACCAGACTGCAGCATACGAATATCCAATAATAAGATGAGTAAATGAGTAGTGTACATTCCTC
ACTAAAGC
Found at i:138697 original size:14 final size:14
Alignment explanation
Indices: 138678--138766 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
138668 GGATATGACT
138678 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
138692 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
138709 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
*
138725 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
138742 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
138758 ATCGCAACG
1 ATCGCAACG
138767 CGAAATGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
14 23 0.38
16 12 0.20
17 12 0.20
19 14 0.23
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:138714 original size:33 final size:33
Alignment explanation
Indices: 138654--138821 Score: 228
Period size: 33 Copynumber: 4.9 Consensus size: 33
138644 ACGAGATAAT
*
138654 GAGAATCGCAACGCGGATATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
138688 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
138721 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
138754 GAGAATCGCAACGCGAAATGAAAATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA--CG--A
* **
138791 TGAAAATCGCAACGCGAAATGAAAATCGCAA
1 -GAGAATCGCAACGCGAAATGACTATCGCAA
138822 TGCGATTTTG
Statistics
Matches: 125, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
33 79 0.63
34 14 0.11
35 2 0.02
37 1 0.01
38 29 0.23
ACGTcount: A:0.42, C:0.23, G:0.24, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:138716 original size:19 final size:18
Alignment explanation
Indices: 138629--138826 Score: 141
Period size: 19 Copynumber: 11.1 Consensus size: 18
138619 TCTTTTGGTT
*
138629 GAAATGAAAATCGCAACGA
1 GAAATG-AAATCGCAACGC
138648 GATAATGAGAATCGCAACGC
1 GA-AATGA-AATCGCAACGC
* *
138668 GGATATGACTATCGCAA--C
1 -GAAATGA-AATCGCAACGC
*
138686 GAGA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
*
138702 GAAATGACTATCGCAA--C
1 GAAATGA-AATCGCAACGC
*
138719 GAGA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
*
138735 GAAATGACTATCGCAA--C
1 GAAATGA-AATCGCAACGC
*
138752 GAGA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
138768 GAAATGAAAATCGCAACGC
1 GAAATG-AAATCGCAACGC
138787 GAAATGAAAATCGCAACGC
1 GAAATG-AAATCGCAACGC
*
138806 GAAATGAAAATCGCAATGC
1 GAAATG-AAATCGCAACGC
138825 GA
1 GA
138827 TTTTGGTTTC
Statistics
Matches: 145, Mismatches: 16, Indels: 36
0.74 0.08 0.18
Matches are distributed among these distances:
14 21 0.14
16 15 0.10
17 14 0.10
18 1 0.01
19 67 0.46
20 25 0.17
21 2 0.01
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (18 bp):
GAAATGAAATCGCAACGC
Found at i:138761 original size:66 final size:69
Alignment explanation
Indices: 138629--138821 Score: 248
Period size: 66 Copynumber: 2.8 Consensus size: 69
138619 TCTTTTGGTT
* *
138629 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGCGGATATGACTATCGCAACGAGAGAAT
1 GAAATGAAAATCGCAAC-CG--AATGAGAATCGCAACGC-GAAATGACTATCGCAACGAGAGAAT
138694 CGCAACGC
62 CGCAACGC
**
138702 GAAATGACTATCGCAA-CG-A-GAGAATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGCA
1 GAAATGAAAATCGCAACCGAATGAGAATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGCA
138764 ACGC
66 ACGC
* **
138768 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAA
1 GAAATGAAAATCGCAAC-CG-AATGAGAATCGCAACGCGAAATGACTATCGCAA
138822 TGCGATTTTG
Statistics
Matches: 106, Mismatches: 9, Indels: 12
0.83 0.07 0.09
Matches are distributed among these distances:
66 46 0.43
67 14 0.13
68 3 0.03
70 1 0.01
71 28 0.26
73 14 0.13
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.12
Consensus pattern (69 bp):
GAAATGAAAATCGCAACCGAATGAGAATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGCA
ACGC
Found at i:138844 original size:19 final size:19
Alignment explanation
Indices: 138822--138869 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
138812 AAAATCGCAA
*
138822 TGCGATTTTGGTTT-CGCGT
1 TGCGATTTT-ATTTCCGCGT
*
138841 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTTCCGCGT
138861 TGCGATTTT
1 TGCGATTTT
138870 CATTCTCGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.46
Consensus pattern (19 bp):
TGCGATTTTATTTCCGCGT
Found at i:139419 original size:20 final size:20
Alignment explanation
Indices: 139394--139505 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
139384 GCTATGTAAA
139394 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* *
139414 TCGCATTGCGATTTATGTAT
1 TCGCATTGCGATGTAAGTAT
* ***
139434 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATGTAAGT-AT
* ** *
139455 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATGTAAGTAT
* * *
139475 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
139495 TCGCATTGCGA
1 TCGCATTGCGA
139506 ATTATGAAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
19 3 0.04
20 57 0.73
21 18 0.23
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:139457 original size:41 final size:40
Alignment explanation
Indices: 139386--139520 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 40
139376 CGAATGGCGC
* **
139386 TATGTAAATCGCATTGCGATAGTA-AGATTCGCATTGCGATT
1 TATGT-AATCGCATTGCGAT-TTACCTATTCGCATTGCGATT
* *
139427 TATGTATTCGCATTGCGATTTTCCTAATTCGCATTGCGATT
1 TATGTAATCGCATTGCGATTTACCT-ATTCGCATTGCGATT
* * *
139468 TACT-TAATCGCGTTGCGATTTACGTATTCGCATTGCGAAT
1 TA-TGTAATCGCATTGCGATTTACCTATTCGCATTGCGATT
*
139508 TATGAAAATCGCA
1 TATG-TAATCGCA
139521 ACGCGAATAC
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
39 2 0.03
40 29 0.38
41 45 0.58
42 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (40 bp):
TATGTAATCGCATTGCGATTTACCTATTCGCATTGCGATT
Found at i:139520 original size:61 final size:60
Alignment explanation
Indices: 139391--139628 Score: 180
Period size: 61 Copynumber: 3.9 Consensus size: 60
139381 GGCGCTATGT
* * * *
139391 AAATCGCATTGCGA--TAGTAAGATTCGCATTGCGATTTATGTATTCGCATTGCGATTTTCCT
1 AAATCGCATTGCGATTTACTAA-A-TCGCATTGCGATTTACGTATTCGCATTGCGATTAT-CA
* * * *
139452 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGTATTCGCATTGCGAATTATGA
1 AAATCGCATTGCGATTTACTAAATCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCA
** * * * * *
139513 AAATCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAAAATT-GCATTGCGA-TAGTCA
1 AAATCGCATTGCGATTTAC-TAAATCGCATTGCGATTTACG--TATTCGCATTGCGATTA-TCA
** * * *
139574 GTATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTTATTCGCATTGCGA
1 AAATCGCATTGCGATTTACTAAA-TCGCATTGCGATTTACGTATTCGCATTGCGA
139629 ATTGGGAAAA
Statistics
Matches: 136, Mismatches: 31, Indels: 20
0.73 0.17 0.11
Matches are distributed among these distances:
60 8 0.06
61 93 0.68
62 28 0.21
63 7 0.05
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (60 bp):
AAATCGCATTGCGATTTACTAAATCGCATTGCGATTTACGTATTCGCATTGCGATTATCA
Found at i:139526 original size:21 final size:21
Alignment explanation
Indices: 139502--139557 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
139492 TATTCGCATT
*
139502 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
139523 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
139543 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
139558 TGCATTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:139566 original size:21 final size:21
Alignment explanation
Indices: 139495--139567 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
139485 ATTTACGTAT
* *
139495 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
139516 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
139536 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
139557 TTGCATTGCGA
1 TCGCAATGCGA
139568 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:139621 original size:20 final size:21
Alignment explanation
Indices: 139577--139628 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
139567 ATAGTCAGTA
*
139577 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
139598 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
139618 TCGCATTGCGA
1 TCGCATTGCGA
139629 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:139643 original size:41 final size:40
Alignment explanation
Indices: 139412--139643 Score: 128
Period size: 41 Copynumber: 5.7 Consensus size: 40
139402 CGATAGTAAG
* * * * * *
139412 ATTCGCATTGCGATTTATG-TATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGAATTAGGAAAATCGCATTGCGA--TTACTT
* *** * *
139453 ATTCGCATTGCGATTTA-CTTAATCGCGTTGCGATTTACGT
1 ATTCGCATTGCGAATTAGGAAAATCGCATTGCGA-TTACTT
* ** * *
139493 ATTCGCATTGCGAATTATGAAAATCGCAACGCGAATACGTA
1 ATTCGCATTGCGAATTAGGAAAATCGCATTGCGATTAC-TT
* * * * *
139534 AATCGCAATGCGAATTAGGAAAATTGCATTGCGA-TAGTC
1 ATTCGCATTGCGAATTAGGAAAATCGCATTGCGATTACTT
* *** *
139573 AGTATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTT
1 A-T-TCGCATTGCGAATTAGGAAAATCGCATTGCGA-TTACTT
*
139616 ATTCGCATTGCGAATTGGGAAAATCGCA
1 ATTCGCATTGCGAATTAGGAAAATCGCA
139644 ACGCGAAATT
Statistics
Matches: 145, Mismatches: 39, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
39 2 0.01
40 25 0.17
41 113 0.78
42 1 0.01
43 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (40 bp):
ATTCGCATTGCGAATTAGGAAAATCGCATTGCGATTACTT
Found at i:139670 original size:21 final size:22
Alignment explanation
Indices: 139618--139670 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
139608 ATTTACTTAT
*
139618 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGAAAAA
**
139639 TCGCAACGCGAAATT-GAAAAA
1 TCGCATTGCGAAATTGGAAAAA
139660 TCGCATTGCGA
1 TCGCATTGCGA
139671 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGAAAAA
Found at i:140686 original size:16 final size:16
Alignment explanation
Indices: 140667--140701 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
140657 GTTTTTCTGT
140667 AATTGGTTTTTCAGAA
1 AATTGGTTTTTCAGAA
*
140683 AATTGGTTTTTTAGAA
1 AATTGGTTTTTCAGAA
140699 AAT
1 AAT
140702 ATTTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (16 bp):
AATTGGTTTTTCAGAA
Found at i:140920 original size:30 final size:26
Alignment explanation
Indices: 140858--140987 Score: 71
Period size: 30 Copynumber: 5.1 Consensus size: 26
140848 CTCAAAACAT
140858 TATTATTTTATATATTTAATATTAATA
1 TATTATTTTATATATTTAATA-TAATA
140885 TATTATTTTAGTATCATTTTAATA-AATA
1 TATTATTTTA-TAT-A-TTTAATATAATA
** *
140913 TTAATTATTAAATTATATTT-AT-TGATA
1 -T-ATTATTTTA-TATATTTAATATAATA
* *
140940 -A-T-TTTTATA-ATATACTATAATA
1 TATTATTTTATATATTTAATATAATA
* *
140962 TAATATTTT-TAT-TTTAATAAAATA
1 TATTATTTTATATATTTAATATAATA
140986 TA
1 TA
140988 AAAATATTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 27
0.67 0.10 0.23
Matches are distributed among these distances:
20 3 0.04
21 3 0.04
22 7 0.09
23 2 0.03
24 15 0.19
25 4 0.05
27 15 0.19
28 10 0.13
29 3 0.04
30 17 0.22
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
TATTATTTTATATATTTAATATAATA
Found at i:140976 original size:32 final size:27
Alignment explanation
Indices: 140940--141006 Score: 80
Period size: 27 Copynumber: 2.3 Consensus size: 27
140930 TTTATTGATA
140940 ATTTTTATAATATACTATAATATAATATTTTT
1 ATTTTTATAA-A-A-TATAA-A-AATATTTTT
*
140972 ATTTTAATAAAATATAAAAATATTTTT
1 ATTTTTATAAAATATAAAAATATTTTT
140999 ATTTTTAT
1 ATTTTTAT
141007 TTAAAGTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 16 0.48
28 1 0.03
29 5 0.15
30 1 0.03
31 1 0.03
32 9 0.27
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTTTATAAAATATAAAAATATTTTT
Found at i:150491 original size:15 final size:16
Alignment explanation
Indices: 150455--150497 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
150445 TTTTATTAAC
150455 ATATGAATGTG-TTCT
1 ATATGAATGTGCTTCT
* *
150470 ATGTGAAAGTGCTT-T
1 ATATGAATGTGCTTCT
150485 ATATGAATGTGCT
1 ATATGAATGTGCT
150498 ATGTGTGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (16 bp):
ATATGAATGTGCTTCT
Found at i:150505 original size:30 final size:30
Alignment explanation
Indices: 150455--150512 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
150445 TTTTATTAAC
* * *
150455 ATATGAATGTGTTCTATGTGAAAGTGCTTT
1 ATATGAATGTGCTATATGTGAAAATGCTTT
*
150485 ATATGAATGTGCTATGTGTGAAAATGCT
1 ATATGAATGTGCTATATGTGAAAATGCT
150513 ATGCGAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (30 bp):
ATATGAATGTGCTATATGTGAAAATGCTTT
Found at i:150674 original size:25 final size:24
Alignment explanation
Indices: 150637--150710 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
150627 AGAGTCGAGG
150637 GTTCTACGCGGTCATTCGGGACAAA
1 GTTCTACGCGGTC-TTCGGGACAAA
* * *
150662 TTTCTACGTGGTCCTTCGGGA-TAA
1 GTTCTACGCGGT-CTTCGGGACAAA
150686 GTTCTACGCGGTTCTTCGGGACAAA
1 GTTCTACGCGG-TCTTCGGGACAAA
150711 CCTATGTGGC
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
24 19 0.47
25 20 0.50
26 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (24 bp):
GTTCTACGCGGTCTTCGGGACAAA
Found at i:150702 original size:24 final size:25
Alignment explanation
Indices: 150637--150710 Score: 89
Period size: 24 Copynumber: 3.0 Consensus size: 25
150627 AGAGTCGAGG
150637 GTTCTACGCGG-TCATTCGGGACAAA
1 GTTCTACGCGGTTC-TTCGGGACAAA
* * * *
150662 TTTCTACGTGGTCCTTCGGGA-TAA
1 GTTCTACGCGGTTCTTCGGGACAAA
150686 GTTCTACGCGGTTCTTCGGGACAAA
1 GTTCTACGCGGTTCTTCGGGACAAA
150711 CCTATGTGGC
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 20 0.51
25 18 0.46
26 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (25 bp):
GTTCTACGCGGTTCTTCGGGACAAA
Found at i:151233 original size:17 final size:16
Alignment explanation
Indices: 151191--151243 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
151181 AAATACCTTT
**
151191 AAAGTTTTAAAATTTC
1 AAAGTTTTAAAAAGTC
151207 AATGAGTTTTAAAAGAGTC
1 AA--AGTTTTAAAA-AGTC
*
151226 AAAGTTTTGAAAAGTC
1 AAAGTTTTAAAAAGTC
151242 AA
1 AA
151244 TGTGACACCT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 8 0.26
17 9 0.29
18 10 0.32
19 4 0.13
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (16 bp):
AAAGTTTTAAAAAGTC
Found at i:151243 original size:16 final size:17
Alignment explanation
Indices: 151211--151243 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
151201 AATTTCAATG
151211 AGTTTTAAAAGAGTCAA
1 AGTTTTAAAAGAGTCAA
*
151228 AGTTTTGAAA-AGTCAA
1 AGTTTTAAAAGAGTCAA
151244 TGTGACACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (17 bp):
AGTTTTAAAAGAGTCAA
Found at i:151841 original size:43 final size:43
Alignment explanation
Indices: 151705--151957 Score: 176
Period size: 43 Copynumber: 5.8 Consensus size: 43
151695 ATTTTATGAA
* *
151705 ATTAAAAAAA-TAGGAACCTCAATTATAAAGGTAGAAAGT-GAG
1 ATTAAAAAAATTAGG-GCCTCAATTATAAAGGTAAAAAGTAGAG
** * * * * *
151747 ATTAAACCAATTAGAAGCCTCACTTATAAATGTATAAA-TTGAG
1 ATTAAAAAAATTAG-GGCCTCAATTATAAAGGTAAAAAGTAGAG
* *
151790 ATTGAAAAAACTTAGGGCCTCAATTATAAAGTTAAAAAGTAG-G
1 ATT-AAAAAAATTAGGGCCTCAATTATAAAGGTAAAAAGTAGAG
* * *
151833 ATTAAAAAAATTATGGTCCTTAATTATAAAGGTAAAAAATAG-G
1 ATTAAAAAAATTA-GGGCCTCAATTATAAAGGTAAAAAGTAGAG
* * * * * * *
151876 ATTAAAAAAATTAGAGACTTCAACTATCAAGATAAAAAAGT-TAC
1 ATTAAAAAAATTAG-GGCCTCAATTATAAAGGT-AAAAAGTAGAG
***
151920 ATTGAAAAAAAATTAGAAACTCAATTATAAAGGTAAAA
1 ATT--AAAAAAATTAGGGCCTCAATTATAAAGGTAAAA
151958 GATAAAATTT
Statistics
Matches: 164, Mismatches: 36, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
42 19 0.12
43 99 0.60
44 23 0.14
45 12 0.07
46 11 0.07
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (43 bp):
ATTAAAAAAATTAGGGCCTCAATTATAAAGGTAAAAAGTAGAG
Found at i:152664 original size:182 final size:182
Alignment explanation
Indices: 152357--153209 Score: 1265
Period size: 182 Copynumber: 4.7 Consensus size: 182
152347 TGTCGGTTTA
* * * *
152357 TGTCGATACTTTATAA-AACTGTATCGATTCACATCAATATAACATGTAAAAATATGACAAAACC
1 TGTCGATACTTTATAACAA-TGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACC
* * *
152421 GGTCTCGAAAAGACAAAACCGGTA-A-AGCGGTACCGGATATATTGAAAGTGTCGATACTTTAAT
65 GGTCTCTAAAGGACAAAACCGGTATAGAGC-G-ATCGGATATATTGAAAGTGTCGATACTTTAAT
152484 ATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
128 ATAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
152539 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* *
152604 GTCTCTAAAGGACAAAACCGGTATAGAACGATCGGATATATTTAAAGTGTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAACCGGTATAGAGCGATCGGATATATTGAAAGTGTCGATACTTTAATATA
152669 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
152721 TGTTGATACTTTATAACAATGCATCGAT-C-C-ACGATATAACAGGTAAAAATATGACAAAACCA
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * *
152783 GTCTCTAAAGGCCAAAACTGGTATAGAGCGATTGAATATATTGAAAGTGTCGATACTTTAATATA
66 GTCTCTAAAGGACAAAACCGGTATAGAGCGATCGGATATATTGAAAGTGTCGATACTTTAATATA
*
152848 AGTATCGACACTTTGTGAATTTAAAAGAAAAGCAGTTTTAGCGCCTATAAAG
131 AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* *
152900 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACATGTTAAAATATGACAAAACCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * * *
152965 GTCTCTAAAGGACAAAACTGTTATAGAGTGA-CTGAATATATTGAAAGTGTCGATACTTCAATAT
66 GTCTCTAAAGGACAAAACCGGTATAGAGCGATC-GGATATATTGAAAGTGTCGATACTTTAATAT
* * *
153029 AAGTATTGACACTTTGTGAATTTAAAAGAGAAACAGTTTTAGCGCCAATAAAG
130 AAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * * * *
153082 TGTTGATATTTTATAAAAATGTTTCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
* * * *
153147 GTCTCAAAATGACAAAACCGGTA-A-AACGCTACTGGATATATTGAAAGTGTCGATACTTTAATA
66 GTCTCTAAAGGACAAAACCGGTATAGAGCGAT-C-GGATATATTGAAAGTGTCGATACTTTAATA
153210 AGTATGCGTA
Statistics
Matches: 613, Mismatches: 49, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
179 167 0.27
180 4 0.01
181 3 0.00
182 433 0.71
183 4 0.01
184 2 0.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (182 bp):
TGTCGATACTTTATAACAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCG
GTCTCTAAAGGACAAAACCGGTATAGAGCGATCGGATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:153057 original size:361 final size:358
Alignment explanation
Indices: 152361--153209 Score: 1286
Period size: 361 Copynumber: 2.3 Consensus size: 358
152351 GGTTTATGTC
* *
152361 GATACTTTATAAAACTGTATCGATTCACATCAATATAACATGTAAAAATATGACAAAACCGGTCT
1 GATACTTTATAAAA-TGTATCGA-TC-CA-CGATATAACAGGTAAAAATATGACAAAACCGGTCT
* *
152426 CGAAAAGACAAAACCGGTAAAGCGGTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTA
62 CAAAAAGACAAAACCGGTAAAGC-G-ACTGGATATATTGAAAGTGTCGATACTTTAATATAAGTA
*
152491 TCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAAC
125 TCGACACTTTGTGAATTTAAAAGAAAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAAC
152556 AATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCTCTAAAGGACAAAA
190 AATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCTCTAAAGGACAAAA
* * *
152621 CCGGTATAGAACGATCGGATATATTTAAAGTGTCGATACTTTAATATAAGTATCGACACTTTGTG
255 CCGGTATAGAACGATCGAATATATTGAAAGTGTCGATACTTCAATATAAGTATCGACACTTTGTG
* *
152686 AATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTT
320 AATTTAAAAGAGAAACAGTTTTAGCGCCAATAAAGTGTT
* * *
152725 GATACTTTATAACAATGCATCGATCCACGATATAACAGGTAAAAATATGACAAAACCAGTCTCTA
1 GATACTTTATAA-AATGTATCGATCCACGATATAACAGGTAAAAATATGACAAAACCGGTCTCAA
* * * * *
152790 AAGGCCAAAACTGGTATAGAGCGATTGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCG
65 AAAGACAAAACCGGTA-A-AGCGACTGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCG
152855 ACACTTTGTGAATTTAAAAGAAAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAACAAT
128 ACACTTTGTGAATTTAAAAGAAAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAACAAT
* * *
152920 GTATCGATCCACAACGATATAACATGTTAAAATATGACAAAACCGGTCTCTAAAGGACAAAACTG
193 GTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCTCTAAAGGACAAAACCG
* ** *
152985 TTATAGAGTGA-CTGAATATATTGAAAGTGTCGATACTTCAATATAAGTATTGACACTTTGTGAA
258 GTATAGAACGATC-GAATATATTGAAAGTGTCGATACTTCAATATAAGTATCGACACTTTGTGAA
153049 TTTAAAAGAGAAACAGTTTTAGCGCCAATAAAGTGTT
322 TTTAAAAGAGAAACAGTTTTAGCGCCAATAAAGTGTT
* *
153086 GATATTTTATAAAAATGTTTCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCGGTCT
1 GATACTTTAT-AAAATGTATCGATCC---ACGATATAACAGGTAAAAATATGACAAAACCGGTCT
* *
153151 CAAAATGACAAAACCGGTAAAACGCTACTGGATATATTGAAAGTGTCGATACTTTAATA
62 CAAAAAGACAAAACCGGT-AAA-GCGACTGGATATATTGAAAGTGTCGATACTTTAATA
153210 AGTATGCGTA
Statistics
Matches: 440, Mismatches: 35, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
360 1 0.00
361 322 0.73
362 6 0.01
363 6 0.01
364 102 0.23
365 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (358 bp):
GATACTTTATAAAATGTATCGATCCACGATATAACAGGTAAAAATATGACAAAACCGGTCTCAAA
AAGACAAAACCGGTAAAGCGACTGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACA
CTTTGTGAATTTAAAAGAAAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTATAACAATGTA
TCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCTCTAAAGGACAAAACCGGTA
TAGAACGATCGAATATATTGAAAGTGTCGATACTTCAATATAAGTATCGACACTTTGTGAATTTA
AAAGAGAAACAGTTTTAGCGCCAATAAAGTGTT
Found at i:155154 original size:19 final size:22
Alignment explanation
Indices: 155106--155160 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
155096 CGTTTTTGTT
155106 TTTTATATAAAATGATAGTATAA
1 TTTTATATAAAAT-ATAGTATAA
155129 TTATTATATAAAAT-TA-TA-AA
1 TT-TTATATAAAATATAGTATAA
155149 TTTTATTATAAA
1 TTTTA-TATAAA
155161 TGCAGGTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 3 0.10
20 10 0.33
21 2 0.07
22 2 0.07
23 2 0.07
24 11 0.37
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TTTTATATAAAATATAGTATAA
Done.