Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001281.1 Hibiscus syriacus cultivar Beakdansim tig00002515_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: 106746
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:1451 original size:7 final size:7
Alignment explanation
Indices: 1448--1472 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1438 AATAAAACTG
1448 AAAATGA
1 AAAATGA
1455 AAAATGA
1 AAAATGA
1462 AAAATGA
1 AAAATGA
1469 AAAA
1 AAAA
1473 CAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAATGA
Found at i:1491 original size:2 final size:2
Alignment explanation
Indices: 1484--1510 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1474 AAATAAAAAG
1484 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1511 ATTTAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2452 original size:15 final size:16
Alignment explanation
Indices: 2429--2464 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
2419 TGTTCGTGGT
2429 GGATCGGTCA-TCCCG
1 GGATCGGTCAGTCCCG
*
2444 GGATGGGTCAGTCCCG
1 GGATCGGTCAGTCCCG
2460 GGATC
1 GGATC
2465 TTGGCTGGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.14, C:0.28, G:0.39, T:0.19
Consensus pattern (16 bp):
GGATCGGTCAGTCCCG
Found at i:2772 original size:34 final size:34
Alignment explanation
Indices: 2645--2773 Score: 119
Period size: 35 Copynumber: 3.8 Consensus size: 34
2635 AATAATAAAT
*
2645 AAATGTTTTAAAAATCC-ATAT-ATATAGTTTC--
1 AAATGTTTTAAAAA-CCTATATAATATATTTTCAA
* *
2676 -AAT-TTTTAAAAAACTATATATTATACGTATTTCAA
1 AAATGTTTTAAAAACCTATATAATATA--T-TTTCAA
*
2711 AAACGTTTTAAAAA-CTATAATATATATATTTTCAA
1 AAATGTTTTAAAAACCTAT-ATA-ATATATTTTCAA
2746 AAATGTTTTAAAAACCTATATAATATAT
1 AAATGTTTTAAAAACCTATATAATATAT
2774 AAATGTTTTC
Statistics
Matches: 80, Mismatches: 6, Indels: 21
0.75 0.06 0.20
Matches are distributed among these distances:
28 1 0.01
29 13 0.16
30 7 0.09
33 4 0.05
34 6 0.08
35 22 0.28
36 11 0.14
37 12 0.15
38 4 0.05
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.41
Consensus pattern (34 bp):
AAATGTTTTAAAAACCTATATAATATATTTTCAA
Found at i:2804 original size:75 final size:73
Alignment explanation
Indices: 2716--2861 Score: 188
Period size: 75 Copynumber: 2.0 Consensus size: 73
2706 TTCAAAAACG
* *
2716 TTTTAAAAACTATA-A-TATATATATTTTCAAAAATGTTTTAAAAACCTATATAATATATAAATG
1 TTTTAAAAACTATATATTATATACATTTTC-AAAATATTTTAAAAA-CTATATAATATATAAA--
2779 TTTTCAAAATAA
62 TTTTCAAAATAA
* * * *
2791 TTTTAAAAACTATATATTATATACATTTTCAAAATATTTTCAAAATTATATATTATATACATTTT
1 TTTTAAAAACTATATATTATATACATTTTCAAAATATTTTAAAAACTATATAATATATAAATTTT
2856 CAAAAT
66 CAAAAT
2862 CCATTTGCAA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
73 10 0.16
75 27 0.43
76 14 0.22
77 12 0.19
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (73 bp):
TTTTAAAAACTATATATTATATACATTTTCAAAATATTTTAAAAACTATATAATATATAAATTTT
CAAAATAA
Found at i:2850 original size:36 final size:36
Alignment explanation
Indices: 2679--2886 Score: 185
Period size: 36 Copynumber: 5.6 Consensus size: 36
2669 TAGTTTCAAT
*
2679 TTTTAAAAAACTATAT-AT-TATACGTATTTCAAAA-A
1 TTTT-AAAAACTATATAATATATACAT-TTTCAAAATA
* *
2714 CGTTTTAAAAAC--TATAATATATATATTTTCAAAAATG
1 --TTTTAAAAACTATATAATATATACATTTTC-AAAATA
*
2751 TTTTAAAAACCTATATAATATATAAATGTTTTCAAAATAA
1 TTTTAAAAA-CTATATAATATATACA--TTTTCAAAAT-A
*
2791 TTTTAAAAACTATATATTATATACATTTTCAAAATA
1 TTTTAAAAACTATATAATATATACATTTTCAAAATA
* * *
2827 TTTTCAAAATTATATATTATATACATTTTCAAAATCCA
1 TTTTAAAAACTATATAATATATACATTTTCAAAAT--A
**
2865 -TTTGCAAACTATATAATATATA
1 TTTTAAAAACTATATAATATATA
2887 TATATATATA
Statistics
Matches: 146, Mismatches: 13, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
34 3 0.02
35 15 0.10
36 50 0.34
37 32 0.22
38 13 0.09
39 19 0.13
40 14 0.10
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (36 bp):
TTTTAAAAACTATATAATATATACATTTTCAAAATA
Found at i:2885 original size:2 final size:2
Alignment explanation
Indices: 2874--2905 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2864 ATTTGCAAAC
2874 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2906 GTATGTATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7336 original size:13 final size:13
Alignment explanation
Indices: 7283--7307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7273 GTAATAAACA
7283 AAATTAACAAAAT
1 AAATTAACAAAAT
7296 AAATTAACAAAA
1 AAATTAACAAAA
7308 AGTCCAACAA
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:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATTAACAAAAT
Found at i:15467 original size:12 final size:12
Alignment explanation
Indices: 15450--15477 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15440 ATCCTCTAAG
15450 TTTTTTTAATTA
1 TTTTTTTAATTA
15462 TTTTTTTAATTA
1 TTTTTTTAATTA
15474 TTTT
1 TTTT
15478 CCCTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTAATTA
Found at i:15666 original size:41 final size:40
Alignment explanation
Indices: 15578--15670 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 40
15568 TTCAAAATTA
* *
15578 TTTTTTATTTTATTTCATTTTGTTTCCTTTTTTAATTTTT
1 TTTTTTATTTTATCTCATTTTGTTACCTTTTTTAATTTTT
**
15618 TTATTTTATTTTATCT-ATTGTT-TTACCTTTTTTCCTTTCCTT
1 TT-TTTTATTTTATCTCATT-TTGTTACCTTTTTTAATTT--TT
15660 TTTTTTATTTT
1 TTTTTTATTTT
15671 TTACGTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
40 18 0.40
41 23 0.51
42 4 0.09
ACGTcount: A:0.12, C:0.11, G:0.02, T:0.75
Consensus pattern (40 bp):
TTTTTTATTTTATCTCATTTTGTTACCTTTTTTAATTTTT
Found at i:15753 original size:28 final size:27
Alignment explanation
Indices: 15711--15782 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 27
15701 TTTTATTTTC
15711 TTTTATTTTCTTTTCCTTTGATT-TTTTGAT
1 TTTTA-TTT-TTTTCCTTT--TTCTTTTGAT
15741 TTTTATTTTTTTCCTTTTTCCTTTTGAT
1 TTTTATTTTTTTCCTTTTT-CTTTTGAT
15769 TTATTATTATTTTT
1 TT-TTATT-TTTTT
15783 TATTTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
26 2 0.05
28 18 0.47
29 8 0.21
30 10 0.26
ACGTcount: A:0.11, C:0.10, G:0.04, T:0.75
Consensus pattern (27 bp):
TTTTATTTTTTTCCTTTTTCTTTTGAT
Found at i:15760 original size:35 final size:34
Alignment explanation
Indices: 15692--15788 Score: 99
Period size: 34 Copynumber: 2.7 Consensus size: 34
15682 CTTTAATTTA
15692 TTTGATATTTTTTATTTTCT-TTTATTTTCTTTTCC-
1 TTTGAT-TTTTTTATTTT-TATTT-TTTTCTTTTCCT
*
15727 TTTGATTTTTTGATTTTTATTTTTTTCCTTTTTCCT
1 TTTGATTTTTTTATTTTTATTTTTTT-C-TTTTCCT
15763 TTTGATTTATTATTATTTTTTATTTT
1 TTTGATTT-TT-TTA-TTTTTATTTT
15789 ATGTTTTCCA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
33 5 0.09
34 14 0.26
35 12 0.23
36 8 0.15
37 2 0.04
38 2 0.04
39 10 0.19
ACGTcount: A:0.12, C:0.08, G:0.04, T:0.75
Consensus pattern (34 bp):
TTTGATTTTTTTATTTTTATTTTTTTCTTTTCCT
Found at i:15903 original size:6 final size:6
Alignment explanation
Indices: 15892--15919 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15882 AATCGAATGT
15892 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
15920 CAAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:18812 original size:13 final size:11
Alignment explanation
Indices: 18792--18882 Score: 62
Period size: 11 Copynumber: 8.5 Consensus size: 11
18782 AATCAATAAC
*
18792 AAAAAGAAGAA
1 AAAAAGAAAAA
* *
18803 AAACA-AAGAA
1 AAAAAGAAAAA
*
18813 AAAAAGCAAAA
1 AAAAAGAAAAA
* *
18824 GAAAA-AAAGA
1 AAAAAGAAAAA
18834 AAAAA-AAAAA
1 AAAAAGAAAAA
18844 AAAAAGAAAAA
1 AAAAAGAAAAA
* * *
18855 ATAGAGGAAAA
1 AAAAAGAAAAA
*
18866 ATAAAGAAAAA
1 AAAAAGAAAAA
18877 AGAAAA
1 A-AAAA
18883 CAAGACGCAT
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
10 25 0.40
11 34 0.55
12 3 0.05
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:18826 original size:14 final size:13
Alignment explanation
Indices: 18793--18855 Score: 76
Period size: 13 Copynumber: 4.8 Consensus size: 13
18783 ATCAATAACA
18793 AAAAGAAGAAAAAC
1 AAAAGAA-AAAAAC
18807 -AAAGAAAAAAAGC
1 AAAAGAAAAAAA-C
*
18820 AAAAGAAAAAAAG
1 AAAAGAAAAAAAC
*
18833 AAAA-AAAAAAAA
1 AAAAGAAAAAAAC
18845 AAAAGAAAAAA
1 AAAAGAAAAAA
18856 TAGAGGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
12 16 0.36
13 17 0.39
14 11 0.25
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAAC
Found at i:20727 original size:36 final size:36
Alignment explanation
Indices: 20629--20778 Score: 223
Period size: 36 Copynumber: 4.2 Consensus size: 36
20619 AATTTACTCA
* **
20629 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTTTCTTG
1 AAACAAA-TTTGGTCTCTCTTGAGACAGTTTCCCTTG
*
20666 AAACAAATTT--TGTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTGGTCTCTCTTGAGACAGTTTCCCTTG
*
20700 AAACAAATTTGGTCTATCTTGAGACAGTTTCCCTTG
1 AAACAAATTTGGTCTCTCTTGAGACAGTTTCCCTTG
*
20736 AAACAAATTTGGTCTCTCTTGAGATAGTTTCCCTTG
1 AAACAAATTTGGTCTCTCTTGAGACAGTTTCCCTTG
20772 AAACAAA
1 AAACAAA
20779 ATCTTTGAAT
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
34 31 0.30
36 66 0.63
37 7 0.07
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (36 bp):
AAACAAATTTGGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:20736 original size:70 final size:72
Alignment explanation
Indices: 20629--20778 Score: 223
Period size: 70 Copynumber: 2.1 Consensus size: 72
20619 AATTTACTCA
* * ** *
20629 AAACAAAGTTTTGTCTCTCTTGAGACAGTTTTTCTTGAAACAAATTT-TGTCTCTTGAGACAGTT
1 AAACAAAGTTTGGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTGTCTCTCTTGAGACAGTT
20693 TCCCTTG
66 TCCCTTG
*
20700 AAACAAA-TTTGGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTGGTCTCTCTTGAGATAGT
1 AAACAAAGTTTGGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTT-GTCTCTCTTGAGACAGT
20764 TTCCCTTG
65 TTCCCTTG
20772 AAACAAA
1 AAACAAA
20779 ATCTTTGAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
70 35 0.49
71 7 0.10
72 29 0.41
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (72 bp):
AAACAAAGTTTGGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTGTCTCTCTTGAGACAGTT
TCCCTTG
Found at i:20830 original size:101 final size:100
Alignment explanation
Indices: 20628--20877 Score: 279
Period size: 101 Copynumber: 2.4 Consensus size: 100
20618 TAATTTACTC
** * **
20628 AAAACAAAGTTTTGTCTCTCTTGAGACAGTTTTTCTTGAAACAAATTTTGTCTCTTGAGA-CAGT
1 AAAACAAAG--TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA----ATCT-TTGA-ATCTTT
* *
20692 TTCCCTTGAAACAAATTTGGTCTATCTTGAGACAGTTTCCCTT
58 TTTCCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTT
* * *
20735 GAAACAAATTTGGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATCTTTGAATCTTTTTTCCTT
1 AAAACAAAGTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTTTTTTCCTT
**
20800 GAAACAAATTTCGT-TACTCTTGAGACAGTTTCTTTT
65 GAAACAAATTTCGTCTA-TCTTGAGACAGTTTCCCTT
*
20836 AAAACAAAGTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAA
1 AAAACAAAGTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
20878 TTTTTGTCTC
Statistics
Matches: 124, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
100 32 0.26
101 51 0.41
102 3 0.02
105 2 0.02
106 29 0.23
107 7 0.06
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (100 bp):
AAAACAAAGTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTTTTTTCCTTG
AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTT
Found at i:20864 original size:172 final size:172
Alignment explanation
Indices: 20629--21350 Score: 759
Period size: 172 Copynumber: 4.2 Consensus size: 172
20619 AATTTACTCA
* *
20629 AAACAAAGTTTTGTCTCTCTTGAGACAGTTT-TTCTTGAAACAAA-TTT-TGTCTCTTGAGACAG
1 AAACAAA-TTTCGT-TCTCTTGAGACAGTTTCTT-TTGAAACAAAGTTTGTCTCTCTTGAGACAG
* * * *
20691 TTTCCCTTGAAACAAATTTGGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTGGTCTCTCTT
63 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
*
20756 GAGATAGTTTCCCTTGAAACAAAATCTTTGAATCTTTTTTCCTTG
128 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTTTTTTCCTTG
*
20801 AAACAAATTTCGTTACTCTTGAGACAGTTTCTTTTAAAACAAAG-TTGTCTCTCTTGAGACAGTT
1 AAACAAATTTCGTT-CTCTTGAGACAGTTTCTTTTGAAACAAAGTTTGTCTCTCTTGAGACAGTT
* * * *
20865 TCTCTTGAAACAATTTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAATTTTTTCTTTCTTGA
65 TCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGA
* *
20930 GACGGTTTCCCTTGAAACAAAATCTTTGAAT-TTGTTTCCCTTG
130 GACAGTTTCCCTTGAAACAAAATCTTTGAATCTT-TTTTCCTTG
* * *
20973 AAACAAATTTCG-TCTCCTTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAA
1 AAACAAATTTCGTTCT-C-TTGAGACAGTTTCTTTTGAAACAAAG-TTTGTCTCTCTTGAGACAG
* * * * * * * *
21037 TTTCTTTTGGATATAAGTTTTTTCTCTCTTGAAACAGTTTCTCTTGAAACAAA-TTTGTCTTTCT
63 TTTCTCTT-GAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
* * *
21101 TGAGACAGTTTCCCATG-AA-AAAAT-TTTG-GTC---TCT-CTTG
127 TGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTTTTTTCCTTG
* *** * *
21139 AGA-AAATTTC---C-CTTGTA-ACAAAATCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGT
1 AAACAAATTTCGTTCTCTTG-AGACAGTTTCTTTTGAAACAAAG-TTTGTCTCTCTTGAGACAGT
21198 TTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTT
64 TTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTTTGTCTCTCTT
* * * *
21263 GAGACAGTTTCTCTTGAAACACCAATCTTTGAA-CATGTTTCTCTTG
128 GAGACAGTTTCCCTTGAAACA-AAATCTTTGAATCTTTTTTC-CTTG
* * * * *
21309 AAACAAAATTTTGCCTCCCTTGAGACAATTTCTCTTGAAACA
1 AAAC-AAATTTCG-TTCTCTTGAGACAGTTTCTTTTGAAACA
21351 CAAAACAAAA
Statistics
Matches: 461, Mismatches: 57, Indels: 59
0.80 0.10 0.10
Matches are distributed among these distances:
159 38 0.08
160 47 0.10
161 27 0.06
162 2 0.00
163 2 0.00
164 3 0.01
165 12 0.03
166 6 0.01
167 1 0.00
168 2 0.00
170 10 0.02
171 39 0.08
172 165 0.36
173 2 0.00
174 49 0.11
175 37 0.08
176 2 0.00
177 17 0.04
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (172 bp):
AAACAAATTTCGTTCTCTTGAGACAGTTTCTTTTGAAACAAAGTTTGTCTCTCTTGAGACAGTTT
CTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
ACAGTTTCCCTTGAAACAAAATCTTTGAATCTTTTTTCCTTG
Found at i:20875 original size:136 final size:134
Alignment explanation
Indices: 20657--20914 Score: 383
Period size: 136 Copynumber: 1.9 Consensus size: 134
20647 CTTGAGACAG
* * *
20657 TTTTTCTTGAAACAAATTTTGTCTCTTGAGACAGTTTCCCTTGAAACAAATTTGGTCTATCTTGA
1 TTTTTCTTGAAACAAATTTCGTCTCTTGAGACAGTTTCCCTTAAAACAAAGTTGGTCTATCTTGA
*
20722 GACAGTTTCCCTTGAAACAAATTTGGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATCTTTGA
66 GACAGTTTCCCTTGAAACAAATTTGGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGA
20787 ATCT
131 ATCT
** *
20791 TTTTTCCTTGAAACAAATTTCGTTACTCTTGAGACAGTTTCTTTTAAAACAAAGTT-GTCTCTCT
1 TTTTT-CTTGAAACAAATTTCG-T-CTCTTGAGACAGTTTCCCTTAAAACAAAGTTGGTCTATCT
* * * *
20855 TGAGACAGTTTCTCTTGAAACAATTTTTGTCTCTCTTGAGACGGTTTCCCTTGAAACAAA
63 TGAGACAGTTTCCCTTGAAACAAATTTGGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
20915 TTTTTTCTTT
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
134 5 0.05
135 15 0.14
136 63 0.57
137 27 0.25
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (134 bp):
TTTTTCTTGAAACAAATTTCGTCTCTTGAGACAGTTTCCCTTAAAACAAAGTTGGTCTATCTTGA
GACAGTTTCCCTTGAAACAAATTTGGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGA
ATCT
Found at i:20892 original size:36 final size:36
Alignment explanation
Indices: 20796--20949 Score: 170
Period size: 36 Copynumber: 4.3 Consensus size: 36
20786 AATCTTTTTT
* *
20796 CCTTGAAACAAATTTCGT-TACTCTTGAGACAGTTTC
1 CCTTGAAACAATTTTTGTCT-CTCTTGAGACAGTTTC
** * **
20832 TTTTAAAACAA-AGTTGTCTCTCTTGAGACAGTTTC
1 CCTTGAAACAATTTTTGTCTCTCTTGAGACAGTTTC
* *
20867 TCTTGAAACAATTTTTGTCTCTCTTGAGACGGTTTC
1 CCTTGAAACAATTTTTGTCTCTCTTGAGACAGTTTC
* *
20903 CCTTGAAACAAATTTTT-TCTTTCTTGAGACGGTTTC
1 CCTTGAAAC-AATTTTTGTCTCTCTTGAGACAGTTTC
20939 CCTTGAAACAA
1 CCTTGAAACAA
20950 AATCTTTGAA
Statistics
Matches: 102, Mismatches: 13, Indels: 7
0.84 0.11 0.06
Matches are distributed among these distances:
35 30 0.29
36 65 0.64
37 7 0.07
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
CCTTGAAACAATTTTTGTCTCTCTTGAGACAGTTTC
Found at i:21003 original size:36 final size:36
Alignment explanation
Indices: 20963--21160 Score: 168
Period size: 37 Copynumber: 5.5 Consensus size: 36
20953 CTTTGAATTT
*
20963 GTTTCCCTTGAAACAAATTTCGTCTC-CTTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTC-TTGAGACA
** * *
20999 GTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
* ** * * * * *
21036 ATTTCTTTTGGATATAAGTTTTTTCTCTCTTGAAACA
1 GTTTCCCTT-GAAACAAATTTTGTCTCTCTTGAGACA
* *
21073 GTTTCTCTTGAAACAAA-TTTGTCTTTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
21108 GTTTCCCATGAAA-AAATTTTGGTCTCTCTTGAGAAA
1 GTTTCCCTTGAAACAAATTTT-GTCTCTCTTGAGACA
* *
21144 ATTTCCCTTGTAACAAA
1 GTTTCCCTTGAAACAAA
21161 ATCTTTTGGA
Statistics
Matches: 130, Mismatches: 26, Indels: 11
0.78 0.16 0.07
Matches are distributed among these distances:
34 3 0.02
35 29 0.22
36 39 0.30
37 56 0.43
38 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:21188 original size:123 final size:125
Alignment explanation
Indices: 21039--21266 Score: 374
Period size: 123 Copynumber: 1.8 Consensus size: 125
21029 TGAGACAATT
* *
21039 TCTTTTGGATATAAGTTTTTTCTCTCTTGAAACAGTTTCTCTTGAAACAAA-TTTGTCTTTCTTG
1 TCTTTTGGATATAAGTTTTGTCTCTCTTGAAACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTG
21103 AGACAGTTTCCCATGAAA-AAA-TTTTGGTCTCTCTTGAGAAAATTTCCCTTGTAACAAAA
66 AGACAGTTTCCCATGAAACAAAGTTTT-GTCTCTCTTGAGAAAATTTCCCTTGTAACAAAA
*
21162 TCTTTTGGA-ACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTT
1 TCTTTTGGATA-TAAGTTTTGTCTCTCTTGAAACAGTTTCTCTTGAAACAAATTTTGTCTCTCTT
*
21226 GAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGA
65 GAGACAGTTTCCCATGAAACAAAGTTTTGTCTCTCTTGAGA
21267 CAGTTTCTCT
Statistics
Matches: 97, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
122 1 0.01
123 47 0.48
124 29 0.30
125 16 0.16
126 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (125 bp):
TCTTTTGGATATAAGTTTTGTCTCTCTTGAAACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTG
AGACAGTTTCCCATGAAACAAAGTTTTGTCTCTCTTGAGAAAATTTCCCTTGTAACAAAA
Found at i:21263 original size:37 final size:37
Alignment explanation
Indices: 21174--21283 Score: 204
Period size: 36 Copynumber: 3.0 Consensus size: 37
21164 TTTTGGAACT
21174 AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
*
21211 AA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1 AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
21247 AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
21284 CCAATCTTTG
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
36 35 0.50
37 35 0.50
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (37 bp):
AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
Found at i:21341 original size:67 final size:67
Alignment explanation
Indices: 21224--21351 Score: 195
Period size: 67 Copynumber: 1.9 Consensus size: 67
21214 TTTGTCTCTC
* * * *
21224 TTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCAAT
1 TTGAGACAGTTTCCCTTGAAACAAAATTTTGCCTCCCTTGAGACAATTTCTCTTGAAACACCAAT
21289 CT
66 CT
*
21291 TTGA-ACATGTTTCTCTTGAAACAAAATTTTGCCTCCCTTGAGACAATTTCTCTTGAAACAC
1 TTGAGACA-GTTTCCCTTGAAACAAAATTTTGCCTCCCTTGAGACAATTTCTCTTGAAACAC
21352 AAAACAAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 3 0.05
67 52 0.95
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (67 bp):
TTGAGACAGTTTCCCTTGAAACAAAATTTTGCCTCCCTTGAGACAATTTCTCTTGAAACACCAAT
CT
Found at i:21396 original size:29 final size:30
Alignment explanation
Indices: 21353--21425 Score: 112
Period size: 29 Copynumber: 2.4 Consensus size: 30
21343 TTGAAACACA
*
21353 AAACAAAAACCTTTGAAATTGTTTCTCTTG
1 AAACAAAAACCTTTGAAAATGTTTCTCTTG
*
21383 AAA-AAAAACCTTTGAAAATGTTTCTTTTG
1 AAACAAAAACCTTTGAAAATGTTTCTCTTG
21412 AAACACAAAACCTT
1 AAACA-AAAACCTT
21426 CGAGTTCGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
29 27 0.69
30 4 0.10
31 8 0.21
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.33
Consensus pattern (30 bp):
AAACAAAAACCTTTGAAAATGTTTCTCTTG
Found at i:22113 original size:2 final size:2
Alignment explanation
Indices: 22064--22093 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22054 TTCGCATGTC
22064 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22094 GTTTATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22115 original size:33 final size:33
Alignment explanation
Indices: 22073--22135 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
22063 CATATATATA
* *
22073 TATATATATATATATATATATGTTTATTTAACG
1 TATATATATATATACATATATATTTATTTAACG
*
22106 TATATATATATATACATGTATATTTATTTA
1 TATATATATATATACATATATATTTATTTA
22136 TTATTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (33 bp):
TATATATATATATACATATATATTTATTTAACG
Found at i:23444 original size:10 final size:11
Alignment explanation
Indices: 23419--23444 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23409 TCCTCTAAGT
23419 TTTTTTAATTA
1 TTTTTTAATTA
23430 TTTTTTAATTA
1 TTTTTTAATTA
23441 TTTT
1 TTTT
23445 CCCTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTTAATTA
Found at i:23620 original size:6 final size:5
Alignment explanation
Indices: 23558--23617 Score: 59
Period size: 5 Copynumber: 11.8 Consensus size: 5
23548 TTTAATTAAT
* * * *
23558 TTTTA TTTTA TTTCA TTTTA TTTCA TTTTT TTCGTTT TTTTA -TTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT--TTA TTTTA TTTTA TTTTA
23609 TTTTA TTTT
1 TTTTA TTTT
23618 TATCTATTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.09
5 37 0.80
7 5 0.11
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:23638 original size:41 final size:41
Alignment explanation
Indices: 23559--23639 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
23549 TTAATTAATT
* * *
23559 TTTATTTTATTTCATTTTATTTCATTTTTTTCGTTTTTTTA
1 TTTATTTTATTTCATTTTATCTCATTTTTTACGCTTTTTTA
*
23600 TTTATTTTATTTTATTTTTATCT-ATTCTTTTAC-CTTTTTT
1 TTTATTTTATTTCA-TTTTATCTCATT-TTTTACGCTTTTTT
23640 CCTTTCATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
41 22 0.65
42 12 0.35
ACGTcount: A:0.15, C:0.09, G:0.01, T:0.75
Consensus pattern (41 bp):
TTTATTTTATTTCATTTTATCTCATTTTTTACGCTTTTTTA
Found at i:23670 original size:30 final size:30
Alignment explanation
Indices: 23616--23682 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
23606 TTATTTTATT
* *
23616 TTTATCTATTCTTTTACCTTTTTTCCTTTCA
1 TTTAT-TATTCTTTTACCTTTTTTCATTTAA
*
23647 TTTATTATT-TTTTACGTTTTTTTCATTTAA
1 TTTATTATTCTTTTAC-CTTTTTTCATTTAA
23677 TTTATT
1 TTTATT
23683 TGATATTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 6 0.19
30 21 0.66
31 5 0.16
ACGTcount: A:0.16, C:0.13, G:0.01, T:0.69
Consensus pattern (30 bp):
TTTATTATTCTTTTACCTTTTTTCATTTAA
Found at i:23876 original size:12 final size:13
Alignment explanation
Indices: 23854--23882 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
23844 GAATCGAATG
23854 TTTTAAATTTTAA
1 TTTTAAATTTTAA
23867 TTTT-AATTTTAA
1 TTTTAAATTTTAA
23879 TTTT
1 TTTT
23883 CACAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:25110 original size:9 final size:9
Alignment explanation
Indices: 25087--25115 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
25077 TTCACAAAAT
25087 TTTAATCCA
1 TTTAATCCA
25096 -TTAATCCA
1 TTTAATCCA
25104 TTTAATCCA
1 TTTAATCCA
25113 TTT
1 TTT
25116 TCATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTAATCCA
Found at i:26091 original size:54 final size:54
Alignment explanation
Indices: 26050--26290 Score: 294
Period size: 54 Copynumber: 4.5 Consensus size: 54
26040 TAAACAAATT
* * *
26050 ATGAATTCCGTGAAATGCACACTTATTGCCGAAACGGTTATTCATCCACATAGG
1 ATGAATTCTGTGAAATGCACACTTAGTGTCGAAACGGTTATTCATCCACATAGG
* * * *
26104 ATGAATTCTGTGAAATGCACAGTTAGTGTCGAAATGATTATTCATCCACCTAGG
1 ATGAATTCTGTGAAATGCACACTTAGTGTCGAAACGGTTATTCATCCACATAGG
* * *
26158 ATGAATTCTGTGAAATACACACTTAGTGTCGAAACGGTTATTCATTCACCTAGG
1 ATGAATTCTGTGAAATGCACACTTAGTGTCGAAACGGTTATTCATCCACATAGG
* * * *
26212 AT---TTC-GTGAAATATCACACTT-GTGCCGAAACGATTATTCATCCACCTAGG
1 ATGAATTCTGTGAAAT-GCACACTTAGTGTCGAAACGGTTATTCATCCACATAGG
* *
26262 ATGAATTCCGTGAAATACACACTTAGTGT
1 ATGAATTCTGTGAAATGCACACTTAGTGT
26291 AAAACCCATA
Statistics
Matches: 163, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
50 35 0.21
51 10 0.06
53 10 0.06
54 108 0.66
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (54 bp):
ATGAATTCTGTGAAATGCACACTTAGTGTCGAAACGGTTATTCATCCACATAGG
Found at i:26275 original size:104 final size:106
Alignment explanation
Indices: 26050--26290 Score: 344
Period size: 104 Copynumber: 2.3 Consensus size: 106
26040 TAAACAAATT
* * *
26050 ATGAATTCCGTGAAATGCACACTTATTGCCGAAACGGTTATTCATCCACATAGGATGAATTCTGT
1 ATGAATTCCGTGAAATACACACTTAGTGTCGAAACGGTTATTCATCCACATAGGAT--ATTCTGT
* * *
26115 GAAATGCACAGTTAGTGTCGAAATGATTATTCATCCACCTAGG
64 GAAATGCACACTTAGTGCCGAAACGATTATTCATCCACCTAGG
* * *
26158 ATGAATTCTGTGAAATACACACTTAGTGTCGAAACGGTTATTCATTCACCTAGGAT-TTC-GTGA
1 ATGAATTCCGTGAAATACACACTTAGTGTCGAAACGGTTATTCATCCACATAGGATATTCTGTGA
*
26221 AATATCACACTT-GTGCCGAAACGATTATTCATCCACCTAGG
66 AAT-GCACACTTAGTGCCGAAACGATTATTCATCCACCTAGG
26262 ATGAATTCCGTGAAATACACACTTAGTGT
1 ATGAATTCCGTGAAATACACACTTAGTGT
26291 AAAACCCATA
Statistics
Matches: 121, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
104 62 0.51
105 9 0.07
108 50 0.41
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (106 bp):
ATGAATTCCGTGAAATACACACTTAGTGTCGAAACGGTTATTCATCCACATAGGATATTCTGTGA
AATGCACACTTAGTGCCGAAACGATTATTCATCCACCTAGG
Found at i:27258 original size:29 final size:29
Alignment explanation
Indices: 27209--27269 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
27199 AGTCCATTAT
* * *
27209 TCTTTTACTCAATAGTGTTTAACCTTTCA
1 TCTTTTACTCAACAGTATTTAACCGTTCA
27238 TCTTTTACTCAACAGTATTTAACCGTTCA
1 TCTTTTACTCAACAGTATTTAACCGTTCA
27267 TCT
1 TCT
27270 AACTGGCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.46
Consensus pattern (29 bp):
TCTTTTACTCAACAGTATTTAACCGTTCA
Found at i:27787 original size:124 final size:121
Alignment explanation
Indices: 27563--28126 Score: 592
Period size: 124 Copynumber: 4.7 Consensus size: 121
27553 CAATTATAGC
* * * *
27563 ATTCTTTTAGGTTTATAATGCACCCATATGCATTTCAAC-ATTGGCATCCTGTCATGCCAATAAT
1 ATTCTTTTATGTTGATAATGCACCCATATGCATTTCAGCTA-TGGCATCCTTTCATGCCAATAAT
27627 GCACCCATATGCATTTCAACGTTGGCATCTTGTCATGCCAATAATGCACCCATATGCATT
65 GCACCCATATGCATTTC-AC-TTGGCATCTT-TCATGCCAATAATGCACCCATATGCATT
* *
27687 ATTCTTTTATGTTGATAATTCACCCATATGCATTTCAGCTATGGCATCATTTCATGCCAATAATG
1 ATTCTTTTATGTTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATG
*
27752 CACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATCATGCACCCATATGCATT
66 CACCCATATGCATTTCA-CT-TGGCAT-CTTTCATGCCAATAATGCACCCATATGCATT
* * * *
27811 ATTCTTTTATGCTGAAAATGCACCCATATGCATTTCAGCTATGGCATCCTTCCATTCCAATAATG
1 ATTCTTTTATGTTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATG
***
27876 CACCCATATGCA-TT-A-TT--C-T-TTT-ATGTTGATAATGCACCCATATGCATTT
66 CACCCATATGCATTTCACTTGGCATCTTTCATGCCAATAATGCACCCATATGCA-TT
*** *
27925 CAACTATGGCATTCTTTCATGCCAATAATGTACCCATATGCA-TT-A--T-T--C-T--TTT-AT
1 --A-T-T--C--T-TTT-ATGTTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCAT
***
27979 GTTGATAATGCACCCATATGCATTTCATCTATGGCATCCTTTCATGCCAATAATGCACCCATATG
56 GCCAATAATGCACCCATATGCATTTCA-CT-TGGCAT-CTTTCATGCCAATAATGCACCCATATG
28044 CATT
118 CATT
* *
28048 ATTCTTCTATGTTGATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATG
1 ATTCTTTTATGTTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATG
28113 CACCCATATGCATT
66 CACCCATATGCATT
28127 ATTCTTTTAT
Statistics
Matches: 366, Mismatches: 37, Indels: 74
0.77 0.08 0.16
Matches are distributed among these distances:
113 60 0.16
114 13 0.04
115 3 0.01
116 3 0.01
117 6 0.02
118 3 0.01
119 3 0.01
120 6 0.02
121 3 0.01
122 3 0.01
123 17 0.05
124 242 0.66
125 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (121 bp):
ATTCTTTTATGTTGATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATG
CACCCATATGCATTTCACTTGGCATCTTTCATGCCAATAATGCACCCATATGCATT
Found at i:27831 original size:79 final size:79
Alignment explanation
Indices: 27746--28284 Score: 907
Period size: 79 Copynumber: 6.8 Consensus size: 79
27736 TTTCATGCCA
*
27746 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATCATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
27811 ATTCTTTTATGCTG
66 ATTCTTTTATGCTG
* * *
27825 AAAATGCACCCATATGCATTTCAGCTATGGCATCCTTCCATTCCAATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
*
27890 ATTCTTTTATGTTG
66 ATTCTTTTATGCTG
* * *
27904 ATAATGCACCCATATGCATTTCAACTATGGCATTCTTTCATGCCAATAATGTACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
*
27969 ATTCTTTTATGTTG
66 ATTCTTTTATGCTG
*
27983 ATAATGCACCCATATGCATTTCATCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
* *
28048 ATTCTTCTATGTTG
66 ATTCTTTTATGCTG
*
28062 ATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
28127 ATTCTTTTATGCTG
66 ATTCTTTTATGCTG
* * * * *
28141 ATAATGCACCCATATGCATTTCAGCTATGACATCCATTCATGACAATAATACACCTATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
*
28206 ATTCTTTTATGCTA
66 ATTCTTTTATGCTG
28220 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
28285 TCAGCTATGG
Statistics
Matches: 431, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 431 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (79 bp):
ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATT
ATTCTTTTATGCTG
Found at i:28299 original size:124 final size:124
Alignment explanation
Indices: 28141--28408 Score: 412
Period size: 124 Copynumber: 2.2 Consensus size: 124
28131 TTTTATGCTG
*
28141 ATAATGCACCCATATGCATTTCAGCTATGACATCCATTCATGAC-AATAATACACCTATATGCAT
1 ATAATGCACCCATATGCATTTCAGCTATGACATCCATTCAT-ACAAATAATACACCCATATGCAT
* * * * *
28205 TATTCTTTTATGCTAATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCCA
65 TATTCTTTTATACTAATAATGCACCCAAAAGCATTTCAACTATGACATCCTTTCATGCCA
* * *
28265 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATACAAATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGACATCCATTCATACAAATAATACACCCATATGCATT
* * *
28330 ATTCTTTTATATTGATAATGCACCCAAAAGCATTTCAACTATGACATCCTTTTATGCCA
66 ATTCTTTTATACTAATAATGCACCCAAAAGCATTTCAACTATGACATCCTTTCATGCCA
28389 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
28409 ATTCTTTTAT
Statistics
Matches: 131, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
123 2 0.02
124 129 0.98
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.34
Consensus pattern (124 bp):
ATAATGCACCCATATGCATTTCAGCTATGACATCCATTCATACAAATAATACACCCATATGCATT
ATTCTTTTATACTAATAATGCACCCAAAAGCATTTCAACTATGACATCCTTTCATGCCA
Found at i:28301 original size:203 final size:203
Alignment explanation
Indices: 28062--28431 Score: 614
Period size: 203 Copynumber: 1.8 Consensus size: 203
28052 TTCTATGTTG
* *
28062 ATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATGCCAATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATACAAATAATGCACCCATATGCATT
* * * *
28127 ATTCTTTTATGCTGATAATGCACCCATATGCATTTCAGCTATGACATCCATTCATGACAATAATA
66 ATTCTTTTATACTGATAATGCACCCAAAAGCATTTCAACTATGACATCCATTCATGACAATAATA
*
28192 CACCTATATGCATTATTCTTTTATGCTAATAATGCACCCATATGCATTTCAGCTATGGCATCCTT
131 CACCCATATGCATTATTCTTTTATGCTAATAATGCACCCATATGCATTTCAGCTATGGCATCCTT
28257 TCATGCCA
196 TCATGCCA
*
28265 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATACAAATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATACAAATAATGCACCCATATGCATT
* * * * *
28330 ATTCTTTTATATTGATAATGCACCCAAAAGCATTTCAACTATGACATCCTTTTATGCCAATAATG
66 ATTCTTTTATACTGATAATGCACCCAAAAGCATTTCAACTATGACATCCATTCATGACAATAATA
*
28395 CACCCATATGCATTATTCTTTTATGCTGATAATGCAC
131 CACCCATATGCATTATTCTTTTATGCTAATAATGCAC
28432 ACACAGTTCC
Statistics
Matches: 153, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
203 153 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.35
Consensus pattern (203 bp):
ATAATGCACCCATATGCATTTCAGCTATGACATCCTTTCATACAAATAATGCACCCATATGCATT
ATTCTTTTATACTGATAATGCACCCAAAAGCATTTCAACTATGACATCCATTCATGACAATAATA
CACCCATATGCATTATTCTTTTATGCTAATAATGCACCCATATGCATTTCAGCTATGGCATCCTT
TCATGCCA
Found at i:28396 original size:79 final size:79
Alignment explanation
Indices: 28265--28431 Score: 253
Period size: 79 Copynumber: 2.1 Consensus size: 79
28255 TTTCATGCCA
* * * *
28265 ATAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATACAAATAATGCACCCATATGCATT
1 ATAATGCACCCAAAAGCATTTCAACTATGACATCCTTTCATACAAATAATGCACCCATATGCATT
*
28330 ATTCTTTTATATTG
66 ATTCTTTTATACTG
* * *
28344 ATAATGCACCCAAAAGCATTTCAACTATGACATCCTTTTATGCCAATAATGCACCCATATGCATT
1 ATAATGCACCCAAAAGCATTTCAACTATGACATCCTTTCATACAAATAATGCACCCATATGCATT
*
28409 ATTCTTTTATGCTG
66 ATTCTTTTATACTG
28423 ATAATGCAC
1 ATAATGCAC
28432 ACACAGTTCC
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (79 bp):
ATAATGCACCCAAAAGCATTTCAACTATGACATCCTTTCATACAAATAATGCACCCATATGCATT
ATTCTTTTATACTG
Found at i:28900 original size:20 final size:21
Alignment explanation
Indices: 28872--28925 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
28862 TAGTTCTTTA
28872 GTATTGATACCCT-TACCATG
1 GTATTGATACCCTATACCATG
* * *
28892 GTATCGATACTACTATACTATG
1 GTATTGATAC-CCTATACCATG
28914 GTATTGATACCC
1 GTATTGATACCC
28926 CCTTCCGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 9 0.33
21 3 0.11
22 15 0.56
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (21 bp):
GTATTGATACCCTATACCATG
Found at i:29918 original size:54 final size:54
Alignment explanation
Indices: 29821--30153 Score: 454
Period size: 54 Copynumber: 6.2 Consensus size: 54
29811 TTGGAGTATT
* * *
29821 ACACTTAGTGTCGAAACGGTTATTCATCCACATAGAATGAATTCCGTGAAATGC
1 ACACTTAGTGTCGAAACGATTATTCATCCACCTAGGATGAATTCCGTGAAATGC
* * * * *
29875 ACAATCAGTGTTGAAA-TAGTTATTCATCCACCTAGGATAAATTCCGTGAAATGC
1 ACACTTAGTGTCGAAACGA-TTATTCATCCACCTAGGATGAATTCCGTGAAATGC
* * *
29929 AAACTTAGTGTCGAAACG-GTATTCATCCACATAGGATGAATTCCGTGAAATGC
1 ACACTTAGTGTCGAAACGATTATTCATCCACCTAGGATGAATTCCGTGAAATGC
* * * * *
29982 ACACTTAGTTTTGAAATGATTATTCATCCACCTAGGATGAATTCCATGAAATTC
1 ACACTTAGTGTCGAAACGATTATTCATCCACCTAGGATGAATTCCGTGAAATGC
* * *
30036 ACACTTAGTGACGAAAGGTTTATTCATCCACCTAGGATGAATTCCGTGAAATGC
1 ACACTTAGTGTCGAAACGATTATTCATCCACCTAGGATGAATTCCGTGAAATGC
*
30090 ACACTTAATGTCGAAACGATTATTCATCCACCTAGGATGAATTCCGTGAAATGC
1 ACACTTAGTGTCGAAACGATTATTCATCCACCTAGGATGAATTCCGTGAAATGC
*
30144 ACAGTTAGTG
1 ACACTTAGTG
30154 CCTATTTGGT
Statistics
Matches: 239, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
53 46 0.19
54 193 0.81
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (54 bp):
ACACTTAGTGTCGAAACGATTATTCATCCACCTAGGATGAATTCCGTGAAATGC
Found at i:30086 original size:161 final size:162
Alignment explanation
Indices: 29821--30153 Score: 472
Period size: 161 Copynumber: 2.1 Consensus size: 162
29811 TTGGAGTATT
* * *
29821 ACACTTAGTGTCGAAACGGTTATTCATCCACATAGAATGAATTCCGTGAAATGCACAATCAGTGT
1 ACACTTAGTGTCGAAACGATTATTCATCCACATAGAATGAATTCCATGAAATGCACAATCAGTGA
* *
29886 TGAAATAGTTATTCATCCACCTAGGATAAATTCCGTGAAATGCAAACTTAGTGTCGAAACG-GTA
66 CGAAATAGTTATTCATCCACCTAGGATAAATTCCGTGAAATGCAAACTTAATGTCGAAACGAGTA
29950 TTCATCCACATAGGATGAATTCCGTGAAATGC
131 TTCATCCACATAGGATGAATTCCGTGAAATGC
* * * * * * * *
29982 ACACTTAGTTTTGAAATGATTATTCATCCACCTAGGATGAATTCCATGAAATTCACACTTAGTGA
1 ACACTTAGTGTCGAAACGATTATTCATCCACATAGAATGAATTCCATGAAATGCACAATCAGTGA
* * * *
30047 CGAAA-GGTTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACACTTAATGTCGAAACGATT
66 CGAAATAG-TTATTCATCCACCTAGGATAAATTCCGTGAAATGCAAACTTAATGTCGAAACGAGT
*
30111 ATTCATCCACCTAGGATGAATTCCGTGAAATGC
130 ATTCATCCACATAGGATGAATTCCGTGAAATGC
*
30144 ACAGTTAGTG
1 ACACTTAGTG
30154 CCTATTTGGT
Statistics
Matches: 150, Mismatches: 20, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
160 1 0.01
161 108 0.72
162 41 0.27
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (162 bp):
ACACTTAGTGTCGAAACGATTATTCATCCACATAGAATGAATTCCATGAAATGCACAATCAGTGA
CGAAATAGTTATTCATCCACCTAGGATAAATTCCGTGAAATGCAAACTTAATGTCGAAACGAGTA
TTCATCCACATAGGATGAATTCCGTGAAATGC
Found at i:30508 original size:20 final size:21
Alignment explanation
Indices: 30480--30524 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
30470 TGGTTCCTCA
*
30480 GTATTGATAC-CCATACCATG
1 GTATCGATACACCATACCATG
*
30500 GTATCGATACTACCATACTATG
1 GTATCGATAC-ACCATACCATG
30522 GTA
1 GTA
30525 CTGATATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (21 bp):
GTATCGATACACCATACCATG
Found at i:30603 original size:20 final size:21
Alignment explanation
Indices: 30578--30626 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
30568 TTTGAATGGA
*
30578 ATCGATACCT-TCCCTTCGGT
1 ATCGATACCTCCCCCTTCGGT
30598 ATCGATA-CTCCCCCTTCGGT
1 ATCGATACCTCCCCCTTCGGT
30618 ATCGATACC
1 ATCGATACC
30627 GATTGAATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 23 0.88
21 1 0.04
ACGTcount: A:0.18, C:0.37, G:0.14, T:0.31
Consensus pattern (21 bp):
ATCGATACCTCCCCCTTCGGT
Found at i:36991 original size:161 final size:162
Alignment explanation
Indices: 36638--37151 Score: 773
Period size: 161 Copynumber: 3.2 Consensus size: 162
36628 ATAAAAAATT
* * * *
36638 ATGAATTAT-GTGAAATGCACACTTAGTGCTGAAACGGTTATTCATCCACATAGGATGAATTCCA
1 ATGAATT-TCGTGAAATGCACACTTAGTGCCGAAACAGTTATTCATCCACCTAGGATGAATTCCG
* *
36702 TGAAATCCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGGATGAATTCTGTGAAATGCACA
65 TGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACA
* *
36767 CTTAGTGCTGAAACGGTTATTCATCCACCTATG
130 CTTAGTGCCGAAACGGTTATTCATCCACCTAGG
* * *
36800 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAGCAGTTATTCATCCACCTAGGATGAATTCTGT
1 ATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAGTTATTCATCCACCTAGGATGAATTCCGT
*
36865 GAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCT-GGATGAATTCCGTGAAATGCACAT
66 GAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACAC
*** *
36929 TTAGTGCCGAAACAACTATTCATCCACATAGG
131 TTAGTGCCGAAACGGTTATTCATCCACCTAGG
* **
36961 GTGAATTTCGTGAAATGCACACCCAGTGCCGAAACAGTTATTCATCCACCTAGGATGAATTCCGT
1 ATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAGTTATTCATCCACCTAGGATGAATTCCGT
* *
37026 GAAATGCACACTTAGTGCTGAAACGGTTATTCAT-CACCTAGGATGAATTTCGTGAAATGCACAC
66 GAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACAC
* *
37090 TTAGTGCCTAAACGGTTATTCATCAACCTAGG
131 TTAGTGCCGAAACGGTTATTCATCCACCTAGG
**
37122 ATGAATTAAGTGAAATGCACACTTAGTGCC
1 ATGAATTTCGTGAAATGCACACTTAGTGCC
37152 TATTTGGTAA
Statistics
Matches: 314, Mismatches: 36, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
160 5 0.02
161 213 0.68
162 96 0.31
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (162 bp):
ATGAATTTCGTGAAATGCACACTTAGTGCCGAAACAGTTATTCATCCACCTAGGATGAATTCCGT
GAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGGATGAATTCCGTGAAATGCACAC
TTAGTGCCGAAACGGTTATTCATCCACCTAGG
Found at i:37153 original size:54 final size:54
Alignment explanation
Indices: 36638--37151 Score: 762
Period size: 54 Copynumber: 9.6 Consensus size: 54
36628 ATAAAAAATT
** * *
36638 ATGAATTATGTGAAATGCACACTTAGTGCTGAAACGGTTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGG
* *
36692 ATGAATTCCATGAAATCCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGG
* * *
36746 ATGAATTCTGTGAAATGCACACTTAGTGCTGAAACGGTTATTCATCCACCTATG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGG
* *
36800 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAGCAGTTATTCATCCACCTAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGG
*
36854 ATGAATTCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCT-GG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGG
* *** *
36907 ATGAATTCCGTGAAATGCACATTTAGTGCCGAAACAACTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGG
* * ** *
36961 GTGAATTTCGTGAAATGCACACCCAGTGCCGAAACAGTTATTCATCCACCTAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGG
*
37015 ATGAATTCCGTGAAATGCACACTTAGTGCTGAAACGGTTATTCAT-CACCTAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGG
* * *
37068 ATGAATTTCGTGAAATGCACACTTAGTGCCTAAACGGTTATTCATCAACCTAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGG
**
37122 ATGAATTAAGTGAAATGCACACTTAGTGCC
1 ATGAATTCCGTGAAATGCACACTTAGTGCC
37152 TATTTGGTAA
Statistics
Matches: 413, Mismatches: 45, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
53 97 0.23
54 316 0.77
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (54 bp):
ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACCTAGG
Found at i:39109 original size:21 final size:20
Alignment explanation
Indices: 39023--39180 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
39013 AAATGACCAA
**
39023 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
39042 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
39062 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
39082 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
39103 GAAAATCACAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
39124 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
39144 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
39165 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
39181 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 41 0.40
21 45 0.44
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:39209 original size:20 final size:20
Alignment explanation
Indices: 39147--39340 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
39137 CGATTTTCCA
* ** *
39147 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
39167 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
39187 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
39207 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
39227 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
39247 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
39267 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
39287 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
39307 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
*
39328 AAATTGCAACGCG
1 AAATCGCAACGCG
39341 ATATTTAAAG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 125 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:39231 original size:60 final size:60
Alignment explanation
Indices: 39147--39340 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
39137 CGATTTTCCA
* ** * *
39147 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
39207 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
39267 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
*
39328 AAATTGCAACGCG
1 AAATCGCAACGCG
39341 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 22, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 81 0.73
61 30 0.27
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:39760 original size:33 final size:33
Alignment explanation
Indices: 39721--39791 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
39711 TTCACTTAGA
*
39721 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* * *
39754 TTTCATTTCGCGTTGCTATTCTCTCGTTGTGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
39787 TTTCA
1 TTTCA
39792 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.21, G:0.18, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:39897 original size:21 final size:20
Alignment explanation
Indices: 39871--39976 Score: 91
Period size: 21 Copynumber: 5.5 Consensus size: 20
39861 TGCAGAAGAG
39871 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
39892 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
*
39912 TCGCAACGAGAGAAATAAAAA
1 TCGCAACGAGA-AAATGAAAA
39933 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
39947 TCGCAACGTG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
39966 TCGCAACGAGA
1 TCGCAACGAGA
39977 GAATCGCAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
14 11 0.17
16 1 0.02
17 2 0.03
19 11 0.17
20 16 0.24
21 25 0.38
ACGTcount: A:0.46, C:0.18, G:0.24, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:39933 original size:41 final size:41
Alignment explanation
Indices: 39870--39947 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
39860 TTGCAGAAGA
* *
39870 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATAAAAATCGCAACGAGAGAATGACT
39911 GTCGCAACGAGAGAAATAAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATAAAAATCGCAACGAGAGAAT
39948 CGCAACGTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATAAAAATCGCAACGAGAGAATGACT
Found at i:39950 original size:14 final size:14
Alignment explanation
Indices: 39931--39987 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
39921 GAGAAATAAA
39931 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
39945 AATCGCAACGTGAAATGAA
1 AATCGCAAC--G--A-GAG
39964 AATCGCAACGAGAG
1 AATCGCAACGAGAG
39978 AATCGCAACG
1 AATCGCAACG
39988 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 21 0.58
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.31
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:39966 original size:33 final size:33
Alignment explanation
Indices: 39923--39992 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
39913 CGCAACGAGA
*
39923 GAAATAAAAATCGCAACGAGAGAATCGCAACGT
1 GAAATAAAAATCGCAACGAGAGAATCGCAACGC
*
39956 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATAAAAATCGCAACGAGAGAATCGCAACGC
39989 GAAA
1 GAAA
39993 CCAAAATTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATAAAAATCGCAACGAGAGAATCGCAACGC
Found at i:40026 original size:19 final size:19
Alignment explanation
Indices: 40004--40096 Score: 89
Period size: 19 Copynumber: 5.4 Consensus size: 19
39994 CAAAATTGCA
40004 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
40023 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
40037 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
40056 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
*
40070 TTGCGATTGTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
40089 TTGCGATT
1 TTGCGATT
40097 CTCTCGTTGC
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 20 0.34
16 5 0.08
17 6 0.10
19 28 0.47
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:40040 original size:14 final size:14
Alignment explanation
Indices: 40021--40107 Score: 66
Period size: 14 Copynumber: 5.5 Consensus size: 14
40011 TTTCATTTCG
40021 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
40035 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
40054 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
40068 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
40087 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
40101 CGTTGCG
1 CGTTGCG
40108 GTTTTCATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 27 0.46
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.34
ACGTcount: A:0.08, C:0.25, G:0.24, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:40046 original size:33 final size:33
Alignment explanation
Indices: 40004--40118 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
39994 CAAAATTGCA
40004 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
40037 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
40070 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
40103 TTGCGGTTTTCATTTC
1 TTGCGATTTTCATTTC
40119 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.09, C:0.23, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:41976 original size:93 final size:93
Alignment explanation
Indices: 41817--42378 Score: 1099
Period size: 93 Copynumber: 6.1 Consensus size: 93
41807 TAGATTGCTT
*
41817 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
41882 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
41910 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
41975 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42003 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
42068 TTTTTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42096 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42161 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42189 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42254 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42282 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
42347 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
42374 AGTAA
1 AGTAA
42379 TGCAATCCAT
Statistics
Matches: 466, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.01
93 460 0.99
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:42466 original size:19 final size:19
Alignment explanation
Indices: 42426--42554 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
42416 TAGTTTACTT
* *
42426 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
42446 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
42465 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
42484 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
42498 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
42517 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
42531 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
42550 TCGCA
1 TCGCA
42555 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:42505 original size:33 final size:32
Alignment explanation
Indices: 42462--42554 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
42452 CGCGAAACCA
**
42462 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
42494 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
42527 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
42555 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:42552 original size:52 final size:52
Alignment explanation
Indices: 42426--42554 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
42416 TAGTTTACTT
**
42426 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
42478 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
42531 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
42555 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:42572 original size:19 final size:19
Alignment explanation
Indices: 42550--42684 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
42540 GAAACCAAAA
*
42550 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
42569 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
42585 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
42602 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
42618 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
42635 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
42654 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
42674 TCGTGTTGCGA
1 TCGCGTTGCGA
42685 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:42591 original size:14 final size:14
Alignment explanation
Indices: 42572--42628 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
42562 TTTCATTTCG
42572 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
42586 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
42603 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
42619 CGTTGCGATT
1 CGTTGCGATT
42629 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:42597 original size:33 final size:33
Alignment explanation
Indices: 42555--42647 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
42545 CAAAATCGCA
*
42555 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
42588 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
42621 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
42648 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:43162 original size:21 final size:21
Alignment explanation
Indices: 43138--43204 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
43128 TCATTCCTCG
43138 AGAGTCCCCTCCCACCATTCA
1 AGAGTCCCCTCCCACCATTCA
* * ** * *
43159 AGAGGCCACTGTCATCATTGA
1 AGAGTCCCCTCCCACCATTCA
43180 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCATTCA
43201 AGAG
1 AGAG
43205 CCCGATTCAC
Statistics
Matches: 33, Mismatches: 12, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.27, C:0.36, G:0.18, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCATTCA
Found at i:44626 original size:14 final size:14
Alignment explanation
Indices: 44607--44642 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
44597 ATTGTTTAAT
44607 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
44621 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
44635 TGATTTGT
1 TGATTTGT
44643 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:44765 original size:19 final size:19
Alignment explanation
Indices: 44749--44846 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
44739 AAAAATGACT
44749 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
44768 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
44787 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
44801 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
44820 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
44840 ATCGCAA
1 ATCGCAA
44847 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 37 0.54
20 16 0.23
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:44878 original size:53 final size:53
Alignment explanation
Indices: 44749--44864 Score: 216
Period size: 53 Copynumber: 2.2 Consensus size: 53
44739 AAAAATGACT
*
44749 ATCGCAATGCGAAATGAAAATCGTAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
44801 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
44854 ATCGCAATGCG
1 ATCGCAATGCG
44865 TTTATAATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 28 0.45
53 34 0.55
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:44908 original size:33 final size:33
Alignment explanation
Indices: 44871--45023 Score: 159
Period size: 33 Copynumber: 4.5 Consensus size: 33
44861 TGCGTTTATA
44871 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
44904 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
44944 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
44975 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
45008 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
45024 TTCATTTCGC
Statistics
Matches: 97, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
31 9 0.09
32 5 0.05
33 52 0.54
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:44917 original size:19 final size:19
Alignment explanation
Indices: 44893--45109 Score: 249
Period size: 19 Copynumber: 12.4 Consensus size: 19
44883 GATTCTCTCG
44893 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
44912 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
44931 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
44945 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
44964 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
44983 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
44997 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
45016 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
45035 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
45049 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
45069 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
45083 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
45102 TTGCGATT
1 TTGCGATT
45110 CTCTCGTTGC
Statistics
Matches: 169, Mismatches: 8, Indels: 42
0.77 0.04 0.19
Matches are distributed among these distances:
14 29 0.17
16 23 0.14
17 20 0.12
18 3 0.02
19 82 0.49
20 12 0.07
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:44928 original size:52 final size:52
Alignment explanation
Indices: 44871--45081 Score: 413
Period size: 52 Copynumber: 4.0 Consensus size: 52
44861 TGCGTTTATA
44871 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
44923 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
44975 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
45027 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
45080 AT
1 AT
45082 GTTGGGATTT
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 141 0.89
53 17 0.11
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:45131 original size:33 final size:33
Alignment explanation
Indices: 44912--45123 Score: 234
Period size: 33 Copynumber: 6.2 Consensus size: 33
44902 TCATTTCGCA
44912 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
44945 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
44981 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
45016 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
45049 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
45083 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
45116 TTGCGATT
1 TTGCGATT
45124 GTAATTTCCG
Statistics
Matches: 149, Mismatches: 16, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
31 9 0.06
32 6 0.04
33 73 0.49
34 29 0.19
35 6 0.04
36 4 0.03
37 2 0.01
38 8 0.05
39 3 0.02
40 9 0.06
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:47637 original size:24 final size:24
Alignment explanation
Indices: 47603--47649 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
47593 CTGAAACATC
47603 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
47627 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
47650 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:48358 original size:20 final size:20
Alignment explanation
Indices: 48330--48539 Score: 224
Period size: 20 Copynumber: 10.5 Consensus size: 20
48320 AAATTTCAGT
* * *
48330 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
48350 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
48370 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
48390 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
48410 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
** *
48430 GTTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
48450 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
48470 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
48490 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
48510 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
48530 GTTGCGATTT
1 GTTGCGATTT
48540 TGGAAAATCG
Statistics
Matches: 166, Mismatches: 22, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
20 165 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:48556 original size:21 final size:21
Alignment explanation
Indices: 48526--48608 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
48516 ATTTTCATAT
*
48526 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
48547 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
48568 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
48589 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
48609 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:48599 original size:42 final size:43
Alignment explanation
Indices: 48506--48604 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
48496 ATTTATGTGT
* *
48506 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
48547 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
48589 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
48605 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:53559 original size:30 final size:31
Alignment explanation
Indices: 53499--53565 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
53489 TCAAAAAACA
* * *
53499 TAAGATATGATCATTTTCATTTTTATTTAAT
1 TAAGATATGATCACTTTCAGTTTAATTTAAT
53530 TAAGATATGATCACTTTC-GTTTAATTTAAT
1 TAAGATATGATCACTTTCAGTTTAATTTAAT
53560 TAAGAT
1 TAAGAT
53566 GTGTTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 16 0.48
31 17 0.52
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.49
Consensus pattern (31 bp):
TAAGATATGATCACTTTCAGTTTAATTTAAT
Found at i:53757 original size:23 final size:24
Alignment explanation
Indices: 53727--53796 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
53717 ATGAAAATAA
53727 AAATAATATATTTTTAATTAAGTT
1 AAATAATATATTTTTAATTAAGTT
* *
53751 -AATAATAAAATATTTAA-TAAGTT
1 AAATAAT-ATATTTTTAATTAAGTT
*
53774 AATATAAAATATTTTTAAGTTAA
1 AA-ATAATATATTTTTAA-TTAA
53797 TATATGTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
23 12 0.33
24 17 0.47
25 4 0.11
26 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
AAATAATATATTTTTAATTAAGTT
Found at i:53757 original size:26 final size:26
Alignment explanation
Indices: 53705--53796 Score: 84
Period size: 26 Copynumber: 3.6 Consensus size: 26
53695 AACATAAAAT
* ** *
53705 ATATATTTTTAAATGAAAATAAAAATA
1 ATATATTTTT-AATTAAGTTAATAATA
53732 ATATATTTTTAATTAAGTTAATAATA
1 ATATATTTTTAATTAAGTTAATAATA
*
53758 A-A-ATATTTAA-TAAGTTAAT-ATA
1 ATATATTTTTAATTAAGTTAATAATA
*
53780 AAATATTTTTAAGTTAA
1 ATATATTTTTAA-TTAA
53797 TATATGTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
22 4 0.07
23 10 0.18
24 14 0.25
25 1 0.02
26 16 0.29
27 10 0.18
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (26 bp):
ATATATTTTTAATTAAGTTAATAATA
Found at i:57159 original size:2 final size:2
Alignment explanation
Indices: 57152--57176 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57142 TGGAACAAAC
57152 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
57177 TCACTTGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60074 original size:22 final size:21
Alignment explanation
Indices: 60030--60072 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 21
60020 TGTCGGTGAG
60030 ATTAATATTACAAAACAAAAAT
1 ATTAATATTACAAAAC-AAAAT
60052 ATTAATATTATCAATAACAAA
1 ATTAATATTA-CAA-AACAAA
60073 TAATGTATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 6 0.32
24 3 0.16
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (21 bp):
ATTAATATTACAAAACAAAAT
Found at i:60095 original size:34 final size:35
Alignment explanation
Indices: 60048--60115 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
60038 TACAAAACAA
*
60048 AAATATTAATATTATCAATAACAAATAAT-GTATC
1 AAATATTAATATTAACAATAACAAATAATCGTATC
*
60082 AAATATTATTATTAACAATAACAAATAATCGTAT
1 AAATATTAATATTAACAATAACAAATAATCGTAT
60116 TAACACGAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 27 0.87
35 4 0.13
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (35 bp):
AAATATTAATATTAACAATAACAAATAATCGTATC
Found at i:62668 original size:28 final size:28
Alignment explanation
Indices: 62628--62686 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
62618 ACCAATAAAA
* *
62628 ACAAACGTTAATAAAAAGCCACATATTC
1 ACAAACATTAATAAAAAGCCACAGATTC
62656 ACAAACATTAATAAAAAGCCACAGATTC
1 ACAAACATTAATAAAAAGCCACAGATTC
62684 ACA
1 ACA
62687 TGCTACGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.53, C:0.22, G:0.07, T:0.19
Consensus pattern (28 bp):
ACAAACATTAATAAAAAGCCACAGATTC
Found at i:64690 original size:2 final size:2
Alignment explanation
Indices: 64683--64724 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
64673 TGATTTAATA
64683 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64724 A
1 A
64725 CTTGACCTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64779 original size:3 final size:3
Alignment explanation
Indices: 64771--64832 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
64761 TGTTTTCTTG
64771 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
64819 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
64833 GACTTAATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:70726 original size:19 final size:20
Alignment explanation
Indices: 70702--70741 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
70692 TAGGTACTAT
70702 TTAATTGAAAA-AATAA-AAA
1 TTAATT-AAAATAATAATAAA
70721 TTAATTAAAATAATAATAAA
1 TTAATTAAAATAATAATAAA
70741 T
1 T
70742 ATTTGTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 11 0.58
20 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TTAATTAAAATAATAATAAA
Found at i:71604 original size:60 final size:60
Alignment explanation
Indices: 71531--71673 Score: 166
Period size: 60 Copynumber: 2.4 Consensus size: 60
71521 AAGGGTAAGA
* *
71531 TACACAAATGATCATCCGACTATA-AGATGTTATTTTATTAAG-CCCTTCGACTATTAAAAGT
1 TACA-AAATGATCATCCGACTATATA-ATGTTACTTTATTAAGTCCC-TCAACTATTAAAAGT
* * * *
71592 TATAAAATGATCATTCGACTATATAATGTTACTTTGTTAAGTCCCTCAACTATTAAGAGT
1 TACAAAATGATCATCCGACTATATAATGTTACTTTATTAAGTCCCTCAACTATTAAAAGT
*
71652 TACAAAATGGTCA-CCTGACTAT
1 TACAAAATGATCATCC-GACTAT
71674 TCATTATGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
59 1 0.01
60 62 0.89
61 7 0.10
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (60 bp):
TACAAAATGATCATCCGACTATATAATGTTACTTTATTAAGTCCCTCAACTATTAAAAGT
Found at i:71948 original size:60 final size:60
Alignment explanation
Indices: 71883--72016 Score: 173
Period size: 60 Copynumber: 2.2 Consensus size: 60
71873 GTCGGGTGAC
* * * *
71883 CATTTTGTAACTTTTAATAGTTGATGGACTCAACAAAGCAACACTCTATAGTCATA-GGAT
1 CATTTTGTAACTTTTAATAGTCGAGGGACTAAACAAAGCAACACCCTATAGTCA-AGGGAT
* **
71943 CATTTTATAACTTTTAATAGTCGAGGGACTAAACAAAGCAGTACCCTATAGTCAAGGGAT
1 CATTTTGTAACTTTTAATAGTCGAGGGACTAAACAAAGCAACACCCTATAGTCAAGGGAT
72003 CATTTGTGT-ACTTT
1 CATTT-TGTAACTTT
72017 ATCTTCAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 1 0.02
60 61 0.95
61 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (60 bp):
CATTTTGTAACTTTTAATAGTCGAGGGACTAAACAAAGCAACACCCTATAGTCAAGGGAT
Found at i:74983 original size:11 final size:11
Alignment explanation
Indices: 74967--74995 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
74957 TGTTAGTATC
74967 ATACTAACATA
1 ATACTAACATA
74978 ATACTAACATA
1 ATACTAACATA
74989 AT-CTAAC
1 ATACTAAC
74996 TTTAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (11 bp):
ATACTAACATA
Found at i:75340 original size:20 final size:20
Alignment explanation
Indices: 75315--75390 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
75305 TCCAGATTCC
*
75315 CAACGCGATTTTGACTATCG
1 CAACGCGATTCTGACTATCG
** * *
75335 CAACGCGATAAT-ACAAAATTG
1 CAACGCGATTCTGAC--TATCG
75356 CAACGCGATTCTGACTATCG
1 CAACGCGATTCTGACTATCG
75376 CAACGCGATTCTGAC
1 CAACGCGATTCTGAC
75391 AAAATCGTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 2 0.04
20 28 0.62
21 13 0.29
22 2 0.04
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
CAACGCGATTCTGACTATCG
Found at i:75406 original size:42 final size:41
Alignment explanation
Indices: 75315--75407 Score: 123
Period size: 41 Copynumber: 2.2 Consensus size: 41
75305 TCCAGATTCC
* *
75315 CAACGCGATTTTGACTATCGCAACGCGATAATACAAAATTG
1 CAACGCGATTCTGACTATCGCAACGCGATAATACAAAATCG
**
75356 CAACGCGATTCTGACTATCGCAACGCGATTCTGACAAAATCG
1 CAACGCGATTCTGACTATCGCAACGCGATAAT-ACAAAATCG
* *
75398 TAATGCGATT
1 CAACGCGATT
75408 TTCAAAGCGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
41 29 0.64
42 16 0.36
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (41 bp):
CAACGCGATTCTGACTATCGCAACGCGATAATACAAAATCG
Found at i:76004 original size:20 final size:20
Alignment explanation
Indices: 75979--76016 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
75969 AATCGCAAGT
*
75979 TTCGCATTGCGATAGTCAAA
1 TTCGCATTACGATAGTCAAA
75999 TTCGCATTACGATAGTCA
1 TTCGCATTACGATAGTCA
76017 TTTTCGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (20 bp):
TTCGCATTACGATAGTCAAA
Found at i:76022 original size:20 final size:20
Alignment explanation
Indices: 75978--76022 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
75968 AAATCGCAAG
*
75978 TTTCGCATTGCGATAGTCAA
1 TTTCGCATTACGATAGTCAA
* *
75998 ATTCGCATTACGATAGTCAT
1 TTTCGCATTACGATAGTCAA
76018 TTTCG
1 TTTCG
76023 TGTTGCGATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (20 bp):
TTTCGCATTACGATAGTCAA
Found at i:76031 original size:20 final size:20
Alignment explanation
Indices: 75985--76051 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
75975 AAGTTTCGCA
** **
75985 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGTG
*
76005 TTACGATAGTCATTTTCGTG
1 TTGCGATAGTCATTTTCGTG
**
76025 TTGCGATTTTCATTTTCGTG
1 TTGCGATAGTCATTTTCGTG
76045 TTGCGAT
1 TTGCGAT
76052 TTTAAGTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGTG
Found at i:76052 original size:20 final size:20
Alignment explanation
Indices: 76014--76054 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
76004 ATTACGATAG
76014 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
76034 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
76054 T
1 T
76055 AAGTTTCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.56
Consensus pattern (20 bp):
TCATTTTCGTGTTGCGATTT
Found at i:76061 original size:20 final size:20
Alignment explanation
Indices: 76018--76061 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
76008 CGATAGTCAT
* *
76018 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
76038 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
76058 TTTC
1 TTTC
76062 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:78114 original size:20 final size:20
Alignment explanation
Indices: 78089--78155 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
78079 GATTATCCCA
*
78089 TTGCGATAGTCAAATTCGCG
1 TTGCGATAGTCAATTTCGCG
78109 TTGCGATAGTC-ATTTCCGCG
1 TTGCGATAGTCAATTT-CGCG
*
78129 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAATTTCGCG
78149 TTGCGAT
1 TTGCGAT
78156 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.07
20 37 0.86
21 3 0.07
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAATTTCGCG
Found at i:78165 original size:20 final size:20
Alignment explanation
Indices: 78142--78185 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
78132 CGATAGTCAT
78142 TTTCGCGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
*
78162 TTTCGTGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTTAAG
78182 TTTC
1 TTTC
78186 AGAAACTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTAAG
Found at i:78753 original size:21 final size:21
Alignment explanation
Indices: 78657--78780 Score: 79
Period size: 21 Copynumber: 5.9 Consensus size: 21
78647 GCCTGACTCA
78657 CCTGTCATCATTCAAGAGGCC
1 CCTGTCATCATTCAAGAGGCC
* *
78678 TCT-ACTATCATTCAAGAGGCC
1 CCTGTC-ATCATTCAAGAGGCC
* ** *
78699 CCTATCATCCCTCAAGAGTCCC
1 CCTGTCATCATTCAAGAG-GCC
** * *
78721 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCATTCAAGAGGCC
* * *
78742 CCTGTCATCGTTGAAGAGGTC
1 CCTGTCATCATTCAAGAGGCC
** *
78763 CCTCCCACCATTCAAGAG
1 CCTGTCATCATTCAAGAG
78781 CCCGATTCAC
Statistics
Matches: 77, Mismatches: 23, Indels: 6
0.73 0.22 0.06
Matches are distributed among these distances:
20 1 0.01
21 60 0.78
22 16 0.21
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (21 bp):
CCTGTCATCATTCAAGAGGCC
Found at i:78779 original size:42 final size:42
Alignment explanation
Indices: 78686--78780 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 42
78676 CCTCTACTAT
78686 CATTCAAGAGGCCCCTATCATCCCTCAAGAGTCCCCCTCCCAC
1 CATTCAAGAGGCCCCTATCATCCCTCAAGAGT-CCCCTCCCAC
* * ** *
78729 CGTTCAAGAGGCCCCTGTCATCGTTGAAGAGGT-CCCTCCCAC
1 CATTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
78771 CATTCAAGAG
1 CATTCAAGAG
78781 CCCGATTCAC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 18 0.40
43 25 0.56
44 2 0.04
ACGTcount: A:0.23, C:0.39, G:0.18, T:0.20
Consensus pattern (42 bp):
CATTCAAGAGGCCCCTATCATCCCTCAAGAGTCCCCTCCCAC
Found at i:80341 original size:20 final size:20
Alignment explanation
Indices: 80316--80379 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
80306 AACGCTAAAC
*
80316 TCAAAATCGCAATGTGAAAG
1 TCAAAATCGCAATGCGAAAG
80336 TCAAAATCGCAATGCGAAAG
1 TCAAAATCGCAATGCGAAAG
* **
80356 CCAAAATCGCAACACGAAAG
1 TCAAAATCGCAATGCGAAAG
80376 TCAA
1 TCAA
80380 TTCGCGTTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.47, C:0.22, G:0.17, T:0.14
Consensus pattern (20 bp):
TCAAAATCGCAATGCGAAAG
Found at i:80447 original size:20 final size:20
Alignment explanation
Indices: 80418--80568 Score: 197
Period size: 20 Copynumber: 7.8 Consensus size: 20
80408 GCAATTTTCT
* *
80418 CGTTGAGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* *
80438 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
80458 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
80478 CGTTGCGACAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
80498 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
80518 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
80532 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
80552 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
80569 GAATGTGTAA
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
14 12 0.10
16 1 0.01
18 1 0.01
20 101 0.88
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:80473 original size:40 final size:39
Alignment explanation
Indices: 80378--80568 Score: 195
Period size: 40 Copynumber: 5.1 Consensus size: 39
80368 CACGAAAGTC
* * *
80378 AATTCGCGTTGCGATAGTCTAATACGCTTTGC-A-AT--
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATATCA
* * * *
80413 -TTTCTCGTTGAGATAGTCAAATTCCCGTTGCGATAATCA
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT-ATCA
* *
80452 AATTCACGTTGCGATAGTCAAATTCGCGTTGCGACAGTCA
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATA-TCA
80492 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT-T--
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATATCA
*
80528 --TTTGCGTTGCGATAGTCAAATTCGCGTTGCGATATTCA
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATA-TCA
80566 AAT
1 AAT
80569 GAATGTGTAA
Statistics
Matches: 128, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
34 56 0.44
35 1 0.01
36 1 0.01
37 2 0.02
38 1 0.01
39 1 0.01
40 66 0.52
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (39 bp):
AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATATCA
Found at i:80513 original size:60 final size:54
Alignment explanation
Indices: 80374--80568 Score: 203
Period size: 54 Copynumber: 3.5 Consensus size: 54
80364 GCAACACGAA
* * * * * * * *
80374 AGTC-AATTCGCGTTGCGATAGTCTAATACGCTTTGCAATTTTCTCGTTGAGAT
1 AGTCAAATTCGCGTTGCGATAATCAAATTCACGTTGCGATTTTCGCGTTGCGAT
* *
80427 AGTCAAATTCCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGAC
1 AGTCAAATTCGCGTTGCGATAATCAAATTCACGTTGCGAT--T----TTCGCGTTGCGAT
* * *
80487 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGCGTTGCGAT
1 AGTCAAATTCGCGTTGCGATAATCAAATTCACGTTGCGATTTTCGCGTTGCGAT
*
80541 AGTCAAATTCGCGTTGCGATATTCAAAT
1 AGTCAAATTCGCGTTGCGATAATCAAAT
80569 GAATGTGTAA
Statistics
Matches: 119, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
53 4 0.03
54 66 0.55
56 1 0.01
58 1 0.01
60 47 0.39
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (54 bp):
AGTCAAATTCGCGTTGCGATAATCAAATTCACGTTGCGATTTTCGCGTTGCGAT
Found at i:80540 original size:34 final size:35
Alignment explanation
Indices: 80380--80563 Score: 174
Period size: 34 Copynumber: 5.0 Consensus size: 35
80370 CGAAAGTCAA
* * * *
80380 TTCGCGTTGCGATAGTCTAATACGCTTTGCAAT-T
1 TTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAT
* * *
80414 TTCTCGTTGAGATAGTCAAATTCCCGTTGCGATAAT
1 TTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT-AT
* *
80450 CAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGACAGTCAAA
1 ----TTCGCGTTGCGATAGTCAAATTCGCGTTGCG--A-T--AT
80494 TTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT-T
1 TTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAT
*
80528 TTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAT
1 TTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAT
80563 T
1 T
80564 CAAATGAATG
Statistics
Matches: 125, Mismatches: 14, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
34 58 0.46
35 2 0.02
36 1 0.01
37 1 0.01
38 1 0.01
40 58 0.46
42 1 0.01
43 1 0.01
44 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.34
Consensus pattern (35 bp):
TTCGCGTTGCGATAGTCAAATTCGCGTTGCGATAT
Found at i:80759 original size:18 final size:18
Alignment explanation
Indices: 80736--80770 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
80726 AAGCCGGTTG
*
80736 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
80754 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
80771 GCCTTTTGCT
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:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:82827 original size:14 final size:14
Alignment explanation
Indices: 82808--82844 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
82798 TCCCGTGGCA
82808 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
82822 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
82836 TTCTTCTTC
1 TT-TTCTTC
82845 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:83067 original size:24 final size:24
Alignment explanation
Indices: 83035--83086 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
83025 TAAACATCAT
83035 CAAAATCCGAGTATTGACCAAGAA
1 CAAAATCCGAGTATTGACCAAGAA
* * *
83059 CAAAGTCCGGGTATTGACCAAGAT
1 CAAAATCCGAGTATTGACCAAGAA
83083 CAAA
1 CAAA
83087 TTTTGAATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.17
Consensus pattern (24 bp):
CAAAATCCGAGTATTGACCAAGAA
Found at i:83778 original size:17 final size:17
Alignment explanation
Indices: 83756--83790 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
83746 CCGATGGGGA
83756 AGGATGTCGTTGGATAT
1 AGGATGTCGTTGGATAT
83773 AGGATGTCGTTGGATAT
1 AGGATGTCGTTGGATAT
83790 A
1 A
83791 AGAACGGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.34, T:0.34
Consensus pattern (17 bp):
AGGATGTCGTTGGATAT
Found at i:83971 original size:20 final size:20
Alignment explanation
Indices: 83946--84013 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
83936 GAAATTCAGT
83946 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
83966 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
83986 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
84006 GTTACGAT
1 GTTGCGAT
84014 TTACATATTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:84083 original size:20 final size:21
Alignment explanation
Indices: 84039--84086 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
84029 GCGATTTTAG
*
84039 AAAATCGCAATGCGAATATGT
1 AAAATCGCAACGCGAATATGT
84060 -AAATCGCAACGCG-ATA-GT
1 AAAATCGCAACGCGAATATGT
84078 CAAAATCGC
1 -AAAATCGC
84087 GTTGCGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 19 0.79
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (21 bp):
AAAATCGCAACGCGAATATGT
Found at i:84143 original size:19 final size:19
Alignment explanation
Indices: 84119--84155 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
84109 TGCGATACTG
* *
84119 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTACGATTTA
84138 GAGATCGCATTACGATTT
1 GAGATCGCATTACGATTT
84156 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTACGATTTA
Found at i:91374 original size:137 final size:137
Alignment explanation
Indices: 91008--91382 Score: 538
Period size: 137 Copynumber: 2.7 Consensus size: 137
90998 CATTATTCAC
* * *
91008 GTGAAAGCGCTTCTTGTGGGACGCACCTTTTCTTTTTGTCAGAAAATAGGTTATAATTGTCCTAC
1 GTGAAAGCACTTCTTGTGGGACGCACCTTTCCTTTTTGTCAGAAAATATGTTATAATTGTCCTAC
* * *
91073 TATATGTGATGTTCCCCGACGGGGCACTATTCACGTCAACACCTATTATGTTTGAGGGGACACAA
66 TATGTGTGATGTCCCCCGGCGGGGCACTATTCACGTCAACACCTATTATGTTTGAGGGGACACAA
91138 CAATGTG
131 CAATGTG
* * * * *
91145 GTGAAAG-AGCTTCTTATGGGATGAACCTTTCCTTTTTGTCAGAAAATATGTTATAGTTGCCCTA
1 GTGAAAGCA-CTTCTTGTGGGACGCACCTTTCCTTTTTGTCAGAAAATATGTTATAATTGTCCTA
* *
91209 CTATGTGTGATGTCCCCCGGCGGGGCACTACTCACGTCAACACCTATTATGTTTGAGGGGACGCA
65 CTATGTGTGATGTCCCCCGGCGGGGCACTATTCACGTCAACACCTATTATGTTTGAGGGGACACA
91274 ACAATGTG
130 ACAATGTG
* * *
91282 GTGAAAGCACCTCTTGTGGGACGCTCCTTTCCTTTTTGTCA-AAGTATATGTTATAATTGTCCTA
1 GTGAAAGCACTTCTTGTGGGACGCACCTTTCCTTTTTGTCAGAA-AATATGTTATAATTGTCCTA
* ** *
91346 TTATGTGTGATGTCCCCCGGTAGAGCACTATTCACGT
65 CTATGTGTGATGTCCCCCGGCGGGGCACTATTCACGT
91383 TACCAACTAT
Statistics
Matches: 209, Mismatches: 26, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
136 2 0.01
137 206 0.99
138 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (137 bp):
GTGAAAGCACTTCTTGTGGGACGCACCTTTCCTTTTTGTCAGAAAATATGTTATAATTGTCCTAC
TATGTGTGATGTCCCCCGGCGGGGCACTATTCACGTCAACACCTATTATGTTTGAGGGGACACAA
CAATGTG
Found at i:91525 original size:21 final size:21
Alignment explanation
Indices: 91499--91538 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
91489 GAATTAGTCA
91499 TTCGAATATATTAAATATTCT
1 TTCGAATATATTAAATATTCT
*
91520 TTCGAATATATTAATTATT
1 TTCGAATATATTAAATATT
91539 ATTTAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
TTCGAATATATTAAATATTCT
Found at i:91702 original size:24 final size:24
Alignment explanation
Indices: 91668--91747 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
91658 ACTTTCTTTG
* *
91668 TGAACTTTAATTGGAATATGAAGT
1 TGAATTTTAATTGGAATATCAAGT
* * *
91692 TGACTTTTAATTTCGAATA-CAATTT
1 TGAATTTTAA-TTGGAATATCAA-GT
* *
91717 TAAATTTTAATTGGAATATTAAGT
1 TGAATTTTAATTGGAATATCAAGT
91741 TGAATTT
1 TGAATTT
91748 GGATTTGCAT
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
24 24 0.57
25 18 0.43
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (24 bp):
TGAATTTTAATTGGAATATCAAGT
Found at i:91786 original size:18 final size:18
Alignment explanation
Indices: 91763--91799 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
91753 TGCATTTTAA
*
91763 AAACATTTAACAAACATT
1 AAACATTTAAAAAACATT
91781 AAACATTTAAAAAACATT
1 AAACATTTAAAAAACATT
91799 A
1 A
91800 TATATTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (18 bp):
AAACATTTAAAAAACATT
Found at i:92381 original size:21 final size:21
Alignment explanation
Indices: 92313--92381 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
92303 GGTGTCATAA
* *
92313 AACCCTACGGACTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
* * **
92334 AACCTTGCGGGCTGGGTTTGT
1 AACCCTGCGGGCTAGGAATGT
* * *
92355 ACCCCTGTGTGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
92376 AACCCT
1 AACCCT
92382 ACGGAGATGG
Statistics
Matches: 34, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.26
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Done.