Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 1 of 189
Found at i:35 original size:7 final size:7
Alignment explanation
Indices: 19--1369 Score: 1491
Period size: 7 Copynumber: 194.0 Consensus size: 7
9 GAATTACCCT
19 ACCC-AA
1 ACCCTAA
25 ACCCTAA
1 ACCCTAA
32 ACCCTAA
1 ACCCTAA
39 ACCCT-A
1 ACCCTAA
45 ACCCTAA
1 ACCCTAA
52 ACCCTAA
1 ACCCTAA
59 ACCCT-A
1 ACCCTAA
65 ACCCTAA
1 ACCCTAA
72 ACCCT-A
1 ACCCTAA
78 ACCCTAA
1 ACCCTAA
85 ACCCTAA
1 ACCCTAA
92 ACCCTAA
1 ACCCTAA
99 ACCCTAA
1 ACCCTAA
106 ACCCTCCTAA
1 A--C-CCTAA
116 ACCCTAA
1 ACCCTAA
123 ACCCTAA
1 ACCCTAA
130 ACCCT-A
1 ACCCTAA
136 A-CC-AA
1 ACCCTAA
141 ACCCCTAA
1 A-CCCTAA
149 A-CCTAA
1 ACCCTAA
155 ACCCTAA
1 ACCCTAA
162 ACCCTAA
1 ACCCTAA
169 ACCCTAA
1 ACCCTAA
176 ACCCTAA
1 ACCCTAA
183 ACCCTAA
1 ACCCTAA
190 ACACCTAA
1 AC-CCTAA
198 ACCCTAA
1 ACCCTAA
205 ACCCTAA
1 ACCCTAA
212 ACCCTAA
1 ACCCTAA
219 ACCCTAA
1 ACCCTAA
226 ACCCTGAA
1 ACCCT-AA
*
234 CACCCCAA
1 -ACCCTAA
242 ACCCTAA
1 ACCCTAA
249 ACCCT-A
1 ACCCTAA
255 A--CTAA
1 ACCCTAA
260 ACCCTAA
1 ACCCTAA
267 A-CCTAA
1 ACCCTAA
273 ACCCTAA
1 ACCCTAA
280 ACCCTAA
1 ACCCTAA
287 ACCCTAA
1 ACCCTAA
294 ACCCTAA
1 ACCCTAA
301 ACCCT-A
1 ACCCTAA
307 ACCCTAA
1 ACCCTAA
314 ACCCTAA
1 ACCCTAA
321 ACCCTAA
1 ACCCTAA
*
328 AACCT-A
1 ACCCTAA
334 ACCCTAA
1 ACCCTAA
341 ACACCTAA
1 AC-CCTAA
349 ACCCTAA
1 ACCCTAA
*
356 CCACCTAA
1 AC-CCTAA
364 ACCCTAA
1 ACCCTAA
371 ACCCT-A
1 ACCCTAA
377 ACCCTAA
1 ACCCTAA
*
384 ACCCTACC
1 ACCCTA-A
392 ACCCTAAAA
1 ACCCT--AA
401 ACCCTAA
1 ACCCTAA
408 ACCCTAA
1 ACCCTAA
415 ACCCTAA
1 ACCCTAA
422 ACCCTAA
1 ACCCTAA
429 A-CCTAA
1 ACCCTAA
435 ACCCTAA
1 ACCCTAA
442 ACCCTAA
1 ACCCTAA
449 ACCCTAAA
1 ACCCT-AA
457 ACCCTAA
1 ACCCTAA
464 ACCCTAA
1 ACCCTAA
471 ACCCTAA
1 ACCCTAA
478 ACCCTAA
1 ACCCTAA
485 ACCCTAA
1 ACCCTAA
492 ACCCTAAAA
1 ACCCT--AA
501 ACCCTAA
1 ACCCTAA
508 ACCCTAA
1 ACCCTAA
515 ACCCTAA
1 ACCCTAA
522 ACCCTAA
1 ACCCTAA
529 ACCCTAA
1 ACCCTAA
536 ACCCTAA
1 ACCCTAA
543 ACCCTAA
1 ACCCTAA
550 ACCCTAAA
1 ACCCT-AA
558 ACCCTAA
1 ACCCTAA
565 ACCCTTAA
1 ACCC-TAA
573 ACCCTAA
1 ACCCTAA
580 ACCCTAA
1 ACCCTAA
587 ACCCTAA
1 ACCCTAA
594 AGCCCTAA
1 A-CCCTAA
602 ACCCTAA
1 ACCCTAA
609 A-CCTAAA
1 ACCCT-AA
616 ACCCCTACTA
1 A-CCCTA--A
626 ACCCCTAA
1 A-CCCTAA
634 ACCCTAA
1 ACCCTAA
641 ACCCTCAA
1 ACCCT-AA
649 ACCCTAA
1 ACCCTAA
656 ACCCTAA
1 ACCCTAA
663 ACCCTAA
1 ACCCTAA
670 ACCCTAA
1 ACCCTAA
677 ACCCTACAA
1 ACCCT--AA
686 ACCCTAA
1 ACCCTAA
693 ACCCCTAA
1 A-CCCTAA
701 ACCCTAA
1 ACCCTAA
708 ACCCCTAA
1 A-CCCTAA
716 ACCCTAA
1 ACCCTAA
723 A-CCTAA
1 ACCCTAA
729 ACCCTAA
1 ACCCTAA
*
736 AACCTAA
1 ACCCTAA
743 A-CCT-A
1 ACCCTAA
*
748 CCCCTAA
1 ACCCTAA
755 ACCCT-A
1 ACCCTAA
761 ACCC-AA
1 ACCCTAA
767 ACCC-AA
1 ACCCTAA
*
773 ACCCCAA
1 ACCCTAA
*
780 ACCCCAA
1 ACCCTAA
*
787 ACCCCAA
1 ACCCTAA
*
794 ACCC-CA
1 ACCCTAA
*
800 ACCCCAA
1 ACCCTAA
*
807 ACCCCAA
1 ACCCTAA
* *
814 CCCCAAA
1 ACCCTAA
*
821 ACCCCAA
1 ACCCTAA
*
828 ACCCCAA
1 ACCCTAA
*
835 ACCCCAA
1 ACCCTAA
*
842 ACCCCAA
1 ACCCTAA
*
849 ACCC-CA
1 ACCCTAA
855 ACCC-AA
1 ACCCTAA
*
861 ACCC-CA
1 ACCCTAA
867 ACCC--A
1 ACCCTAA
*
872 ACCC-CA
1 ACCCTAA
878 ACCC-AA
1 ACCCTAA
*
884 ACCCCAAAA
1 A-CCC-TAA
*
893 ACCCCAA
1 ACCCTAA
*
900 ACCCCAA
1 ACCCTAA
*
907 ACCCCAA
1 ACCCTAA
*
914 ACCCCAA
1 ACCCTAA
*
921 ACCCCAA
1 ACCCTAA
*
928 ACCCCCAA
1 A-CCCTAA
*
936 ACCCCAA
1 ACCCTAA
943 ACCC-AA
1 ACCCTAA
*
949 ACCCCAA
1 ACCCTAA
*
956 ACCCCAA
1 ACCCTAA
*
963 ACCCCAA
1 ACCCTAA
970 CCCACCC-AA
1 ---ACCCTAA
*
979 ACCCCAA
1 ACCCTAA
*
986 ACCCCAA
1 ACCCTAA
993 ACCC-AA
1 ACCCTAA
999 ACCC-AA
1 ACCCTAA
1005 ACCC--A
1 ACCCTAA
*
1010 ACCCCAA
1 ACCCTAA
*
1017 ACCCCAA
1 ACCCTAA
*
1024 ACCCCAA
1 ACCCTAA
*
1031 CCCACCC-CA
1 ---ACCCTAA
*
1040 ACCCCAA
1 ACCCTAA
*
1047 ACCC-CA
1 ACCCTAA
*
1053 ACCCCAA
1 ACCCTAA
*
1060 ACCCCAA
1 ACCCTAA
1067 ACCC-AA
1 ACCCTAA
1073 ACCC-AA
1 ACCCTAA
*
1079 ACCCAAA
1 ACCCTAA
1086 ACCC-AA
1 ACCCTAA
1092 ACCCTAA
1 ACCCTAA
1099 ACCCTAA
1 ACCCTAA
1106 ACCCTAA
1 ACCCTAA
1113 ACCCTAA
1 ACCCTAA
1120 ACCCTAA
1 ACCCTAA
1127 A-CCTAA
1 ACCCTAA
1133 ACCCTAA
1 ACCCTAA
1140 ACCCTAA
1 ACCCTAA
1147 ACCCTAA
1 ACCCTAA
*
1154 ACCCTAG
1 ACCCTAA
1161 ACCCTAA
1 ACCCTAA
*
1168 ACCCTAG
1 ACCCTAA
*
1175 ACCCTAG
1 ACCCTAA
1182 ACCCTAA
1 ACCCTAA
1189 ACCCT-A
1 ACCCTAA
1195 ACCCTAA
1 ACCCTAA
1202 ACCCTAA
1 ACCCTAA
1209 ACCCTAA
1 ACCCTAA
1216 ACCCTAA
1 ACCCTAA
*
1223 A-CCAAA
1 ACCCTAA
1229 ACCCTAA
1 ACCCTAA
1236 ACCCTAA
1 ACCCTAA
1243 ACCCTAA
1 ACCCTAA
*
1250 ACCCTAG
1 ACCCTAA
1257 ACCCTAA
1 ACCCTAA
*
1264 A-CCTAG
1 ACCCTAA
1270 ACCCTAAA
1 ACCCT-AA
*
1278 ACCCTAG
1 ACCCTAA
1285 ACCCTAAA
1 ACCCT-AA
*
1293 ACCCTGA
1 ACCCTAA
* *
1300 ATCCTGA
1 ACCCTAA
1307 ACCCTAA
1 ACCCTAA
1314 ACCCTAAA
1 ACCCT-AA
1322 ACCCTAA
1 ACCCTAA
**
1329 ACCCTGG
1 ACCCTAA
*
1336 ACCCTGA
1 ACCCTAA
*
1343 ACCCTGA
1 ACCCTAA
*
1350 ACCCTGA
1 ACCCTAA
1357 ACCCT-A
1 ACCCTAA
1363 ACCCTAA
1 ACCCTAA
1370 CTTAATTAAT
Statistics
Matches: 1223, Mismatches: 45, Indels: 153
0.86 0.03 0.11
Matches are distributed among these distances:
4 2 0.00
5 17 0.01
6 196 0.16
7 838 0.69
8 114 0.09
9 33 0.03
10 23 0.02
ACGTcount: A:0.42, C:0.46, G:0.01, T:0.11
Consensus pattern (7 bp):
ACCCTAA
Found at i:1452 original size:29 final size:30
Alignment explanation
Indices: 1356--1880 Score: 676
Period size: 29 Copynumber: 18.4 Consensus size: 30
1346 CTGAACCCTG
1356 AACCCT-AACCCTAACTTAA-TTAATTA-A
1 AACCCTAAACCCTAACTTAATTTAATTATA
*
1383 AACCCTAAACCCTAACCTAATTTAA-T-TA
1 AACCCTAAACCCTAACTTAATTTAATTATA
1411 AACCCTAAACCCTAACTTAATTTAATTA-A
1 AACCCTAAACCCTAACTTAATTTAATTATA
*
1440 AACCCTAAACCCTAACCTAATTTAATTATA
1 AACCCTAAACCCTAACTTAATTTAATTATA
*
1470 AACCCT-AACCCTAACCTAA-TTAATTATA
1 AACCCTAAACCCTAACTTAATTTAATTATA
*
1498 AACCCCT-AACCCAATAACCTAA-TTAATTATA
1 AA-CCCTAAACCC--TAACTTAATTTAATTATA
*
1529 AACCCTAAA-CCTAACTTAATTTAATTAAA
1 AACCCTAAACCCTAACTTAATTTAATTATA
1558 AACCCTAAACCCTAACTTAATTTAATTATA
1 AACCCTAAACCCTAACTTAATTTAATTATA
*
1588 AACCCT-AACACTAACTTAATTTAATTATA
1 AACCCTAAACCCTAACTTAATTTAATTATA
*
1617 AACCCTAAACCCTAACTTAATTTAATTACA
1 AACCCTAAACCCTAACTTAATTTAATTATA
* * **
1647 AACCCTAAACCTTAACCTAACCTAATTATA
1 AACCCTAAACCCTAACTTAATTTAATTATA
1677 AACCCT-AACCCTAACTTAATTTAA-T-T-
1 AACCCTAAACCCTAACTTAATTTAATTATA
1703 -A---TAAACCCTAACTTAATTTAATTATA
1 AACCCTAAACCCTAACTTAATTTAATTATA
*
1729 AACCCTAAACCCTAACCTAA-TTAATTA-A
1 AACCCTAAACCCTAACTTAATTTAATTATA
*
1757 AACCCTAAACCC-AACCTAATTTAATTATA
1 AACCCTAAACCCTAACTTAATTTAATTATA
*
1786 AA-CCTTAACCCTAACTTAA-TTAATTA-A
1 AACCCTAAACCCTAACTTAATTTAATTATA
* *
1813 AACCCT-AACCCT-ACCTAATTTAATCATA
1 AACCCTAAACCCTAACTTAATTTAATTATA
1841 AACCCT-AACCCTAACTTAATTTAATTATA
1 AACCCTAAACCCTAACTTAATTTAATTATA
1870 AACCCTAAACC
1 AACCCTAAACC
1881 ATTAACCCTA
Statistics
Matches: 444, Mismatches: 25, Indels: 55
0.85 0.05 0.10
Matches are distributed among these distances:
22 1 0.00
23 18 0.04
24 1 0.00
25 2 0.00
26 5 0.01
27 30 0.07
28 108 0.24
29 150 0.34
30 108 0.24
31 21 0.05
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (30 bp):
AACCCTAAACCCTAACTTAATTTAATTATA
Found at i:1524 original size:59 final size:59
Alignment explanation
Indices: 1356--1877 Score: 676
Period size: 59 Copynumber: 9.1 Consensus size: 59
1346 CTGAACCCTG
* *
1356 AACCCTAACCCTAACTTAA-TTAATTA-AAACCCTAAACCCTAACCTAATTTAA-T-TA
1 AACCCTAACCCTAACCTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTATA
* *
1411 AACCCTAAACCCTAACTTAATTTAATTA-AAACCCTAAACCCTAACCTAATTTAATTATA
1 AACCCT-AACCCTAACCTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTATA
*
1470 AACCCTAACCCTAACCTAA-TTAATTATAAACCCCT-AACCCAATAACCTAA-TTAATTATA
1 AACCCTAACCCTAACCTAATTTAATTATAAA-CCCTAAACCC--TAACTTAATTTAATTATA
* * *
1529 AACCCTAAACCTAACTTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTATA
1 AACCCTAACCCTAACCTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTATA
* * *
1588 AACCCTAACACTAACTTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTACA
1 AACCCTAACCCTAACCTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTATA
* **
1647 AACCCTAAACCTTAACCTAACCTAATTATAAACCCT-AACCCTAACTTAATTTAATTATA
1 AACCCT-AACCCTAACCTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTATA
*
1706 AACCCTAA--CT----TAATTTAATTATAAACCCTAAACCCTAACCTAA-TTAATTA-A
1 AACCCTAACCCTAACCTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTATA
*
1757 AACCCTAAACCC-AACCTAATTTAATTATAAA-CCTTAACCCTAACTTAA-TTAATTA-A
1 AACCCT-AACCCTAACCTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTATA
*
1813 AACCCTAACCCT-ACCTAATTTAATCATAAACCCT-AACCCTAACTTAATTTAATTATA
1 AACCCTAACCCTAACCTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTATA
1870 AACCCTAA
1 AACCCTAA
1878 ACCATTAACC
Statistics
Matches: 421, Mismatches: 22, Indels: 46
0.86 0.04 0.09
Matches are distributed among these distances:
51 7 0.02
52 26 0.06
53 12 0.03
54 1 0.00
55 41 0.10
56 53 0.13
57 64 0.15
58 30 0.07
59 140 0.33
60 47 0.11
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (59 bp):
AACCCTAACCCTAACCTAATTTAATTATAAACCCTAAACCCTAACTTAATTTAATTATA
Found at i:1880 original size:7 final size:7
Alignment explanation
Indices: 1868--1911 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
1858 AATTTAATTA
1868 TAAACCC
1 TAAACCC
*
1875 TAAACCA
1 TAAACCC
*
1882 TTAACCC
1 TAAACCC
1889 TAAACCC
1 TAAACCC
1896 TAAACCC
1 TAAACCC
1903 T-AACCC
1 TAAACCC
1909 TAA
1 TAA
1912 CATACAACAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (7 bp):
TAAACCC
Found at i:1892 original size:21 final size:20
Alignment explanation
Indices: 1868--1911 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
1858 AATTTAATTA
*
1868 TAAACCCTAAACCATTAACCC
1 TAAACCCTAAACC-CTAACCC
1889 TAAACCCTAAACCCTAACCC
1 TAAACCCTAAACCCTAACCC
1909 TAA
1 TAA
1912 CATACAACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAACCCTAAACCCTAACCC
Found at i:2827 original size:127 final size:126
Alignment explanation
Indices: 2603--2985 Score: 576
Period size: 127 Copynumber: 3.1 Consensus size: 126
2593 CCACGAGGGC
* * * *
2603 GCGATTTGACACTATTTGCTCAG-AAATGTAAAAAAAAATTATTTCCAACATGACCAACTGTAGC
1 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGC
2667 GAAGTCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCTAATATAGCATCCTTGTATCA
66 GAAGTCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCTAATATAGCATCCTTGTATCA
2728 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATTATTTCCAACATGACCAACTGTAG
1 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAA-AATTATTTCCAACATGACCAACTGTAG
* *
2793 CGAAATCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
65 CGAAGTCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCTAATATAGCATCCTTGTATCA
* **
2855 GCGATTTTATACTATTTGCTCAGAAAACATCAAAAAAAATTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGC
* * * * * **
2919 GAAGTCGCGTCCACGAGGCCACGATTTCACAATTTCT-TCTCAA-ATAGCATCCTAGTAGAA
66 GAAGTCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCT-AATATAGCATCCTTGTATCA
2979 GCGATTT
1 GCGATTT
2986 CCCACTATTT
Statistics
Matches: 237, Mismatches: 18, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
124 22 0.09
125 64 0.27
126 28 0.12
127 123 0.52
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (126 bp):
GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAATTATTTCCAACATGACCAACTGTAGC
GAAGTCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCTAATATAGCATCCTTGTATCA
Found at i:3750 original size:16 final size:16
Alignment explanation
Indices: 3700--3756 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
3690 CCTAAGCCGA
3700 GATATCCCCTAGAATGG
1 GATAT-CCCTAGAATGG
* *
3717 GATATCCCAAG-CTGG
1 GATATCCCTAGAATGG
*
3732 GATATTCCTAGAATGG
1 GATATCCCTAGAATGG
3748 GATATCCCT
1 GATATCCCT
3757 GATTGGAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 12 0.36
16 16 0.48
17 5 0.15
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (16 bp):
GATATCCCTAGAATGG
Found at i:21683 original size:10 final size:10
Alignment explanation
Indices: 21668--21712 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
21658 TCTTAATTTT
21668 AAAATTATAA
1 AAAATTATAA
21678 AAAATT-TAA
1 AAAATTATAA
*
21687 AAAATTTTAAA
1 AAAATTAT-AA
21698 AAAATTATAA
1 AAAATTATAA
*
21708 TAAAT
1 AAAAT
21713 CAAAATACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 9 0.29
10 13 0.42
11 9 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTATAA
Found at i:23569 original size:13 final size:13
Alignment explanation
Indices: 23531--23569 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
23521 AAGCGTGGGA
23531 TGAGGTTTCAATT
1 TGAGGTTTCAATT
**
23544 TG-GGTTTTTATT
1 TGAGGTTTCAATT
23556 TGAGGTTTCAATT
1 TGAGGTTTCAATT
23569 T
1 T
23570 CGATTTTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.18, C:0.05, G:0.23, T:0.54
Consensus pattern (13 bp):
TGAGGTTTCAATT
Found at i:24829 original size:23 final size:23
Alignment explanation
Indices: 24799--24843 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
24789 GGGCCGGGCC
24799 GGGCCGGGCCCAAAAAAAATTTT
1 GGGCCGGGCCCAAAAAAAATTTT
24822 GGGCCGGGCCCAAAAAAAATTT
1 GGGCCGGGCCCAAAAAAAATTT
24844 CGGCCCGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.16
Consensus pattern (23 bp):
GGGCCGGGCCCAAAAAAAATTTT
Found at i:24839 original size:22 final size:22
Alignment explanation
Indices: 24799--24855 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 22
24789 GGGCCGGGCC
24799 GGGCCGGGCCCAAAAAAAATTTT
1 GGGCCGGGCCCAAAAAAAA-TTT
24822 GGGCCGGGCCCAAAAAAAATTT
1 GGGCCGGGCCCAAAAAAAATTT
* *
24844 CGGCCCGGCCCA
1 GGGCCGGGCCCA
24856 TAATATGGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.30, C:0.30, G:0.28, T:0.12
Consensus pattern (22 bp):
GGGCCGGGCCCAAAAAAAATTT
Found at i:24992 original size:11 final size:11
Alignment explanation
Indices: 24972--25090 Score: 71
Period size: 11 Copynumber: 11.4 Consensus size: 11
24962 TAAAAATTAA
24972 AAAAATTATTTT
1 AAAAA-TATTTT
24984 AAAAATATTTT
1 AAAAATATTTT
24995 --AAA-A--TT
1 AAAAATATTTT
**
25001 AAAAA-AAATT
1 AAAAATATTTT
25011 AAAAATGTATTTT
1 AAAAA--TATTTT
25024 AAAAATATTTT
1 AAAAATATTTT
*
25035 AAAAGTATTTT
1 AAAAATATTTT
25046 --AAA-A--TT
1 AAAAATATTTT
*
25052 AAAAAAATTTT
1 AAAAATATTTT
25063 AAAAAAGTATTTT
1 -AAAAA-TATTTT
*
25076 AAAAGTATTTT
1 AAAAATATTTT
25087 AAAA
1 AAAA
25091 TTAAAAAATA
Statistics
Matches: 87, Mismatches: 6, Indels: 29
0.71 0.05 0.24
Matches are distributed among these distances:
6 4 0.05
8 9 0.10
9 6 0.07
10 7 0.08
11 34 0.39
12 14 0.16
13 13 0.15
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:25036 original size:51 final size:52
Alignment explanation
Indices: 24972--25090 Score: 186
Period size: 52 Copynumber: 2.3 Consensus size: 52
24962 TAAAAATTAA
*
24972 AAAAATTATTTTAAAAATATTTTAAAATTAAAAAAA-ATTAAAAATGTATTTT
1 AAAAA-TATTTTAAAAATATTTTAAAATTAAAAAAATATTAAAAAAGTATTTT
* *
25024 AAAAATATTTTAAAAGTATTTTAAAATTAAAAAAATTTTAAAAAAGTATTTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATATTAAAAAAGTATTTT
*
25076 AAAAGTATTTTAAAA
1 AAAAATATTTTAAAA
25091 TTAAAAAATA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
51 29 0.47
52 33 0.53
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (52 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATATTAAAAAAGTATTTT
Found at i:25098 original size:41 final size:41
Alignment explanation
Indices: 24957--25098 Score: 180
Period size: 41 Copynumber: 3.4 Consensus size: 41
24947 ACCAAAATTT
*
24957 TATTTTAAAAATTAAAAAAATTATTTTAAAAATATTTTAAAAT
1 TATTTT-AAAATTAAAAAAA-TATTTTAAAAATATTTTAAAAG
*** **
25000 TA-AAAAAAATTAAAAATGTATTTTAAAAATATTTTAAAAG
1 TATTTTAAAATTAAAAAAATATTTTAAAAATATTTTAAAAG
*
25040 TATTTTAAAATTAAAAAAAT-TTTAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAATATTTTAAAAA-TATTTTAAAAG
25081 TATTTTAAAATTAAAAAA
1 TATTTTAAAATTAAAAAA
25099 TAAAAATATT
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
40 31 0.36
41 52 0.61
43 2 0.02
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (41 bp):
TATTTTAAAATTAAAAAAATATTTTAAAAATATTTTAAAAG
Found at i:31456 original size:221 final size:221
Alignment explanation
Indices: 31073--31514 Score: 884
Period size: 221 Copynumber: 2.0 Consensus size: 221
31063 AAAAAGCCTT
31073 CAAATTTTAAAAATGGAGAGATGCCATGAAGGAAGACTTTCTAATGATTGAAAAGAATCAAACTT
1 CAAATTTTAAAAATGGAGAGATGCCATGAAGGAAGACTTTCTAATGATTGAAAAGAATCAAACTT
31138 GGATGCTTATCAATAAACCTAGCAACAAGAACATTGTTGGAGTCAAATGGATTTATAGAACCAAT
66 GGATGCTTATCAATAAACCTAGCAACAAGAACATTGTTGGAGTCAAATGGATTTATAGAACCAAT
31203 TTGAATCTGGATGGTTCTATCAACAAACTCAACACCAAATTACACTCAACAGTATCATATTTTTT
131 TTGAATCTGGATGGTTCTATCAACAAACTCAACACCAAATTACACTCAACAGTATCATATTTTTT
31268 AGAAACATATGCTCTAGTCCCGAGGC
196 AGAAACATATGCTCTAGTCCCGAGGC
31294 CAAATTTTAAAAATGGAGAGATGCCATGAAGGAAGACTTTCTAATGATTGAAAAGAATCAAACTT
1 CAAATTTTAAAAATGGAGAGATGCCATGAAGGAAGACTTTCTAATGATTGAAAAGAATCAAACTT
31359 GGATGCTTATCAATAAACCTAGCAACAAGAACATTGTTGGAGTCAAATGGATTTATAGAACCAAT
66 GGATGCTTATCAATAAACCTAGCAACAAGAACATTGTTGGAGTCAAATGGATTTATAGAACCAAT
31424 TTGAATCTGGATGGTTCTATCAACAAACTCAACACCAAATTACACTCAACAGTATCATATTTTTT
131 TTGAATCTGGATGGTTCTATCAACAAACTCAACACCAAATTACACTCAACAGTATCATATTTTTT
31489 AGAAACATATGCTCTAGTCCCGAGGC
196 AGAAACATATGCTCTAGTCCCGAGGC
31515 TGGACACAAT
Statistics
Matches: 221, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
221 221 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (221 bp):
CAAATTTTAAAAATGGAGAGATGCCATGAAGGAAGACTTTCTAATGATTGAAAAGAATCAAACTT
GGATGCTTATCAATAAACCTAGCAACAAGAACATTGTTGGAGTCAAATGGATTTATAGAACCAAT
TTGAATCTGGATGGTTCTATCAACAAACTCAACACCAAATTACACTCAACAGTATCATATTTTTT
AGAAACATATGCTCTAGTCCCGAGGC
Found at i:37673 original size:22 final size:22
Alignment explanation
Indices: 37617--37694 Score: 56
Period size: 22 Copynumber: 3.5 Consensus size: 22
37607 CCCAAACAAA
*
37617 AAAATTTAGAAATAATGAA-TTC
1 AAAATTT-GAAATAATAAATTTC
*
37639 ATAAATCAT-AAATAATAAATTTC
1 A-AAAT-TTGAAATAATAAATTTC
*
37662 AAAATTTGAAAT-TTGAAATTT-
1 AAAATTTGAAATAAT-AAATTTC
*
37683 GAAATTTGAAAT
1 AAAATTTGAAAT
37695 TTGAAATCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
21 13 0.28
22 24 0.52
23 8 0.17
24 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.36
Consensus pattern (22 bp):
AAAATTTGAAATAATAAATTTC
Found at i:37714 original size:7 final size:7
Alignment explanation
Indices: 37663--37701 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
37653 ATAAATTTCA
37663 AAATTTG
1 AAATTTG
37670 AAATTTG
1 AAATTTG
37677 AAATTTG
1 AAATTTG
37684 AAATTTG
1 AAATTTG
37691 AAATTTG
1 AAATTTG
37698 AAAT
1 AAAT
37702 CCAAATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (7 bp):
AAATTTG
Found at i:48316 original size:47 final size:46
Alignment explanation
Indices: 48246--48343 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 46
48236 TTAATACAAC
* * *
48246 TACATACAATATTTTTACCTGATTC-ACACCACCTAATCAATCTTTGT
1 TACATACAATATCTCTACCTGATTCGAC-CCACCTAATCAAGCTTT-T
* *
48293 TACATACAATATCTCTACTTGATTCGACCCTCCTAATCAAGCTTTT
1 TACATACAATATCTCTACCTGATTCGACCCACCTAATCAAGCTTTT
48339 TACAT
1 TACAT
48344 TACGTCTATG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
46 6 0.13
47 37 0.82
48 2 0.04
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.38
Consensus pattern (46 bp):
TACATACAATATCTCTACCTGATTCGACCCACCTAATCAAGCTTTT
Found at i:49884 original size:16 final size:16
Alignment explanation
Indices: 49843--49876 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
49833 TTTGTCAACT
49843 CACAAAGTCAGATCAA
1 CACAAAGTCAGATCAA
49859 CACAAAGTCAGATCAA
1 CACAAAGTCAGATCAA
49875 CA
1 CA
49877 TTAAGTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.26, G:0.12, T:0.12
Consensus pattern (16 bp):
CACAAAGTCAGATCAA
Found at i:60771 original size:20 final size:19
Alignment explanation
Indices: 60700--60773 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
60690 AGCTAATAAC
*
60700 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGACTT
* * *
60719 GAGCTTGAATCAGCTAACTT
1 GAGC-TCAATGAGCTGACTT
60739 GAGCTCAAATGAGCTGACTT
1 GAGCTC-AATGAGCTGACTT
60759 GAGCTCAAGTGAGCT
1 GAGCTCAA-TGAGCT
60774 AAACCAAGGA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.16
20 38 0.84
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (19 bp):
GAGCTCAATGAGCTGACTT
Found at i:62483 original size:18 final size:18
Alignment explanation
Indices: 62462--62496 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
62452 TTTGTTTTTT
62462 AATTT-TTTTCTCAATTTC
1 AATTTCTTTT-TCAATTTC
62480 AATTTCTTTTTCAATTT
1 AATTTCTTTTTCAATTT
62497 TTTTTTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (18 bp):
AATTTCTTTTTCAATTTC
Found at i:62503 original size:18 final size:18
Alignment explanation
Indices: 62482--62584 Score: 70
Period size: 18 Copynumber: 5.6 Consensus size: 18
62472 TCAATTTCAA
62482 TTTCTTTTTCAATTTTTT
1 TTTCTTTTTCAATTTTTT
62500 TTTCTTCGTTTTC-ATTTTTT
1 TTTC-T--TTTTCAATTTTTT
** *
62520 CTCACTTTTTCGA-TTTTT
1 -TTTCTTTTTCAATTTTTT
*
62538 TTTCTTTTGT-AATTTCTT
1 TTTCTTTT-TCAATTTTTT
*
62556 TTTCTTTTTC-GTTTTCTT
1 TTTCTTTTTCAATTTT-TT
*
62574 TTTCTTCTTCA
1 TTTCTTTTTCA
62585 CTTTCTTTTC
Statistics
Matches: 66, Mismatches: 9, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
17 11 0.17
18 38 0.58
19 2 0.03
20 8 0.12
21 7 0.11
ACGTcount: A:0.08, C:0.17, G:0.04, T:0.72
Consensus pattern (18 bp):
TTTCTTTTTCAATTTTTT
Found at i:62559 original size:6 final size:6
Alignment explanation
Indices: 62550--62593 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
62540 TCTTTTGTAA
* * **
62550 TTTCTT TTTCTT TTTCGT TTTCTT TTTCTT CTTCAC TTTCTT TT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
62594 CCGATTTCAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTCTT
Found at i:62589 original size:18 final size:18
Alignment explanation
Indices: 62550--62593 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
62540 TCTTTTGTAA
* **
62550 TTTCTTTTTCTTTTTCGT
1 TTTCTTTTTCTTCTTCAC
62568 TTTCTTTTTCTTCTTCAC
1 TTTCTTTTTCTTCTTCAC
62586 TTTCTTTT
1 TTTCTTTT
62594 CCGATTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTCTTTTTCTTCTTCAC
Found at i:63459 original size:11 final size:10
Alignment explanation
Indices: 63435--63491 Score: 69
Period size: 10 Copynumber: 5.6 Consensus size: 10
63425 TTTACTCACT
*
63435 TTTTTTTTAC
1 TTTTTTTTAA
*
63445 TTTTTTTGAA
1 TTTTTTTTAA
63455 TTTTTTTTAA
1 TTTTTTTTAA
*
63465 ATTTTTTTAA
1 TTTTTTTTAA
*
63475 TATTTTTTGAA
1 T-TTTTTTTAA
63486 TTTTTT
1 TTTTTT
63492 ATAGACTACA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
10 31 0.77
11 9 0.22
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:65034 original size:10 final size:11
Alignment explanation
Indices: 65015--65054 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
65005 TCAATGAACT
65015 GAATTGAGCTC
1 GAATTGAGCTC
65026 GAA-TGAGCT-
1 GAATTGAGCTC
65035 GAATTGAGCTC
1 GAATTGAGCTC
*
65046 -AAGTGAGCT
1 GAATTGAGCT
65055 GAACCAAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
9 3 0.12
10 20 0.77
11 3 0.12
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (11 bp):
GAATTGAGCTC
Found at i:65036 original size:20 final size:19
Alignment explanation
Indices: 65001--65057 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 19
64991 AGCTAATAAC
*
65001 GAGCTCAATGAACTGAATT
1 GAGCTCAATGAGCTGAATT
65020 GAGCTCGAATGAGCTGAATT
1 GAGCTC-AATGAGCTGAATT
65040 GAGCTCAAGTGAGCTGAA
1 GAGCTCAA-TGAGCTGAA
65058 CCAAGGACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 8 0.23
20 27 0.77
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:66167 original size:10 final size:10
Alignment explanation
Indices: 66138--66176 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
66128 ACATCCGTTT
66138 ATTTAGTTTTA
1 ATTTA-TTTTA
66149 ATTTCATTTTA
1 ATTT-ATTTTA
66160 ATTTATTTTA
1 ATTTATTTTA
*
66170 TTTTATT
1 ATTTATT
66177 GCAATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 12 0.46
11 13 0.50
12 1 0.04
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (10 bp):
ATTTATTTTA
Found at i:66173 original size:26 final size:26
Alignment explanation
Indices: 66135--66211 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
66125 ATCACATCCG
66135 TTTA-TTTAGTTTTAATTTC-ATTTTAA
1 TTTATTTTA-TTTT-ATTTCAATTTTAA
* *
66161 TTTATTTTATTTTATTGCAATTTTTA
1 TTTATTTTATTTTATTTCAATTTTAA
*
66187 TTT-TTTTATTTT-TTTCTATTTTAA
1 TTTATTTTATTTTATTTCAATTTTAA
66211 T
1 T
66212 CAGATTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
24 10 0.23
25 13 0.30
26 17 0.39
27 4 0.09
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTATTTTATTTTATTTCAATTTTAA
Found at i:71683 original size:41 final size:41
Alignment explanation
Indices: 71591--71670 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
71581 GCTAATTGGG
*
71591 AAAATGATTCCCTTATTCTAATAAACTACTAAAAGATAAGA
1 AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGA
71632 AAAATAATTCCCTTTATTCT-ATAAACTACTAAAAGATAA
1 AAAATAATTCCC-TTATTCTAATAAACTACTAAAAGATAA
71671 AATAAACTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
41 30 0.81
42 7 0.19
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (41 bp):
AAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAGA
Found at i:71736 original size:19 final size:19
Alignment explanation
Indices: 71712--71748 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
71702 TTATTCTAAT
71712 ATTTATCTACCTAAATAAG
1 ATTTATCTACCTAAATAAG
71731 ATTTATCTACCTAAATAA
1 ATTTATCTACCTAAATAA
71749 CTTTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (19 bp):
ATTTATCTACCTAAATAAG
Found at i:76349 original size:43 final size:43
Alignment explanation
Indices: 76251--76449 Score: 195
Period size: 43 Copynumber: 4.7 Consensus size: 43
76241 CAATGTCATA
*** * * *
76251 TCCTAGATATGGTCTTACATGTAATCTCTTATCAATGCCAAAAG
1 TCCTAGATATGGTCTTACACAAAATCTCATATCGATGCC-AATG
* ** * *
76295 -CCCAGCCATGGTCTTACACAAAATCACATATCGATACCAATG
1 TCCTAGATATGGTCTTACACAAAATCTCATATCGATGCCAATG
* * *
76337 TCCTAGATATGGTCTTACACGAATTCTCATATCGATGCCATTG
1 TCCTAGATATGGTCTTACACAAAATCTCATATCGATGCCAATG
* * * *
76380 TCCTAGACATGGTCTTACACGAATTCTCATATCGATGCC-ATA
1 TCCTAGATATGGTCTTACACAAAATCTCATATCGATGCCAATG
* *
76422 TCCCAGATATGGTCTTACACATAATCTC
1 TCCTAGATATGGTCTTACACAAAATCTC
76450 GGTAACCCTA
Statistics
Matches: 127, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 27 0.21
43 100 0.79
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.31
Consensus pattern (43 bp):
TCCTAGATATGGTCTTACACAAAATCTCATATCGATGCCAATG
Found at i:76396 original size:86 final size:85
Alignment explanation
Indices: 76247--76449 Score: 239
Period size: 86 Copynumber: 2.4 Consensus size: 85
76237 GTTACAATGT
* * *
76247 CATATCCTAGATATGGTCTTACATGTAATCTCTTATCAATGCCAAAAGCCCAGCCATGGTCTTAC
1 CATATCCTAGATATGGTCTTACACGTAATCTCATATCAATGCCAAAAGCCCAGACATGGTCTTAC
76312 ACAAAATCACATATCGATAC
66 ACAAAATCACATATCGATAC
* * ** *
76332 CAATGTCCTAGATATGGTCTTACACG-AATTCTCATATCGATGCC-ATTGTCCTAGACATGGTCT
1 C-ATATCCTAGATATGGTCTTACACGTAA-TCTCATATCAATGCCAAAAG-CCCAGACATGGTCT
* * * *
76395 TACACGAATTCTCATATCGATGC
63 TACACAAAATCACATATCGATAC
* *
76418 CATATCCCAGATATGGTCTTACACATAATCTC
1 CATATCCTAGATATGGTCTTACACGTAATCTC
76450 GGTAACCCTA
Statistics
Matches: 99, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
85 30 0.30
86 69 0.70
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (85 bp):
CATATCCTAGATATGGTCTTACACGTAATCTCATATCAATGCCAAAAGCCCAGACATGGTCTTAC
ACAAAATCACATATCGATAC
Found at i:81944 original size:29 final size:30
Alignment explanation
Indices: 81885--81942 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
81875 TCCGAGCCTT
*
81885 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
81915 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
81943 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:82172 original size:13 final size:13
Alignment explanation
Indices: 82154--82185 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
82144 TTTCCAGCAA
82154 TTATGAATTTATT
1 TTATGAATTTATT
82167 TTATGAATTTATT
1 TTATGAATTTATT
*
82180 TGATGA
1 TTATGA
82186 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:82393 original size:50 final size:50
Alignment explanation
Indices: 82280--82521 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
82270 ATTTGGGTAA
* * *
82280 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
82336 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
82386 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
82436 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
82486 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
82522 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:82469 original size:100 final size:103
Alignment explanation
Indices: 82280--82529 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
82270 ATTTGGGTAA
82280 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
82345 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
82386 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
82448 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
82486 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
82530 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:85837 original size:26 final size:26
Alignment explanation
Indices: 85811--85861 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
85801 GGAAAATAAT
85811 TTCT-TTATTCTAATAAACTACTAAA
1 TTCTCTTATTCTAATAAACTACTAAA
85836 TTCTCTTATTCTAATAAACTACTAAA
1 TTCTCTTATTCTAATAAACTACTAAA
85862 AGATAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (26 bp):
TTCTCTTATTCTAATAAACTACTAAA
Found at i:88704 original size:13 final size:13
Alignment explanation
Indices: 88661--88704 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
88651 ACATTAAAAA
*
88661 TTTTCAAAAACAC
1 TTTTCACAAACAC
88674 TTTTC-CAAATCAC
1 TTTTCACAAA-CAC
*
88687 CTTTCACAAACAC
1 TTTTCACAAACAC
88700 TTTTC
1 TTTTC
88705 TAAGCTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 3 0.12
13 19 0.73
14 4 0.15
ACGTcount: A:0.34, C:0.30, G:0.00, T:0.36
Consensus pattern (13 bp):
TTTTCACAAACAC
Found at i:88721 original size:20 final size:20
Alignment explanation
Indices: 88696--88736 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
88686 CCTTTCACAA
*
88696 ACACTTTTCTAAGCTTTTAG
1 ACACTTTTCAAAGCTTTTAG
88716 ACACTTTTCAAAGCTTTTAG
1 ACACTTTTCAAAGCTTTTAG
88736 A
1 A
88737 TAACGCTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (20 bp):
ACACTTTTCAAAGCTTTTAG
Found at i:93063 original size:19 final size:19
Alignment explanation
Indices: 93022--93063 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
93012 GTGTTTTTTA
***
93022 CCAACACCAAAACAATGGT
1 CCAACACCAAAACAATAAC
93041 CCAACACCAAAACAATAAC
1 CCAACACCAAAACAATAAC
93060 CCAA
1 CCAA
93064 TTACTCATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.52, C:0.36, G:0.05, T:0.07
Consensus pattern (19 bp):
CCAACACCAAAACAATAAC
Found at i:98870 original size:18 final size:17
Alignment explanation
Indices: 98829--98871 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
98819 AAGGGCCAAT
98829 TAAATTATATATAATTA
1 TAAATTATATATAATTA
98846 TATAATTATATTATATATTA
1 TA-AATTATA-TATA-ATTA
98866 -AAATTA
1 TAAATTA
98872 AAAATTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.09
18 12 0.52
19 5 0.22
20 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATTATATATAATTA
Found at i:99321 original size:7 final size:6
Alignment explanation
Indices: 99286--99320 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
99276 AATATTATAA
99286 TTTTCTT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT TTTT
99321 TTGAATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:102140 original size:18 final size:19
Alignment explanation
Indices: 102107--102146 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
102097 TAAAATTGTA
*
102107 ATTTTTAGAAAATATAATTT
1 ATTTTTAG-AAATATAAATT
102127 ATTTTTAG-AATATAAATT
1 ATTTTTAGAAATATAAATT
102145 AT
1 AT
102147 CACTACTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
ATTTTTAGAAATATAAATT
Found at i:109180 original size:40 final size:41
Alignment explanation
Indices: 109121--109337 Score: 191
Period size: 40 Copynumber: 5.5 Consensus size: 41
109111 AACACACCCG
* * *
109121 TTTGGCACCCAGTGCCTCATCGGA-TGATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
* * *
109161 TTTGACACCTAGTGGCTCATC-GACTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
* * * * *
109199 -TTGGCACCCAATGCCTTATCGAATTAATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
* * *
109239 TTTGACACCTAGTGTCTCATC-GACTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
* * * * *
109277 -TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATAC
1 TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
*
109317 TTTGACACCCAGTGTCTCATC
1 TTTGACACCCAGTGCCTCATC
109338 AACTTGAAGT
Statistics
Matches: 135, Mismatches: 33, Indels: 17
0.73 0.18 0.09
Matches are distributed among these distances:
37 31 0.23
38 26 0.19
39 6 0.04
40 40 0.30
41 32 0.24
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (41 bp):
TTTGACACCCAGTGCCTCATCGGACTAATCCGAAGTAATAA
Found at i:109250 original size:78 final size:78
Alignment explanation
Indices: 109122--109337 Score: 353
Period size: 78 Copynumber: 2.8 Consensus size: 78
109112 ACACACCCGT
* * * * *
109122 TTGGCACCCAGTGCCTCATCGGA-TGATTCGAAGTAATAATTTGACACCTAGTGGCTCATCGACT
1 TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATAATTTGACACCTAGTGTCTCATCGACT
109186 AAACCGAAGTAAA
66 AAACCGAAGTAAA
*
109199 TTGGCACCCAATGCCTTATCGAATTAATCCGAAGTAATAATTTGACACCTAGTGTCTCATCGACT
1 TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATAATTTGACACCTAGTGTCTCATCGACT
109264 AAACCGAAGTAAA
66 AAACCGAAGTAAA
* *
109277 TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATACTTTGACACCCAGTGTCTCATC
1 TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATAATTTGACACCTAGTGTCTCATC
109338 AACTTGAAGT
Statistics
Matches: 129, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
77 20 0.16
78 109 0.84
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (78 bp):
TTGGCACCCAATGCCTCATCGAATTAATCCGAAGTAATAATTTGACACCTAGTGTCTCATCGACT
AAACCGAAGTAAA
Found at i:109295 original size:37 final size:38
Alignment explanation
Indices: 109176--109313 Score: 154
Period size: 38 Copynumber: 3.6 Consensus size: 38
109166 CACCTAGTGG
109176 CTCATCG-ACTAAACCGAAGTAAATTGGCACCCAATGC
1 CTCATCGAACTAAACCGAAGTAAATTGGCACCCAATGC
* * * * * * *
109213 CTTATCGAATTAATCCGAAGTAATAATTTGACACCTAGTGT
1 CTCATCGAACTAAACCGAAGT-A-AA-TTGGCACCCAATGC
109254 CTCATCG-ACTAAACCGAAGTAAATTGGCACCCAATGC
1 CTCATCGAACTAAACCGAAGTAAATTGGCACCCAATGC
* *
109291 CTCATCGAATTAATCCGAAGTAA
1 CTCATCGAACTAAACCGAAGTAA
109314 TACTTTGACA
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 23 0.29
38 26 0.32
39 2 0.03
40 13 0.16
41 16 0.20
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (38 bp):
CTCATCGAACTAAACCGAAGTAAATTGGCACCCAATGC
Found at i:110278 original size:17 final size:17
Alignment explanation
Indices: 110256--110291 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
110246 TTTTGTTTCG
110256 TTTCTATGCTCTTTCTT
1 TTTCTATGCTCTTTCTT
* *
110273 TTTCTATTCTTTTTCTT
1 TTTCTATGCTCTTTCTT
110290 TT
1 TT
110292 ATTTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTCTATGCTCTTTCTT
Found at i:110380 original size:30 final size:29
Alignment explanation
Indices: 110329--110387 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
110319 TATACTTAAC
* *
110329 TTTTAAGTTTTAATATTATAATATATATA
1 TTTTAACTTTAAATATTATAATATATATA
110358 TTTTAACTTTAAATATTTATAATATATATA
1 TTTTAACTTTAAATA-TTATAATATATATA
110388 CACTTATGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (29 bp):
TTTTAACTTTAAATATTATAATATATATA
Found at i:111829 original size:30 final size:30
Alignment explanation
Indices: 111795--111852 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
111785 TGTTCATTTA
* **
111795 TTCATCTAGTCATTCATTAAGTGTTTTTTT
1 TTCATCAAGTCATTCAACAAGTGTTTTTTT
*
111825 TTCATCAAGTCTTTCAACAAGTGTTTTT
1 TTCATCAAGTCATTCAACAAGTGTTTTT
111853 CATCAAGTTA
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:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (30 bp):
TTCATCAAGTCATTCAACAAGTGTTTTTTT
Found at i:111921 original size:24 final size:25
Alignment explanation
Indices: 111882--111938 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 25
111872 TTTTAATTAC
111882 CAAGTTTTTTTATTAAG-TTTTGCAT
1 CAAGTTTTTTTATTAAGCTTTT-CAT
111907 CAAGTTTTTTT-TTAAGCTTTTCAT
1 CAAGTTTTTTTATTAAGCTTTTCAT
*
111931 AAAGTTTT
1 CAAGTTTT
111939 CCATCAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.25, C:0.09, G:0.11, T:0.56
Consensus pattern (25 bp):
CAAGTTTTTTTATTAAGCTTTTCAT
Found at i:111956 original size:12 final size:12
Alignment explanation
Indices: 111822--111956 Score: 72
Period size: 12 Copynumber: 10.8 Consensus size: 12
111812 TAAGTGTTTT
111822 TTTTTCATCAAG
1 TTTTTCATCAAG
* *
111834 TCTTTCAACAAGTG
1 TTTTTCATCAA--G
111848 TTTTTCATCAAG
1 TTTTTCATCAAG
** *
111860 TTACTAATCAAG
1 TTTTTCATCAAG
* *
111872 TTTTAATTACCAAG
1 TTTT--TCATCAAG
* *
111886 TTTTTTTATTAAG
1 -TTTTTCATCAAG
*
111899 TTTTGCATCAAG
1 TTTTTCATCAAG
** *
111911 TTTTTTTTTAAG
1 TTTTTCATCAAG
* *
111923 CTTTTCATAAAG
1 TTTTTCATCAAG
*
111935 TTTTCCATCAAG
1 TTTTTCATCAAG
*
111947 TTTTTAATCA
1 TTTTTCATCA
111957 TTAAGTTTTT
Statistics
Matches: 89, Mismatches: 29, Indels: 10
0.70 0.23 0.08
Matches are distributed among these distances:
12 63 0.71
13 6 0.07
14 16 0.18
15 4 0.04
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (12 bp):
TTTTTCATCAAG
Found at i:118132 original size:28 final size:26
Alignment explanation
Indices: 118100--118163 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 26
118090 TGTTCATTTA
**
118100 TTCATCAAGTCATTCATTAAGTGTTTTT
1 TTCATCAAGTCATTCACCAAGTG--TTT
* *
118128 TTCATCAAGCCTTTCACCAAGTGTTT
1 TTCATCAAGTCATTCACCAAGTGTTT
118154 TTCATCAAGT
1 TTCATCAAGT
118164 TATTAATCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 12 0.39
28 19 0.61
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.44
Consensus pattern (26 bp):
TTCATCAAGTCATTCACCAAGTGTTT
Found at i:122135 original size:25 final size:25
Alignment explanation
Indices: 122107--122166 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
122097 GAGCAAGAAA
* * *
122107 CGGTAAGCTCCTCCGACCTGAATAT
1 CGGTAAGCTCCTACGACCTAAAAAT
* *
122132 CGGTGAGCTCCTACGAGCTAAAAAT
1 CGGTAAGCTCCTACGACCTAAAAAT
122157 CGGTAAGCTC
1 CGGTAAGCTC
122167 ATATGAGCTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (25 bp):
CGGTAAGCTCCTACGACCTAAAAAT
Found at i:124515 original size:18 final size:19
Alignment explanation
Indices: 124483--124518 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
124473 TCACAATGGC
124483 TAATTAATTTAATTAATTT
1 TAATTAATTTAATTAATTT
*
124502 TAATT-ATTTTATTAATT
1 TAATTAATTTAATTAATT
124519 AAATAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TAATTAATTTAATTAATTT
Found at i:127457 original size:9 final size:9
Alignment explanation
Indices: 127445--127486 Score: 70
Period size: 9 Copynumber: 4.9 Consensus size: 9
127435 ATTATCAAAT
127445 TATTAATTG
1 TATTAATTG
127454 TATTAATTG
1 TATTAATTG
127463 --TTAATTG
1 TATTAATTG
127470 TATTAATTG
1 TATTAATTG
127479 TATTAATT
1 TATTAATT
127487 ATTATAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.23
9 24 0.77
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:127466 original size:16 final size:16
Alignment explanation
Indices: 127442--127479 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
127432 AAAATTATCA
*
127442 AATTATTAATTGTATT
1 AATTGTTAATTGTATT
127458 AATTGTTAATTGTATT
1 AATTGTTAATTGTATT
127474 AATTGT
1 AATTGT
127480 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (16 bp):
AATTGTTAATTGTATT
Found at i:133116 original size:84 final size:84
Alignment explanation
Indices: 133019--133188 Score: 340
Period size: 84 Copynumber: 2.0 Consensus size: 84
133009 TTTCATCAAC
133019 ATTAAGCACTTCATAAGTTCAAAACAATTGCCGTGAACCTAACATTGTAAAATTGAATAAAATGT
1 ATTAAGCACTTCATAAGTTCAAAACAATTGCCGTGAACCTAACATTGTAAAATTGAATAAAATGT
133084 TAAATCTGTGGCAAATTGA
66 TAAATCTGTGGCAAATTGA
133103 ATTAAGCACTTCATAAGTTCAAAACAATTGCCGTGAACCTAACATTGTAAAATTGAATAAAATGT
1 ATTAAGCACTTCATAAGTTCAAAACAATTGCCGTGAACCTAACATTGTAAAATTGAATAAAATGT
133168 TAAATCTGTGGCAAATTGA
66 TAAATCTGTGGCAAATTGA
133187 AT
1 AT
133189 AGTAGCAAGA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (84 bp):
ATTAAGCACTTCATAAGTTCAAAACAATTGCCGTGAACCTAACATTGTAAAATTGAATAAAATGT
TAAATCTGTGGCAAATTGA
Found at i:140473 original size:47 final size:48
Alignment explanation
Indices: 140416--140506 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
140406 TTCTTTGTTT
*
140416 AAAAATGCTTAAATCAGCCTAACTCGCAATGATAAAG-ATTCAACAAC
1 AAAAACGCTTAAATCAGCCTAACTCGCAATGATAAAGAATTCAACAAC
* * *
140463 AAAAACGCTTAACTCGGCCTAACTTGCAATGATAAAGAATTCAA
1 AAAAACGCTTAAATCAGCCTAACTCGCAATGATAAAGAATTCAA
140507 TAGAATTCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 33 0.85
48 6 0.15
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.22
Consensus pattern (48 bp):
AAAAACGCTTAAATCAGCCTAACTCGCAATGATAAAGAATTCAACAAC
Found at i:140755 original size:19 final size:19
Alignment explanation
Indices: 140731--140803 Score: 80
Period size: 19 Copynumber: 3.9 Consensus size: 19
140721 AAAGCTGTAT
*
140731 ACAATTAGAATTCTAAGAC
1 ACAATTAGAACTCTAAGAC
140750 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* * *
140769 AAAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
140786 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
140804 TTACATAATC
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
16 1 0.02
17 10 0.23
18 4 0.09
19 28 0.64
20 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:140793 original size:17 final size:17
Alignment explanation
Indices: 140713--140795 Score: 53
Period size: 17 Copynumber: 4.6 Consensus size: 17
140703 CATTAAAGGC
*
140713 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTGTA
*
140730 TACAATTAGAATTCTAAG-A
1 TACAATTAGAA-GCT--GTA
* *
140749 CACAATTAGAA-CTCTAA
1 TACAATTAGAAGCTGT-A
*
140766 GACAAAATTAGAAGCTGTA
1 TAC--AATTAGAAGCTGTA
140785 TACAATTAGAA
1 TACAATTAGAA
140796 CTCTAAGATT
Statistics
Matches: 51, Mismatches: 7, Indels: 16
0.69 0.09 0.22
Matches are distributed among these distances:
17 23 0.45
18 2 0.04
19 22 0.43
20 4 0.08
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (17 bp):
TACAATTAGAAGCTGTA
Found at i:143101 original size:15 final size:15
Alignment explanation
Indices: 143081--143109 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
143071 TTATGCCCTT
143081 ACTATGCTTATTTCA
1 ACTATGCTTATTTCA
143096 ACTATGCTTATTTC
1 ACTATGCTTATTTC
143110 TCGATCACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.48
Consensus pattern (15 bp):
ACTATGCTTATTTCA
Found at i:169917 original size:6 final size:6
Alignment explanation
Indices: 169906--169934 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
169896 GCATGAAATT
169906 TGAAGG TGAAGG TGAAGG TGAAGG TGAAG
1 TGAAGG TGAAGG TGAAGG TGAAGG TGAAG
169935 ATTTGGCACA
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:0.34, C:0.00, G:0.48, T:0.17
Consensus pattern (6 bp):
TGAAGG
Found at i:172357 original size:2 final size:2
Alignment explanation
Indices: 172350--172378 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
172340 ATGATAATTT
172350 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
172379 TGTCAATTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:174025 original size:15 final size:15
Alignment explanation
Indices: 174002--174039 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
173992 AAAGTGGGAG
*
174002 GGAGTAAAAATTTTA
1 GGAGGAAAAATTTTA
174017 GGAGGAAAAATTTTA
1 GGAGGAAAAATTTTA
174032 GGAGGAAA
1 GGAGGAAA
174040 GTGAACAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (15 bp):
GGAGGAAAAATTTTA
Found at i:176069 original size:30 final size:30
Alignment explanation
Indices: 176025--176118 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
176015 TTTTATTATG
*
176025 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
176056 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
176086 CCAATATTTGATACTCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
176116 CCA
1 CCA
176119 TAAATATGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 54 0.89
31 7 0.11
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:176080 original size:15 final size:15
Alignment explanation
Indices: 176035--176111 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
176025 CCAATATCTC
176035 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
176050 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
176065 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
176080 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
*
176095 GATACTCATATCTTT
1 GATACCCATATCTTT
176110 GA
1 GA
176112 CTTTCCATAA
Statistics
Matches: 45, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
14 7 0.16
15 30 0.67
16 8 0.18
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:180733 original size:30 final size:30
Alignment explanation
Indices: 180683--180776 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
180673 TTTTATTATG
*
180683 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
180714 CCAATATTTGATACTCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
180744 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
180774 CCA
1 CCA
180777 TAAATATGGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 53 0.88
31 7 0.12
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:196540 original size:3 final size:3
Alignment explanation
Indices: 196532--196565 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
196522 GACGCATAAA
196532 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
196566 GATACTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:200003 original size:75 final size:75
Alignment explanation
Indices: 199923--200446 Score: 904
Period size: 75 Copynumber: 6.9 Consensus size: 75
199913 AAACAATAGT
* * *
199923 AGAGGAAGCAAATGTGGTACTTGCCACAAGCCAAGTACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
199988 AAACCATTGA
66 AAACCATTGA
199998 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGAAGAAGCGCTGCATGGGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAAC------AAGAAGAAGCGCTGCATGGGG
200063 AAAAGGAAACCATTGA
60 AAAAGGAAACCATTGA
200079 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
200144 AAACCATTGA
66 AAACCATTGA
* * * *
200154 AAAGGAAGCAAATGTGGTAATTGCAACAAACCAAGAACAAGAAGAAGCGCTGCACGGGGAAAAGA
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
200219 AAACCATTGA
66 AAACCATTGA
200229 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
200294 AAACCATTGA
66 AAACCATTGA
*
200304 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGTACAAGAAGAAGCGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
200369 AAACCATTGA
66 AAACCATTGA
* *
200379 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGTACAAGAAGAAACGCTGCATGGGGAAAAGG
1 AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
200444 AAA
66 AAA
200447 TCGCAACACC
Statistics
Matches: 430, Mismatches: 13, Indels: 12
0.95 0.03 0.03
Matches are distributed among these distances:
75 355 0.83
81 75 0.17
ACGTcount: A:0.44, C:0.16, G:0.28, T:0.12
Consensus pattern (75 bp):
AGAGGAAGCAAATGTGGTAATTGCCACAAACCAAGAACAAGAAGAAGCGCTGCATGGGGAAAAGG
AAACCATTGA
Found at i:211219 original size:9 final size:9
Alignment explanation
Indices: 211201--211236 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
211191 TAGTTTCTCA
211201 TTTC-TTTC
1 TTTCTTTTC
211209 TTTCTTTTC
1 TTTCTTTTC
*
211218 TTTCTTTCC
1 TTTCTTTTC
211227 TTTCTTTTC
1 TTTCTTTTC
211236 T
1 T
211237 CCCTGCTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 4 0.16
9 21 0.84
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:211219 original size:13 final size:13
Alignment explanation
Indices: 211201--211233 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
211191 TAGTTTCTCA
*
211201 TTTCTTTCTTTCT
1 TTTCTTTCTTTCC
211214 TTTCTTTCTTTCC
1 TTTCTTTCTTTCC
211227 TTTCTTT
1 TTTCTTT
211234 TCTCCCTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCTTTCC
Found at i:211308 original size:22 final size:21
Alignment explanation
Indices: 211271--211328 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
211261 CTTTCTATTC
211271 TTTA-TTTATT-TCATTTACTT
1 TTTATTTTATTAT-ATTTACTT
211291 ATTTATTTTATTATATTTACTT
1 -TTTATTTTATTATATTTACTT
*
211313 TATTATTATATTATAT
1 T-TTATTTTATTATAT
211329 ATTTTATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
21 5 0.15
22 27 0.82
23 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTATTTTATTATATTTACTT
Found at i:211309 original size:14 final size:14
Alignment explanation
Indices: 211270--211318 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
211260 TCTTTCTATT
211270 CTTTATT-TATTT-
1 CTTTATTATATTTA
*
211282 CATTTACT-TATTTA
1 C-TTTATTATATTTA
*
211296 TTTTATTATATTTA
1 CTTTATTATATTTA
211310 CTTTATTAT
1 CTTTATTAT
211319 TATATTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 1 0.03
13 15 0.50
14 14 0.47
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTTATTATATTTA
Found at i:211335 original size:17 final size:17
Alignment explanation
Indices: 211289--211337 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
211279 TTTCATTTAC
*
211289 TTATTTATTTTATTATA
1 TTATATATTTTATTATA
211306 TT-TACT-TTATTATTATA
1 TTATA-TATT-TTATTATA
211323 TTATATATTTTATTA
1 TTATATATTTTATTA
211338 ATAAATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
16 3 0.11
17 20 0.74
18 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATATATTTTATTATA
Found at i:213466 original size:18 final size:18
Alignment explanation
Indices: 213428--213463 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
213418 TTATTATTTT
*
213428 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
213446 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
213464 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:216445 original size:32 final size:32
Alignment explanation
Indices: 216404--216476 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
216394 CAGAACACTG
*
216404 AAATCGAGCAGTACCACCGGCCCACATGAAAA
1 AAATGGAGCAGTACCACCGGCCCACATGAAAA
*
216436 AAATGGAGCAGTACCATCGGCCCACATGAAAA
1 AAATGGAGCAGTACCACCGGCCCACATGAAAA
216468 AAATGGAGC
1 AAATGGAGC
216477 GTAAATTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.41, C:0.26, G:0.22, T:0.11
Consensus pattern (32 bp):
AAATGGAGCAGTACCACCGGCCCACATGAAAA
Found at i:232668 original size:73 final size:73
Alignment explanation
Indices: 232586--232771 Score: 345
Period size: 73 Copynumber: 2.5 Consensus size: 73
232576 ACAACTTGAC
232586 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
232651 CACTAACA
66 CACTAACA
* *
232659 AACTTAGTTGTAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
232724 CACTAACA
66 CACTAACA
*
232732 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
232772 AATAATAATA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 108 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:235726 original size:18 final size:17
Alignment explanation
Indices: 235693--235731 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
235683 TTGTATAAAT
235693 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
235711 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
235728 TGTG
1 TGTG
235732 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:236012 original size:46 final size:45
Alignment explanation
Indices: 235959--236048 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
235949 TGTTATTGAT
* *
235959 CAGTGGTAGCTTCGGCTACATCTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACAT-ATCAGTGGTAGCTTCGGCTACATC
236005 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
236049 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:236035 original size:23 final size:23
Alignment explanation
Indices: 235957--236055 Score: 155
Period size: 23 Copynumber: 4.3 Consensus size: 23
235947 AGTGTTATTG
235957 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
235980 CTTCAGTGGTAGCTTTGGCTACAT
1 -ATCAGTGGTAGCTTCGGCTACAT
*
236004 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
236026 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
236049 ATCAGTG
1 ATCAGTG
236056 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
22 20 0.29
23 28 0.41
24 21 0.30
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:239701 original size:73 final size:73
Alignment explanation
Indices: 239614--239797 Score: 350
Period size: 73 Copynumber: 2.5 Consensus size: 73
239604 AACTTGACAG
239614 CTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTACCA
1 CTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTACCA
239679 CTAACAAA
66 CTAACAAA
239687 CTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTACCA
1 CTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTACCA
239752 CTAACAAA
66 CTAACAAA
**
239760 CTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 CTTAGTTGGAATACAACTAAGTTTTATCATTACATCCA
239798 AATAATAATA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 109 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (73 bp):
CTTAGTTGGAATACAACTAAGTTTTATCATTACATCCACTTAAAATAAATCACCACCTACTACCA
CTAACAAA
Found at i:264425 original size:17 final size:17
Alignment explanation
Indices: 264412--264451 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
264402 TTCAAAAATT
264412 ATAAAAATTTAAAAAAA
1 ATAAAAATTTAAAAAAA
*
264429 ATCAAAATTTAAATTAAAA
1 ATAAAAATTTAAA--AAAA
264448 ATAA
1 ATAA
264452 TAAAAATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 12 0.63
19 7 0.37
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
ATAAAAATTTAAAAAAA
Found at i:264616 original size:31 final size:33
Alignment explanation
Indices: 264554--264621 Score: 97
Period size: 31 Copynumber: 2.1 Consensus size: 33
264544 GAAAAAAATC
*
264554 ATTTCGACTCTTTTTCAAAAGGTTGGTGGTCAA
1 ATTTCGACTCTTTTTCAAAAGATTGGTGGTCAA
264587 ATTT-GACTCTTTTT-AAAAGATTGAG-GGTCAA
1 ATTTCGACTCTTTTTCAAAAGATTG-GTGGTCAA
264618 ATTT
1 ATTT
264622 AGCTAAGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
31 18 0.55
32 11 0.33
33 4 0.12
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (33 bp):
ATTTCGACTCTTTTTCAAAAGATTGGTGGTCAA
Found at i:280575 original size:18 final size:18
Alignment explanation
Indices: 280548--280640 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
280538 CCCAACTACT
*
280548 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* * *
280566 ATATATGTGAATAGTGCC
1 GTATACGTGAATAGTACC
280584 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
280602 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
*
280620 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
280638 GTA
1 GTA
280641 AACGGTTGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:280638 original size:36 final size:36
Alignment explanation
Indices: 280548--280640 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
280538 CCCAACTACT
* * * *
280548 GTATACGTGAACAGTACCATATATGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
280584 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
*
280620 GTATATGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
280641 AACGGTTGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:293324 original size:29 final size:30
Alignment explanation
Indices: 293265--293322 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
293255 TCCGAGCCTT
*
293265 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
293295 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
293323 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:293552 original size:13 final size:13
Alignment explanation
Indices: 293534--293565 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
293524 TTTCCAGCAA
293534 TTATGAATTTATT
1 TTATGAATTTATT
293547 TTATGAATTTATT
1 TTATGAATTTATT
*
293560 TGATGA
1 TTATGA
293566 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:293830 original size:50 final size:51
Alignment explanation
Indices: 293660--293906 Score: 297
Period size: 50 Copynumber: 4.8 Consensus size: 51
293650 ATTTGGGTAA
* *
293660 AGAGATCCCATGTAAGACCATGTCTGGGACAT-GCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GATCACG
* *
293715 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCA-TGGCACCGA-GACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
* *
293764 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-GATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
* * *
293814 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
** *
293864 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
293907 TGTTATTATC
Statistics
Matches: 171, Mismatches: 17, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
49 38 0.22
50 59 0.35
51 34 0.20
54 2 0.01
55 35 0.20
56 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCACG
Found at i:293841 original size:99 final size:103
Alignment explanation
Indices: 293660--293907 Score: 355
Period size: 99 Copynumber: 2.4 Consensus size: 103
293650 ATTTGGGTAA
293660 AGAGATCCCATGTAAGACCATGTCTGGGACAT-GCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
293724 CTGTAAGACCATGTCTGGGACATGGCAT-GGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* *
293764 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
293826 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
293864 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
293908 GTTATTATCA
Statistics
Matches: 132, Mismatches: 7, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
99 40 0.30
100 13 0.10
101 37 0.28
104 33 0.25
105 9 0.07
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:298245 original size:5 final size:5
Alignment explanation
Indices: 298235--298259 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
298225 GTTAATACAG
298235 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
298260 CAGGTTAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:305421 original size:18 final size:17
Alignment explanation
Indices: 305398--305446 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
305388 ATATAATAAA
305398 TTATTTAATATTACAATT
1 TTATTTAATATTA-AATT
*
305416 TTATTTCAATAATAAATT
1 TTATTT-AATATTAAATT
**
305434 TTAAATAATATTA
1 TTATTTAATATTA
305447 TTCATATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 6 0.23
18 14 0.54
19 6 0.23
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTTAATATTAAATT
Found at i:317400 original size:13 final size:15
Alignment explanation
Indices: 317382--317413 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
317372 TCTTTCCCTA
317382 TTTTTCAT-G-TTCT
1 TTTTTCATCGTTTCT
317395 TTTTTCATCGTTTCT
1 TTTTTCATCGTTTCT
317410 TTTT
1 TTTT
317414 CTTTTCGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.72
Consensus pattern (15 bp):
TTTTTCATCGTTTCT
Found at i:323932 original size:70 final size:70
Alignment explanation
Indices: 323808--323943 Score: 195
Period size: 70 Copynumber: 1.9 Consensus size: 70
323798 TACAATGAGC
*
323808 AATTTTTAACAATAGAAATGGATGAAATTTTTAACAGAATGGCTTATTTACTCTTTTATCTAACA
1 AATTTTTAACAATAGAAATGGATGAAATTTTTAACAGAATGGCTTACTTACTCTTTTATCTAACA
323873 TGCCT
66 TGCCT
* * * *
323878 AATTTTTAAGAATATAAATGGATGAATTTTTTAACAGAAAT-G-TTAACTTGCTCTTTTATCTAA
1 AATTTTTAACAATAGAAATGGATGAAATTTTTAACAG-AATGGCTT-ACTTACTCTTTTATCTAA
323941 CAT
64 CAT
323944 ATTTAGTTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
69 2 0.03
70 54 0.92
71 3 0.05
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (70 bp):
AATTTTTAACAATAGAAATGGATGAAATTTTTAACAGAATGGCTTACTTACTCTTTTATCTAACA
TGCCT
Found at i:326282 original size:36 final size:37
Alignment explanation
Indices: 326182--326328 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
326172 TAGCTAGGCT
****
326182 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
326219 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
326256 ACCACTTATCACTTT-TTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
326292 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
326329 GCTAAAACTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
36 36 0.35
37 67 0.65
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:326283 original size:73 final size:74
Alignment explanation
Indices: 326182--326328 Score: 251
Period size: 73 Copynumber: 2.0 Consensus size: 74
326172 TAGCTAGGCT
*
326182 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCTTGATCAG
1 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTAACCACTTATCACTTTGTTTCTTGATCAG
326247 ATAAGTGTA
66 ATAAGTGTA
***
326256 ACCACTTATCACTTT-TTTCTTGATCAGATAAGTGTAACCACTTATCACTTTGTTTCTTGATCAG
1 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTAACCACTTATCACTTTGTTTCTTGATCAG
326320 ATAAGTGTA
66 ATAAGTGTA
326329 GCTAAAACTA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
73 54 0.78
74 15 0.22
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (74 bp):
ACCACTTATCACTTTACCACTTGATCAGATAAGTGTAACCACTTATCACTTTGTTTCTTGATCAG
ATAAGTGTA
Found at i:330827 original size:31 final size:31
Alignment explanation
Indices: 330784--330874 Score: 150
Period size: 29 Copynumber: 3.0 Consensus size: 31
330774 TATTTTATAA
* *
330784 ATTTTTTAAATTTTAAAATACTTTTTTTATT
1 ATTTTTTTAATTTTAAAATACTTTTTTAATT
330815 ATTTTTTTAATTTTAAAATAC-TTTTTAATT
1 ATTTTTTTAATTTTAAAATACTTTTTTAATT
330845 -TTTTTTTAATTTTAAAATACTTTTTTAATT
1 ATTTTTTTAATTTTAAAATACTTTTTTAATT
330875 TTTAAAATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
29 20 0.35
30 17 0.30
31 20 0.35
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (31 bp):
ATTTTTTTAATTTTAAAATACTTTTTTAATT
Found at i:330839 original size:19 final size:19
Alignment explanation
Indices: 330817--330883 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 19
330807 TTTTTATTAT
330817 TTTTTTAATTTTAAAATAC
1 TTTTTTAATTTTAAAATAC
330836 -TTTTTAA-TTT----T--
1 TTTTTTAATTTTAAAATAC
330847 TT-TTTAATTTTAAAATAC
1 TTTTTTAATTTTAAAATAC
330865 TTTTTTAATTTTTAAAATA
1 TTTTTTAA-TTTTAAAATA
330884 AATTTTTGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 19
0.67 0.00 0.33
Matches are distributed among these distances:
11 5 0.13
12 4 0.11
13 1 0.03
16 1 0.03
17 3 0.08
18 9 0.24
19 5 0.13
20 10 0.26
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTTAATTTTAAAATAC
Found at i:330870 original size:20 final size:20
Alignment explanation
Indices: 330846--330883 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
330836 TTTTTAATTT
330846 TTTTTTAA-TTTTAAAATAC
1 TTTTTTAATTTTTAAAATAC
330865 TTTTTTAATTTTTAAAATA
1 TTTTTTAATTTTTAAAATA
330884 AATTTTTGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTAATTTTTAAAATAC
Found at i:330889 original size:19 final size:19
Alignment explanation
Indices: 330848--330889 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
330838 TTTAATTTTT
**
330848 TTTTAATTTTAAAATACTT
1 TTTTAATTTTAAAATACAA
330867 TTTTAATTTTTAAAATA-AA
1 TTTTAA-TTTTAAAATACAA
330886 TTTT
1 TTTT
330890 TGGTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTAATTTTAAAATACAA
Found at i:330889 original size:20 final size:19
Alignment explanation
Indices: 330847--330890 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
330837 TTTTAATTTT
**
330847 TTTTTAATTTTAAAATACT
1 TTTTTAATTTTAAAATAAA
330866 TTTTTAATTTTTAAAATAAA
1 TTTTTAA-TTTTAAAATAAA
330886 TTTTT
1 TTTTT
330891 GGTATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTAATTTTAAAATAAA
Found at i:339452 original size:23 final size:23
Alignment explanation
Indices: 339421--339467 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
339411 TCCATTTCTA
* * *
339421 TTTCCTTTTAACTTTTTTTTTTG
1 TTTCATTTTAACATTTTCTTTTG
339444 TTTCATTTTAACATTTTCTTTTG
1 TTTCATTTTAACATTTTCTTTTG
339467 T
1 T
339468 ATGAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.13, C:0.13, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTCATTTTAACATTTTCTTTTG
Found at i:343118 original size:30 final size:31
Alignment explanation
Indices: 343076--343136 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
343066 GGATTGGGAG
* *
343076 GGGAAGGGAGTAAAAGTTTTGGGGAGAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGAAAAAGT
343107 GGGAA-GGAGTAAAAGTTTTGAGGAAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGAAAAAGT
343137 AAAAAGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (31 bp):
GGGAAGGGAGTAAAAGTTTTGAGGAAAAAGT
Found at i:343199 original size:9 final size:9
Alignment explanation
Indices: 343185--343212 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
343175 TATAGTTTGA
343185 TATTCGAAT
1 TATTCGAAT
343194 TATTCGAAT
1 TATTCGAAT
343203 TATTCGAAT
1 TATTCGAAT
343212 T
1 T
343213 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:359352 original size:19 final size:19
Alignment explanation
Indices: 359320--359357 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
359310 AATAAAATTT
*
359320 AAATAATAATTTATTGTTTG
1 AAATAATAAGTTATT-TTTG
359340 AAAT-ATAAGTTATTTTTG
1 AAATAATAAGTTATTTTTG
359358 CTCTGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (19 bp):
AAATAATAAGTTATTTTTG
Found at i:364883 original size:31 final size:31
Alignment explanation
Indices: 364811--364874 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
364801 TTCCTCCAAG
* * * *
364811 TTAAGCCTTAAACTTGGCCATTGTTCCCACA
1 TTAAGGCTTAAACTAGGCAAGTGTTCCCACA
364842 TTAAGGCTTAAACTAGGCAAGTGTTCCCACA
1 TTAAGGCTTAAACTAGGCAAGTGTTCCCACA
364873 TT
1 TT
364875 GGAGCTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (31 bp):
TTAAGGCTTAAACTAGGCAAGTGTTCCCACA
Found at i:366232 original size:3 final size:3
Alignment explanation
Indices: 366224--366251 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
366214 TTTCAGCTAT
366224 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
366252 CACCTGAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:366948 original size:29 final size:30
Alignment explanation
Indices: 366905--366961 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
366895 TTTTGAAATT
366905 TAAAAAGTAAAGAGACTAAATTCCAAAAAA
1 TAAAAAGTAAAGAGACTAAATTCCAAAAAA
*
366935 TAAAAA-TATAGAGACTAAATTCCAAAA
1 TAAAAAGTAAAGAGACTAAATTCCAAAA
366962 TTTTGAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.19
Consensus pattern (30 bp):
TAAAAAGTAAAGAGACTAAATTCCAAAAAA
Found at i:368680 original size:22 final size:22
Alignment explanation
Indices: 368642--368695 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
368632 CCGGCCCATT
*
368642 TTTTAATAAA-TACAAAAAATTTA
1 TTTTAA-AAATTACAAAAAA-GTA
368665 TTTTAAAAATTA-AAAAAAGTA
1 TTTTAAAAATTACAAAAAAGTA
368686 TTTTAAAAAT
1 TTTTAAAAAT
368696 ATTTTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 12 0.41
22 9 0.31
23 8 0.28
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
TTTTAAAAATTACAAAAAAGTA
Found at i:368762 original size:17 final size:16
Alignment explanation
Indices: 368691--368762 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 16
368681 AAGTATTTTA
* *
368691 AAAATATTTTAAAATT
1 AAAATATTTAAAAAAT
* *
368707 AAAA-A-ATAATAAA-
1 AAAATATTTAAAAAAT
* *
368720 AAAATATTTTAAAATT
1 AAAATATTTAAAAAAT
*
368736 AAAAAATTTAAAAAAT
1 AAAATATTTAAAAAAT
368752 AAATATATTTA
1 AAA-ATATTTA
368763 TTATATCGGG
Statistics
Matches: 40, Mismatches: 12, Indels: 7
0.68 0.20 0.12
Matches are distributed among these distances:
13 4 0.10
14 5 0.12
15 5 0.12
16 20 0.50
17 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATATTTAAAAAAT
Found at i:369533 original size:30 final size:30
Alignment explanation
Indices: 369499--369563 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
369489 CAACGTAACA
*
369499 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATGCATCTAAAATAATAACAAAATT
*
369529 AACAAATGCATTTAAAATAATAACAAAATT
1 AACAAATGCATCTAAAATAATAACAAAATT
369559 AACAA
1 AACAA
369564 TAAAATAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.60, C:0.14, G:0.03, T:0.23
Consensus pattern (30 bp):
AACAAATGCATCTAAAATAATAACAAAATT
Found at i:372822 original size:31 final size:31
Alignment explanation
Indices: 372786--372848 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
372776 AACAACCTAG
* * *
372786 TGACTTAAGAT-AAACTTTTTAAATAGTTCAA
1 TGACTTAA-ATAAAAATATTTAAATAATTCAA
372817 TGACTTAAATAAAAATATTTAAATAATTCAA
1 TGACTTAAATAAAAATATTTAAATAATTCAA
372848 T
1 T
372849 AACCATTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (31 bp):
TGACTTAAATAAAAATATTTAAATAATTCAA
Found at i:382993 original size:26 final size:26
Alignment explanation
Indices: 382964--383016 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
382954 TAAGTATTAT
*
382964 AATTTAATATTTTTATATAAT-TTTTA
1 AATTTAATA-GTTTATATAATATTTTA
**
382990 AATTTTGTAGTTTATATAATATTTTA
1 AATTTAATAGTTTATATAATATTTTA
383016 A
1 A
383017 TATTATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
AATTTAATAGTTTATATAATATTTTA
Found at i:383915 original size:5 final size:6
Alignment explanation
Indices: 383884--383914 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
383874 CAACTCCAAA
383884 AAATTC AAATTC AAATTC AAATTC -AATTC AA
1 AAATTC AAATTC AAATTC AAATTC AAATTC AA
383915 TAATTATCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTC
Found at i:387073 original size:17 final size:17
Alignment explanation
Indices: 387051--387084 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
387041 ATCCACTAAT
*
387051 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
387068 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
387085 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:391701 original size:17 final size:17
Alignment explanation
Indices: 391679--391712 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
391669 ATCCACTAAT
*
391679 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
391696 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
391713 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:401939 original size:17 final size:19
Alignment explanation
Indices: 401917--401952 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
401907 CTCTTTTATT
401917 TTTTTAGT-TTTA-TTTTA
1 TTTTTAGTCTTTACTTTTA
401934 TTTTTAGTCTTTACTTTTA
1 TTTTTAGTCTTTACTTTTA
401953 AAAGTTATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.72
Consensus pattern (19 bp):
TTTTTAGTCTTTACTTTTA
Found at i:408898 original size:19 final size:21
Alignment explanation
Indices: 408874--408916 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
408864 GAATTTAGGT
*
408874 TTAAAATTTAGAAT-TTAA-A
1 TTAAAATTTAAAATATTAATA
408893 TTAAAATTTAAAATATTAATA
1 TTAAAATTTAAAATATTAATA
408914 TTA
1 TTA
408917 CAACAACGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 4 0.19
21 4 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTAAAATTTAAAATATTAATA
Found at i:410748 original size:39 final size:38
Alignment explanation
Indices: 410678--410822 Score: 98
Period size: 39 Copynumber: 3.7 Consensus size: 38
410668 TGGTGGAGGA
* *
410678 GATGGTGGAGGTGGTGATGGA--TAAGTAGGTGGCGGGGGT
1 GATGGTGGAGGTGGGGATGGAGGT-GGT-GGTGG-GGGGGT
*
410717 GATGGTGGAGGTGGGGATGGAGGTGGTGGTGGTGGAGAGT
1 GATGGTGGAGGTGGGGATGGAGGTGGTGGTGG-GG-GGGT
* * * * *
410757 AAACTGGTGGAGGTGGTGAAGGCGGTGGAGGTGAGGGGGGT
1 -GA-TGGTGGAGGTGGGGATGGAGGTGGTGGTG-GGGGGGT
* *
410798 GGTGGTGGTGGTGGTGG-TGGAGGTG
1 GATGGTGGAGGTGG-GGATGGAGGTG
410823 AATAAACAGG
Statistics
Matches: 83, Mismatches: 16, Indels: 14
0.73 0.14 0.12
Matches are distributed among these distances:
39 44 0.53
40 6 0.07
41 5 0.06
42 27 0.33
43 1 0.01
ACGTcount: A:0.15, C:0.02, G:0.61, T:0.22
Consensus pattern (38 bp):
GATGGTGGAGGTGGGGATGGAGGTGGTGGTGGGGGGGT
Found at i:410822 original size:24 final size:24
Alignment explanation
Indices: 410666--410822 Score: 54
Period size: 24 Copynumber: 6.4 Consensus size: 24
410656 TACTGGTGAA
* *
410666 GGTGGTGGAGGAGATGGTGGAGGT
1 GGTGGTGGTGGAGGTGGTGGAGGT
* * * *
410690 GGTGATGGAT--AAGTAGGTGGCGGG
1 GGTGGTGG-TGGAGGT-GGTGGAGGT
*
410714 GGTGATGGTGGAGGTGGGGATGGAGGT
1 GGTGGTGGTGGAGGT--GG-TGGAGGT
* **
410741 GGTGGTGGTGGA-G-AGTAAACTGGT
1 GGTGGTGGTGGAGGTGGTGGA--GGT
* * *
410765 GGAGGTGGTGAAGGCGGTGGAGGT
1 GGTGGTGGTGGAGGTGGTGGAGGT
* * *
410789 GAG-GGGGGTGGTGGTGGTGGTGGT
1 G-GTGGTGGTGGAGGTGGTGGAGGT
*
410813 GGTGGAGGTG
1 GGTGGTGGTG
410823 AATAAACAGG
Statistics
Matches: 96, Mismatches: 25, Indels: 24
0.66 0.17 0.17
Matches are distributed among these distances:
22 2 0.02
23 5 0.05
24 62 0.65
25 5 0.05
26 6 0.06
27 16 0.17
ACGTcount: A:0.15, C:0.02, G:0.61, T:0.22
Consensus pattern (24 bp):
GGTGGTGGTGGAGGTGGTGGAGGT
Done.