Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009132.1 Hibiscus syriacus cultivar Beakdansim tig00112630_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: 608087
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:1068 original size:104 final size:108
Alignment explanation
Indices: 560--1103 Score: 589
Period size: 104 Copynumber: 5.2 Consensus size: 108
550 CTTTTATCGA
560 TAGCTCTTTA-CGGTTTTGTCAT--TGAAAACTGGTTTTGTCA-TTTTAC-GTTATATTGTTATG
1 TAGCTCTTTACCGGTTTTGTCATAATG-AAACTGGTTTTGT-ATTTTTACTGTTATATTGTTATG
*
620 TATTCGATACA-TTTTATAAAGTATCGATACTTTTAA-ATATCCGG
64 TA-TCGATACATTTTTAAAAAGTATCGATACTTTTAACATATCCGG
* * *
664 TAG--CTTTACCGATTTTGTCATAACGAAACTGATTTGTGTCATATTTTTACCTGTTATATTGTT
1 TAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTT-TG---TATTTTTA-CTGTTATATTGTT
**
727 ATGTATTAATACATTTTTATAAAA-TATCGATAC--TTAACATA--C-G
61 ATGTATCGATACATTTTTA-AAAAGTATCGATACTTTTAACATATCCGG
*
770 TAGCTCTTTACC-GTTTT-TCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTG-TA
1 TAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTG---TATTTTTA-CTGTTATATTGTTA
*
832 TGTATCAATACATTTTTATAAAAGTATCG--A----TAACATAT-C-G
62 TGTATCGATACATTTTTA-AAAAGTATCGATACTTTTAACATATCCGG
*
872 T--CTCTTTACCAGTTTTGTCATAATGAAACTGG-TTT-TATTTTTACTGTTATATTGTTATGTA
1 TAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTATTTTTACTGTTATATTGTTATGTA
**
933 TCGATACATTTTTGTAAAGTATCGATACTTTTAACATATCCGG
66 TCGATACATTTTTAAAAAGTATCGATACTTTTAACATATCCGG
*
976 TAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTATTTTTAATG-T-TA-TGTT-TGTA
1 TAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTATTTTTACTGTTATATTGTTATGTA
1037 TCGATACATTTTTAAAAAGTATCGATACTTTTAACATATCCGG
66 TCGATACATTTTTAAAAAGTATCGATACTTTTAACATATCCGG
* **
1080 TATCTCTTTACTAGTTTTGTCATA
1 TAGCTCTTTACCGGTTTTGTCATA
1104 TTTTTACCTG
Statistics
Matches: 388, Mismatches: 20, Indels: 64
0.82 0.04 0.14
Matches are distributed among these distances:
96 20 0.05
97 26 0.07
98 1 0.00
100 9 0.02
101 15 0.04
102 30 0.08
103 13 0.03
104 104 0.27
105 37 0.10
106 53 0.14
107 10 0.03
108 27 0.07
109 10 0.03
110 30 0.08
111 3 0.01
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (108 bp):
TAGCTCTTTACCGGTTTTGTCATAATGAAACTGGTTTTGTATTTTTACTGTTATATTGTTATGTA
TCGATACATTTTTAAAAAGTATCGATACTTTTAACATATCCGG
Found at i:1573 original size:72 final size:72
Alignment explanation
Indices: 1346--1591 Score: 277
Period size: 72 Copynumber: 3.4 Consensus size: 72
1336 ATCCGGTAGG
* * * *
1346 TATTTTAATGTAATAGGTTGCGCCTATTTTATTTTACCGTTTACATTATTAGTAATCTTTAAACA
1 TATTTTAATGTAATAGGTAGCGCCTA-TTT-TTTTACCGTTTACATTATTAGCAA-CCTTAAAAA
* *
1411 AACTGATAGG
63 AACCGATAGA
* * * *
1421 TATTTTAATATAATA--TAACACTTATTTTTTTACCGTTT--A-TATTAGCAACCTTAAAAAAAA
1 TATTTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAGCAACCTT--AAAAAA
*
1481 ACCGATTGA
64 ACCGATAGA
* * *
1490 TAATTTAATGTAATAGGTAGCGCCTATTTTTTTACCATTTACATTATTAGCAACCTTCAAAAAAC
1 TATTTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAGCAACCTTAAAAAAAC
1555 CGATAGA
66 CGATAGA
*
1562 TATTCTAATGTAATAGGTAGCGCCTATTTT
1 TATTTTAATGTAATAGGTAGCGCCTATTTT
1592 ATATTTCGAT
Statistics
Matches: 143, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
67 3 0.02
68 8 0.06
69 25 0.17
71 30 0.21
72 44 0.31
73 6 0.04
74 13 0.09
75 14 0.10
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (72 bp):
TATTTTAATGTAATAGGTAGCGCCTATTTTTTTACCGTTTACATTATTAGCAACCTTAAAAAAAC
CGATAGA
Found at i:1936 original size:11 final size:11
Alignment explanation
Indices: 1920--1958 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
1910 CATTTACTCT
1920 TAAAAAAATAA
1 TAAAAAAATAA
1931 TAAAAAAAATAA
1 T-AAAAAAATAA
1943 TAAAAAAATAA
1 TAAAAAAATAA
1954 TAAAA
1 TAAAA
1959 GGTTTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
TAAAAAAATAA
Found at i:1938 original size:12 final size:12
Alignment explanation
Indices: 1921--1958 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
1911 ATTTACTCTT
1921 AAAAAAATAATA
1 AAAAAAATAATA
1933 AAAAAAATAAT-
1 AAAAAAATAATA
1944 AAAAAAATAATA
1 AAAAAAATAATA
1956 AAA
1 AAA
1959 GGTTTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAATAATA
Found at i:7805 original size:19 final size:19
Alignment explanation
Indices: 7781--7819 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
7771 TTTAAATCGT
*
7781 ATAATGTTCATACATGAAA
1 ATAATGATCATACATGAAA
7800 ATAATGATCATACATGAAA
1 ATAATGATCATACATGAAA
7819 A
1 A
7820 AAAGTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (19 bp):
ATAATGATCATACATGAAA
Found at i:19856 original size:14 final size:14
Alignment explanation
Indices: 19837--19886 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
19827 AAATCGAAAC
19837 CGGTTTTTTCGGTT
1 CGGTTTTTTCGGTT
19851 CGGTTTTTTTAACGGTT
1 CGG-TTTTTT--CGGTT
19868 CAGG-TTTTTCGGTT
1 C-GGTTTTTTCGGTT
19882 CGGTT
1 CGGTT
19887 CGGTTTATCG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 10 0.32
15 6 0.19
16 5 0.16
17 6 0.19
18 2 0.06
ACGTcount: A:0.06, C:0.14, G:0.28, T:0.52
Consensus pattern (14 bp):
CGGTTTTTTCGGTT
Found at i:20904 original size:16 final size:16
Alignment explanation
Indices: 20883--20934 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
20873 TTGAAATCTG
*
20883 TGAAGGAATTATAATC
1 TGAAGGAATTAGAATC
*
20899 TGAAGGAATTAGAATT
1 TGAAGGAATTAGAATC
* *
20915 TGTAGGAATTGGAATC
1 TGAAGGAATTAGAATC
20931 TGAA
1 TGAA
20935 TCTTAAACCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (16 bp):
TGAAGGAATTAGAATC
Found at i:21558 original size:28 final size:28
Alignment explanation
Indices: 21518--21673 Score: 190
Period size: 28 Copynumber: 5.4 Consensus size: 28
21508 CCTAAACTCG
21518 AACCCGACCCGAATATAACACTTAAAAA
1 AACCCGACCCGAATATAACACTTAAAAA
21546 AACCCGACCCGAATATAACACTTAAAAA
1 AACCCGACCCGAATATAACACTTAAAAA
**
21574 AACCCGACCCGAATAGCACACTTAAAAA
1 AACCCGACCCGAATATAACACTTAAAAA
* * * *
21602 AACTCGGCCCTAATATCACACTTAAAAAA
1 AACCCGACCCGAATATAACACTT-AAAAA
21631 ATCTGACCCGACCCGAATATCAA-ACTTAAAAA
1 A----ACCCGACCCGAATAT-AACACTTAAAAA
21663 AA-CCGACCCGA
1 AACCCGACCCGA
21674 CCCGAATATC
Statistics
Matches: 112, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.08
28 74 0.66
29 6 0.05
32 6 0.05
33 16 0.14
34 1 0.01
ACGTcount: A:0.46, C:0.30, G:0.09, T:0.15
Consensus pattern (28 bp):
AACCCGACCCGAATATAACACTTAAAAA
Found at i:21584 original size:33 final size:31
Alignment explanation
Indices: 21519--21711 Score: 172
Period size: 28 Copynumber: 6.4 Consensus size: 31
21509 CTAAACTCGA
21519 ACCCGACCCGAATATAACACTT-AAAAAA--
1 ACCCGACCCGAATATAACACTTAAAAAAACG
21547 ACCCGACCCGAATATAACACTT-AAAAAA--
1 ACCCGACCCGAATATAACACTTAAAAAAACG
**
21575 ACCCGACCCGAATAGCACACTT-AAAAAA--
1 ACCCGACCCGAATATAACACTTAAAAAAACG
* * * *
21603 ACTCGGCCCTAATATCACACTTAAAAAAATCTG
1 ACCCGACCCGAATATAACACTTAAAAAAA-C-G
21636 ACCCGACCCGAATATCAA-ACTTAAAAAAACCG
1 ACCCGACCCGAATAT-AACACTTAAAAAAA-CG
* * *
21668 ACCCGACCCGAATATCACTCTTACAAAAACCTG
1 ACCCGACCCGAATATAACACTTA-AAAAAAC-G
*
21701 ACCTGACCCGA
1 ACCCGACCCGA
21712 CCAGAATATC
Statistics
Matches: 141, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
28 72 0.51
29 6 0.04
31 1 0.01
32 21 0.15
33 40 0.28
34 1 0.01
ACGTcount: A:0.44, C:0.32, G:0.09, T:0.16
Consensus pattern (31 bp):
ACCCGACCCGAATATAACACTTAAAAAAACG
Found at i:25564 original size:6 final size:6
Alignment explanation
Indices: 25543--25616 Score: 85
Period size: 6 Copynumber: 12.3 Consensus size: 6
25533 TTCTTCTTCA
* * * * * * *
25543 TCATCC TCGTCC TCATCA TCATCA TCCTCT TCCTCA TCATCC TCATCC
1 TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC
25591 TCATCC TCATCC TCATCC TCATCC TC
1 TCATCC TCATCC TCATCC TCATCC TC
25617 GTCAATTTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.16, C:0.47, G:0.01, T:0.35
Consensus pattern (6 bp):
TCATCC
Found at i:25566 original size:21 final size:21
Alignment explanation
Indices: 25540--25616 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
25530 AGTTTCTTCT
*
25540 TCATCATCCTCGTCCTCATCA
1 TCATCATCCTCATCCTCATCA
*
25561 TCATCATCCTCTTCCTCATCA
1 TCATCATCCTCATCCTCATCA
*
25582 TCCTCATCCTCATCCTCATC-
1 TCATCATCCTCATCCTCATCA
25602 -C-TCATCCTCATCCTC
1 TCATCATCCTCATCCTC
25617 GTCAATTTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.26
19 1 0.02
21 38 0.72
ACGTcount: A:0.17, C:0.47, G:0.01, T:0.35
Consensus pattern (21 bp):
TCATCATCCTCATCCTCATCA
Found at i:25616 original size:18 final size:18
Alignment explanation
Indices: 25540--25613 Score: 94
Period size: 18 Copynumber: 4.1 Consensus size: 18
25530 AGTTTCTTCT
*
25540 TCATCATCCTCGTCCTCA
1 TCATCATCCTCATCCTCA
* * * *
25558 TCATCATCATCCTCTTCC
1 TCATCATCCTCATCCTCA
25576 TCATCATCCTCATCCTCA
1 TCATCATCCTCATCCTCA
*
25594 TCCTCATCCTCATCCTCA
1 TCATCATCCTCATCCTCA
25612 TC
1 TC
25614 CTCGTCAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.18, C:0.46, G:0.01, T:0.35
Consensus pattern (18 bp):
TCATCATCCTCATCCTCA
Found at i:30113 original size:158 final size:156
Alignment explanation
Indices: 29945--30429 Score: 471
Period size: 158 Copynumber: 3.1 Consensus size: 156
29935 TATGATTTCA
* * * *
29945 TTATTTCTTCAATTTC-TCATTCATTTTAAGT-TTATTTTTACTAACTTTGAACCGCATACTCCT
1 TTATTTCTTCAA-TTCATCCTTTATTTTAAGTCTT-TTTTTACTAAATTTGAACCACATACTCCT
* * *
30008 AAATCAACGTAGAATACATATGTACTTTGAATTTATCATTTTGATAATAAATTTCTTATTTTTCA
64 AAA-CAACATAAAATACATATGTACTTTCAATTTATCATTTTGATAATAAATTTCTTATTTTTCA
30073 ATTTAATCCCTCAGTTTTTTCATAATATCC
128 ATTTAATCCCTCAG-TTTTTCATAATATCC
* * * ** * *
30103 TTATTTCTTCAATTCATCCTTTATTTCAAGTCCTTTTTTACCAAATTCAAACCACGTACTCCCAA
1 TTATTTCTTCAATTCATCCTTTATTTTAAGTCTTTTTTTACTAAATTTGAACCACATACTCCTAA
** * * *
30168 ACCTTCATAAAATACATATGTGCTTTCAATTTCTCATTTTGATAATAATTATTC-TATTTTTCAA
66 A-CAACATAAAATACATATGTACTTTCAATTTATCATTTTGATAATAAAT-TTCTTATTTTTCAA
* *
30232 TTTAATCCCCCAGTTTTT-ATAATCTCC
129 TTTAATCCCTCAGTTTTTCATAATATCC
* * * *
30259 TTATTCCTTCTATTCATCCTTTATTTTAAGTCCATTTTTTTTA-TCAAATTTGAATCACATGCTC
1 TTATTTCTTCAATTCATCCTTTATTTTAAGT-C--TTTTTTTACT-AAATTTGAACCACATACTC
* * * * * * * *
30323 TTAAACAATAATAAAATGCATACGTACTTTTAA-TTACTCGTTTTGATAAT-AATTTTTCTATCT
62 CTAAACAA-CATAAAATACATATGTACTTTCAATTTA-TCATTTTGATAATAAATTTCT-TATTT
* *
30386 TTCAATTTAATCCGTCAATTTTTCATAATATCC
124 TTCAATTTAATCCCTCAGTTTTTCATAATATCC
*
30419 TTTATCTCTTC
1 -TTATTTCTTC
30430 GATATATATC
Statistics
Matches: 262, Mismatches: 52, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
156 36 0.14
157 11 0.04
158 116 0.44
159 83 0.32
160 8 0.03
161 8 0.03
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.47
Consensus pattern (156 bp):
TTATTTCTTCAATTCATCCTTTATTTTAAGTCTTTTTTTACTAAATTTGAACCACATACTCCTAA
ACAACATAAAATACATATGTACTTTCAATTTATCATTTTGATAATAAATTTCTTATTTTTCAATT
TAATCCCTCAGTTTTTCATAATATCC
Found at i:30389 original size:159 final size:158
Alignment explanation
Indices: 30020--30420 Score: 461
Period size: 159 Copynumber: 2.5 Consensus size: 158
30010 ATCAACGTAG
* *
30020 AATACATATGTACTTTGAATTTA-TCATTTTGATAATAA-ATTTCTTATTTTTCAATTTAATCCC
1 AATACATATGTACTTTCAA-TTACTCATTTTGATAATAATTTTTC-TATTTTTCAATTTAATCCC
* *
30083 TCAGTTTTTTCATAATATCCTTATTTCTTCAATTCATCCTTTATTTCAAGTCCTTTTTTACCAAA
64 CCAGTTTTTTCATAATATCCTTATTCCTTCAATTCATCCTTTATTTCAAGTCCTTTTTTACCAAA
* ** *
30148 TTCAAACCACGTACTCCCAAACCTTCATAA
129 TTCAAACCACATACTCCCAAACAATAATAA
* * *
30178 AATACATATGTGCTTTCAATTTCTCATTTTGATAATAATTATTCTATTTTTCAATTTAATCCCCC
1 AATACATATGTACTTTCAATTACTCATTTTGATAATAATTTTTCTATTTTTCAATTTAATCCCCC
* * * *
30243 AG-TTTTT-ATAATCTCCTTATTCCTTCTATTCATCCTTTATTTTAAGTCCATTTTTTTTATCAA
66 AGTTTTTTCATAATATCCTTATTCCTTCAATTCATCCTTTATTTCAAGTCC---TTTTTTACCAA
** * * **
30306 ATTTGAATCACATGCTCTTAAACAATAATAA
128 ATTCAAACCACATACTCCCAAACAATAATAA
* * * * * **
30337 AATGCATACGTACTTTTAATTACTCGTTTTGATAATAATTTTTCTATCTTTCAATTTAATCCGTC
1 AATACATATGTACTTTCAATTACTCATTTTGATAATAATTTTTCTATTTTTCAATTTAATCCCCC
*
30402 A-ATTTTTCATAATATCCTT
66 AGTTTTTTCATAATATCCTT
30421 TATCTCTTCG
Statistics
Matches: 204, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
156 38 0.19
157 7 0.03
158 54 0.26
159 95 0.47
160 10 0.05
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (158 bp):
AATACATATGTACTTTCAATTACTCATTTTGATAATAATTTTTCTATTTTTCAATTTAATCCCCC
AGTTTTTTCATAATATCCTTATTCCTTCAATTCATCCTTTATTTCAAGTCCTTTTTTACCAAATT
CAAACCACATACTCCCAAACAATAATAA
Found at i:30577 original size:20 final size:21
Alignment explanation
Indices: 30538--30587 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
30528 TTCTTTAAAA
30538 TATAATATTATGATTATATTT
1 TATAATATTATGATTATATTT
* *
30559 TATAATTTTA-GATTGTATTT
1 TATAATATTATGATTATATTT
*
30579 GAT-ATATTA
1 TATAATATTA
30588 AATAACACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 5 0.20
20 11 0.44
21 9 0.36
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (21 bp):
TATAATATTATGATTATATTT
Found at i:56191 original size:15 final size:15
Alignment explanation
Indices: 56146--56193 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
56136 TTAACTGGGT
*
56146 GGGCGGATGTGGGGC
1 GGGCGGATGCGGGGC
*
56161 AGGCGGATGCGGGGC
1 GGGCGGATGCGGGGC
*
56176 GGGCGAATGCGGGGC
1 GGGCGGATGCGGGGC
56191 GGG
1 GGG
56194 TAATGTCTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.10, C:0.17, G:0.65, T:0.08
Consensus pattern (15 bp):
GGGCGGATGCGGGGC
Found at i:59912 original size:31 final size:31
Alignment explanation
Indices: 59830--59913 Score: 91
Period size: 29 Copynumber: 2.8 Consensus size: 31
59820 ATGTACCAAA
* * * * *
59830 ATTGGATATTTTGTCAAAGGACAAGTCCCAC
1 ATTGGATATTTTGTAAAAGTACAGGTACAAC
*
59861 ATTGGACA-TTT-TAAAAGTACAGGTACAAC
1 ATTGGATATTTTGTAAAAGTACAGGTACAAC
*
59890 ATTGGATATTTTGTTAAAGTACAG
1 ATTGGATATTTTGTAAAAGTACAG
59914 ATACCAAATG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 20 0.47
30 6 0.14
31 17 0.40
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (31 bp):
ATTGGATATTTTGTAAAAGTACAGGTACAAC
Found at i:62674 original size:14 final size:14
Alignment explanation
Indices: 62655--62684 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
62645 TACGTCGAGA
62655 TTCAAATTACTTTG
1 TTCAAATTACTTTG
62669 TTCAAATTACTTTG
1 TTCAAATTACTTTG
62683 TT
1 TT
62685 ACGTCGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTCAAATTACTTTG
Found at i:70467 original size:15 final size:16
Alignment explanation
Indices: 70449--70479 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
70439 GGTGTCATTA
70449 ATTTTTTTTA-AAATT
1 ATTTTTTTTATAAATT
70464 ATTTTTTTTATAAATT
1 ATTTTTTTTATAAATT
70480 TAATATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTTTTATAAATT
Found at i:70469 original size:16 final size:17
Alignment explanation
Indices: 70445--70483 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
70435 GAGGGGTGTC
70445 ATTAATTTTTTT-TAAA
1 ATTAATTTTTTTATAAA
*
70461 ATTATTTTTTTTATAAA
1 ATTAATTTTTTTATAAA
*
70478 TTTAAT
1 ATTAAT
70484 ATAAAATACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTAATTTTTTTATAAA
Found at i:71468 original size:2 final size:2
Alignment explanation
Indices: 71461--71496 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
71451 TTAAGAGGAA
71461 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71497 TTAAAGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71602 original size:16 final size:14
Alignment explanation
Indices: 71579--71624 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
71569 CACAAACAAT
71579 AATTGAGAATTAAA
1 AATTGAGAATTAAA
*
71593 AACGTTGAGAA-TAAT
1 AA--TTGAGAATTAAA
71608 AATTGAGAATTAAA
1 AATTGAGAATTAAA
71622 AAT
1 AAT
71625 GTTAGGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 7 0.26
14 8 0.30
15 5 0.19
16 7 0.26
ACGTcount: A:0.54, C:0.02, G:0.15, T:0.28
Consensus pattern (14 bp):
AATTGAGAATTAAA
Found at i:71646 original size:32 final size:31
Alignment explanation
Indices: 71573--71688 Score: 146
Period size: 32 Copynumber: 3.7 Consensus size: 31
71563 ATTATACACA
*
71573 AACAATAATTGAGAATTAAAAACGTT-G-AG
1 AACAATAATTGAGAATTAAAAACGTTGGCAT
* *
71602 AATAATAATTGAGAATTAAAAATGTTAGGCAT
1 AACAATAATTGAGAATTAAAAACGTT-GGCAT
*
71634 AACAATAATTGAGAATTAAAAACATTGGACAT
1 AACAATAATTGAGAATTAAAAACGTTGG-CAT
* *
71666 AGCAATTATTGAGAATTAAAAAC
1 AACAATAATTGAGAATTAAAAAC
71689 ATTAGAGAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
29 24 0.32
31 3 0.04
32 48 0.64
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.27
Consensus pattern (31 bp):
AACAATAATTGAGAATTAAAAACGTTGGCAT
Found at i:74721 original size:11 final size:11
Alignment explanation
Indices: 74692--74723 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
74682 TATTTAAACG
74692 GGTATTGGGTC
1 GGTATTGGGTC
74703 GAGTATTGGGTC
1 G-GTATTGGGTC
74715 GGTATTGGG
1 GGTATTGGG
74724 CCGGGAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.12, C:0.06, G:0.47, T:0.34
Consensus pattern (11 bp):
GGTATTGGGTC
Found at i:74788 original size:2 final size:2
Alignment explanation
Indices: 74741--74771 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
74731 TCAGGCCGGG
74741 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
74772 TTAAATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:76252 original size:20 final size:20
Alignment explanation
Indices: 76208--76317 Score: 186
Period size: 20 Copynumber: 5.5 Consensus size: 20
76198 ATCATATTCC
76208 CTGATAATCTTTTATTCCC-
1 CTGATAATCTTTTATTCCCA
*
76227 CTGATAATCTTTTATTCCCT
1 CTGATAATCTTTTATTCCCA
*
76247 CTGATAATCTTTTATTCTCA
1 CTGATAATCTTTTATTCCCA
*
76267 CTGATAATCTTTTATTCCCT
1 CTGATAATCTTTTATTCCCA
76287 CTGATAATCTTTTATTCCCA
1 CTGATAATCTTTTATTCCCA
76307 CTGATAATCTT
1 CTGATAATCTT
76318 ACATCCCGTG
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
19 19 0.22
20 66 0.78
ACGTcount: A:0.23, C:0.24, G:0.05, T:0.48
Consensus pattern (20 bp):
CTGATAATCTTTTATTCCCA
Found at i:78751 original size:60 final size:59
Alignment explanation
Indices: 78629--78769 Score: 158
Period size: 60 Copynumber: 2.4 Consensus size: 59
78619 TTGAGACGTC
* * * * * *
78629 TAAAAGTTTGGGGATTAATATAGAATGAGGTCATAGTTTGGGGATGAATTTGGAATGCT
1 TAAAAGTTTGAGGATTAATTTAGAATGAGGTCATAGTTTAGGGATGAAATTAGAATACT
* * * *
78688 TAAAAGTTTGAGGATCAATTTAGTATGAGAGTCATAGTTTAGGTATGAAATTAGAATATT
1 TAAAAGTTTGAGGATTAATTTAGAATGAG-GTCATAGTTTAGGGATGAAATTAGAATACT
*
78748 TAAAA-TTTTAGAGATTAATTTA
1 TAAAAGTTTGAG-GATTAATTTA
78770 ACATGATGAC
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
59 30 0.44
60 38 0.56
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (59 bp):
TAAAAGTTTGAGGATTAATTTAGAATGAGGTCATAGTTTAGGGATGAAATTAGAATACT
Found at i:79112 original size:17 final size:17
Alignment explanation
Indices: 79086--79120 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
79076 TCAATAAAAG
79086 AATTTAAAATATATAAA
1 AATTTAAAATATATAAA
* *
79103 AATTTTAAATATTTAAA
1 AATTTAAAATATATAAA
79120 A
1 A
79121 GACGATTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTTAAAATATATAAA
Found at i:79209 original size:14 final size:14
Alignment explanation
Indices: 79190--79216 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
79180 TAACAAAAAC
79190 AAATAATTTCTATG
1 AAATAATTTCTATG
79204 AAATAATTTCTAT
1 AAATAATTTCTAT
79217 CAAGACATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (14 bp):
AAATAATTTCTATG
Found at i:85129 original size:19 final size:18
Alignment explanation
Indices: 85101--85137 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
85091 CGTTGGATTT
85101 TTTCTTTAAATTAGAAAA
1 TTTCTTTAAATTAGAAAA
85119 TTTCATTTAAATTAGAAAA
1 TTTC-TTTAAATTAGAAAA
85138 CCCTAGTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
TTTCTTTAAATTAGAAAA
Found at i:116997 original size:16 final size:18
Alignment explanation
Indices: 116976--117020 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
116966 AACATTCCCA
116976 GTAATCTTATT-CC-CTG
1 GTAATCTTATTCCCACTG
116992 GTAATCTTACATTCCCACTG
1 GTAATCTT--ATTCCCACTG
117012 GTAATCTTA
1 GTAATCTTA
117021 CATTCCGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.32
18 4 0.16
19 2 0.08
20 11 0.44
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.40
Consensus pattern (18 bp):
GTAATCTTATTCCCACTG
Found at i:117014 original size:20 final size:20
Alignment explanation
Indices: 116989--117026 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
116979 ATCTTATTCC
116989 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
117009 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
117027 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:123374 original size:62 final size:62
Alignment explanation
Indices: 123301--123428 Score: 166
Period size: 62 Copynumber: 2.1 Consensus size: 62
123291 AATGTTTAGT
* * * * *
123301 TTTTGTTTCATTTTAGTACCTCATTGTTAACAATTTAACATATTCAGTAAGTAAACTATCAA
1 TTTTGTTTCATTTTAGTACCTCAATGTTAAAAACTTAACACATTCAGTAACTAAACTATCAA
* * * * *
123363 TTTTGTTTCATTTTAGTATCTTAATGTTAAAAACTTAACACATTTAGTACCTAAACTTTCAA
1 TTTTGTTTCATTTTAGTACCTCAATGTTAAAAACTTAACACATTCAGTAACTAAACTATCAA
123425 TTTT
1 TTTT
123429 TTTAACTTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.46
Consensus pattern (62 bp):
TTTTGTTTCATTTTAGTACCTCAATGTTAAAAACTTAACACATTCAGTAACTAAACTATCAA
Found at i:128229 original size:83 final size:84
Alignment explanation
Indices: 128057--128222 Score: 210
Period size: 84 Copynumber: 2.0 Consensus size: 84
128047 TTTTAACACT
* *
128057 TAAACTTTCAATTTTTTAAAACCAGACCTAACATTTATTTTTTGTTTCATTTTAATACTATCAGT
1 TAAACTTTCAATTTTTTAAAACCAGACCTAACATTTAGTTTTTGTTTCATTTAAATACTATCAGT
128122 TGTGGTCTATTTTAGTACA
66 TGTGGTCTATTTTAGTACA
* * * * * * *
128141 TAAACTTT-TATTTTTTCAAAACCATACCTAACGTTTAGTTTTTGTTTCGTTTAAAT-TTGTGAG
1 TAAACTTTCAATTTTTT-AAAACCAGACCTAACATTTAGTTTTTGTTTCATTTAAATACTATCAG
* *
128204 TTTTGGTCTGTTTTAGTAC
65 TTGTGGTCTATTTTAGTAC
128223 CAAAACTATC
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
83 28 0.40
84 42 0.60
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (84 bp):
TAAACTTTCAATTTTTTAAAACCAGACCTAACATTTAGTTTTTGTTTCATTTAAATACTATCAGT
TGTGGTCTATTTTAGTACA
Found at i:128890 original size:2 final size:2
Alignment explanation
Indices: 128883--128912 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
128873 ATTTTGATCA
128883 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
128913 TATTGAAGTA
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:130907 original size:16 final size:16
Alignment explanation
Indices: 130886--130924 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
130876 AGGTTAACAT
*
130886 CCAACTTAGACAACTG
1 CCAACTTAGACAACTA
130902 CCAACTTAGACAACTA
1 CCAACTTAGACAACTA
130918 CCAACTT
1 CCAACTT
130925 TTTAACGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.33, G:0.08, T:0.21
Consensus pattern (16 bp):
CCAACTTAGACAACTA
Found at i:135568 original size:29 final size:29
Alignment explanation
Indices: 135531--135589 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
135521 AAAGGAATTC
135531 CAATATCAAACAGAAGTGACTAGTGGAAT
1 CAATATCAAACAGAAGTGACTAGTGGAAT
135560 CAATATCAAACAGAAGTGACTAGTGGAAT
1 CAATATCAAACAGAAGTGACTAGTGGAAT
135589 C
1 C
135590 TTAAAGAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.20
Consensus pattern (29 bp):
CAATATCAAACAGAAGTGACTAGTGGAAT
Found at i:142320 original size:15 final size:15
Alignment explanation
Indices: 142300--142329 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
142290 ACATTGAAAA
142300 ACTTAAAAATTTATT
1 ACTTAAAAATTTATT
*
142315 ACTTAATAATTTATT
1 ACTTAAAAATTTATT
142330 GGACAAACTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
ACTTAAAAATTTATT
Found at i:152954 original size:51 final size:51
Alignment explanation
Indices: 152899--152995 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
152889 TTACTGTTTG
* * * * *
152899 AATTTCATTTAATTA-TATGTTTATATTTTATTTTAATAATTTAAAATTAAT
1 AATTTCACTAAATTATTAT-TTAATAATTTATTTTAATAACTTAAAATTAAT
* *
152950 AATTTTACTAAATTATTATTTAATAATTTATTTTAATTACTTAAAA
1 AATTTCACTAAATTATTATTTAATAATTTATTTTAATAACTTAAAA
152996 ATAAATAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 35 0.92
52 3 0.08
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (51 bp):
AATTTCACTAAATTATTATTTAATAATTTATTTTAATAACTTAAAATTAAT
Found at i:153631 original size:15 final size:16
Alignment explanation
Indices: 153592--153640 Score: 66
Period size: 15 Copynumber: 3.1 Consensus size: 16
153582 CCCCAAACTA
153592 AAAACAA-CTCGAACCG
1 AAAACAACCT-GAACCG
*
153608 AAAATAACCTGAACC-
1 AAAACAACCTGAACCG
153623 AAAACAACCTGAACCG
1 AAAACAACCTGAACCG
153639 AA
1 AA
153641 TTTAACTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 14 0.48
16 13 0.45
17 2 0.07
ACGTcount: A:0.53, C:0.29, G:0.10, T:0.08
Consensus pattern (16 bp):
AAAACAACCTGAACCG
Found at i:157592 original size:44 final size:44
Alignment explanation
Indices: 157543--157628 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
157533 AATATTTTTT
*
157543 ATATTAATATTTTT-AGTATAAAATAATATTTTAAATAACACTTA
1 ATATTAATATTTTTGA-TAAAAAATAATATTTTAAATAACACTTA
157587 ATATTAATATTTTTGATAAAAAATAATATTTTAAATAACACT
1 ATATTAATATTTTTGATAAAAAATAATATTTTAAATAACACT
157629 CTATCTAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (44 bp):
ATATTAATATTTTTGATAAAAAATAATATTTTAAATAACACTTA
Found at i:157624 original size:19 final size:19
Alignment explanation
Indices: 157547--157624 Score: 57
Period size: 19 Copynumber: 3.8 Consensus size: 19
157537 TTTTTTATAT
* * *
157547 TAATATTTTTAGTATAAAA
1 TAATATTTTAAATAAAAAA
157566 TAATATTTTAAATAACACTTAATA
1 TAATATTTTAAATAA-A---AA-A
**
157590 TTAATATTTTTGATAAAAAA
1 -TAATATTTTAAATAAAAAA
157610 TAATATTTTAAATAA
1 TAATATTTTAAATAA
157625 CACTCTATCT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
19 25 0.54
20 2 0.04
21 2 0.04
23 2 0.04
24 2 0.04
25 13 0.28
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (19 bp):
TAATATTTTAAATAAAAAA
Found at i:158167 original size:10 final size:10
Alignment explanation
Indices: 158115--158168 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
158105 AAAATACAAA
*
158115 ATATAATAAT
1 ATATAATTAT
158125 ATATAA-TAT
1 ATATAATTAT
*
158134 AAATAATTCAT
1 ATATAATT-AT
*
158145 -TAT-ATTTT
1 ATATAATTAT
158153 ATATAATTAT
1 ATATAATTAT
158163 ATATAA
1 ATATAA
158169 AAAAATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
8 1 0.03
9 13 0.37
10 19 0.54
11 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (10 bp):
ATATAATTAT
Found at i:158167 original size:19 final size:19
Alignment explanation
Indices: 158115--158168 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
158105 AAAATACAAA
*
158115 ATATAATAATATATAATAT
1 ATATAATTATATATAATAT
* * *
158134 AAATAATTCAT-TATATTTT
1 ATATAATT-ATATATAATAT
158153 ATATAATTATATATAA
1 ATATAATTATATATAA
158169 AAAAATAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
18 2 0.07
19 23 0.85
20 2 0.07
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTATATATAATAT
Found at i:159107 original size:13 final size:13
Alignment explanation
Indices: 159091--159137 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
159081 AAGGAAAAGA
159091 AAAAAAAAATAAC
1 AAAAAAAAATAAC
* * *
159104 AAAATAAATTAAA
1 AAAAAAAAATAAC
159117 AAAATAAAAATAAC
1 AAAA-AAAAATAAC
159131 AAAAAAA
1 AAAAAAA
159138 TGTAGCGTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.83, C:0.04, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAAAAAATAAC
Found at i:160978 original size:29 final size:28
Alignment explanation
Indices: 160928--160989 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
160918 TAAAAATTAG
*
160928 TAGACCCTTATTTAAATATTTTAGAAGGT
1 TAGACCCTTATTTAAATATTTTA-AACGT
* * * *
160957 TAGATCCTTATTTGATTGTTTTAAACGT
1 TAGACCCTTATTTAAATATTTTAAACGT
160985 TAGAC
1 TAGAC
160990 TCGTGTCGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.44
Consensus pattern (28 bp):
TAGACCCTTATTTAAATATTTTAAACGT
Found at i:164154 original size:2 final size:2
Alignment explanation
Indices: 164147--164177 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
164137 TGTTGCATTA
164147 AT AT 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 AT AT A
164178 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:164604 original size:16 final size:16
Alignment explanation
Indices: 164585--164615 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
164575 ATATACGTAT
*
164585 ATACATGCATACATAA
1 ATACATACATACATAA
164601 ATACATACATACATA
1 ATACATACATACATA
164616 TATATGTATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (16 bp):
ATACATACATACATAA
Found at i:167814 original size:21 final size:24
Alignment explanation
Indices: 167790--167843 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 24
167780 TCATTGAATC
167790 ATTAAAAATAAAT-A-ATAT-TGT
1 ATTAAAAATAAATAATATATATGT
*
167811 ATTATCAAA-AAATAATATATATGT
1 ATTA-AAAATAAATAATATATATGT
167835 ATTAAAAAT
1 ATTAAAAAT
167844 GGTAATTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
21 8 0.31
22 4 0.15
23 7 0.27
24 7 0.27
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (24 bp):
ATTAAAAATAAATAATATATATGT
Found at i:170393 original size:2 final size:2
Alignment explanation
Indices: 170386--170440 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
170376 TCATATTAAC
170386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
170428 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
170441 ATTAAGTCAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:180701 original size:21 final size:21
Alignment explanation
Indices: 180677--180752 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 21
180667 ACCCGACCTG
*
180677 AAATAATATATTTATTTAAAA
1 AAATAATATATTTATTAAAAA
* * *
180698 AAATATTATGTTTATTCAATAA
1 AAATAATATATTTATT-AAAAA
180720 AAAT-ATATATTTAATTAAAAGA
1 AAATAATATATTT-ATTAAAA-A
180742 AAATAATATAT
1 AAATAATATAT
180753 AGAAGAGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 23 0.52
22 15 0.34
23 6 0.14
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (21 bp):
AAATAATATATTTATTAAAAA
Found at i:184773 original size:2 final size:2
Alignment explanation
Indices: 184766--184790 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
184756 CCCAATTTAT
184766 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
184791 TATTAAATTT
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:195780 original size:29 final size:30
Alignment explanation
Indices: 195716--195773 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
195706 GCTCCAATGA
*
195716 TATAATTGAAGTTAAAATCAAAGTTTAGTGT
1 TATAATTGAAG-TAAAATAAAAGTTTAGTGT
*
195747 TATAATTGAA-TAAATTAAAAGTTTAGT
1 TATAATTGAAGTAAAATAAAAGTTTAGT
195774 TGTATAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.60
31 10 0.40
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.40
Consensus pattern (30 bp):
TATAATTGAAGTAAAATAAAAGTTTAGTGT
Found at i:201435 original size:58 final size:58
Alignment explanation
Indices: 201337--201449 Score: 181
Period size: 58 Copynumber: 1.9 Consensus size: 58
201327 AATGATGTGC
* *
201337 CTTTAAGCTGAGTGTAATCGAGCTCGAAGGTCTTTGGTTGGCAGATAACCCTTATCGA
1 CTTTAAGCTGAGTGTAATCGAACTCGAAAGTCTTTGGTTGGCAGATAACCCTTATCGA
* * *
201395 CTTTGAGCTGAGTGTAATCGAACTCGAAAGTCTTTTGTTGGCATATAACCCTTAT
1 CTTTAAGCTGAGTGTAATCGAACTCGAAAGTCTTTGGTTGGCAGATAACCCTTAT
201450 AGCCTTGAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (58 bp):
CTTTAAGCTGAGTGTAATCGAACTCGAAAGTCTTTGGTTGGCAGATAACCCTTATCGA
Found at i:201512 original size:142 final size:142
Alignment explanation
Indices: 201254--201539 Score: 396
Period size: 142 Copynumber: 2.0 Consensus size: 142
201244 TCGGTATGCT
* *
201254 TTTGAGCTGAATGTAATCGAACTTAAAGGTCTTTGTTCGCAGATAACCCTTTTAGCCTTGAGTTA
1 TTTGAGCTGAATGTAATCGAACTGAAAGGTCTTTGTTCGCAGATAACCCTTATAGCCTTGAGTTA
* * * * *
201319 TACTATAAAATGATGTGCCTTTAAGCTGAGTGTAATCGAGCTCGAAGGTCTTTGGTTGGCAGATA
66 TACTAGAAAATGATGTGCCTTTAAGCTAAGTGTAATCGAACTCGAAAGTCTTTGGTTGGAAGATA
*
201384 ACCCTTATCGAC
131 ACACTTATCGAC
* * *
201396 TTTGAGCTGAGTGTAATCGAACTCGAAA-GTCTTTTGTTGGCATATAACCCTTATAGCCTTGAGT
1 TTTGAGCTGAATGTAATCGAACT-GAAAGGTC-TTTGTTCGCAGATAACCCTTATAGCCTTGAGT
* * *
201460 TATGCT-GCAAATGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAAGTCTTTGGTTGGAAGA
64 TATACTAGAAAATGATGTGCCTTTAAGCTAAGTGTAATCGAACTCGAAAGTCTTTGGTTGGAAGA
* *
201524 TAGCACTTCTCGAC
129 TAACACTTATCGAC
201538 TT
1 TT
201540 AAGCTATACT
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
142 89 0.71
143 37 0.29
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (142 bp):
TTTGAGCTGAATGTAATCGAACTGAAAGGTCTTTGTTCGCAGATAACCCTTATAGCCTTGAGTTA
TACTAGAAAATGATGTGCCTTTAAGCTAAGTGTAATCGAACTCGAAAGTCTTTGGTTGGAAGATA
ACACTTATCGAC
Found at i:201552 original size:84 final size:83
Alignment explanation
Indices: 201395--201724 Score: 410
Period size: 84 Copynumber: 3.9 Consensus size: 83
201385 CCCTTATCGA
* * *
201395 CTTTGAGCTGAGTGTAATCGAACTCGAAAGTCTTTTGTTGGCATATAACCCTTATAGCCTTGAGT
1 CTTTGAGCTGAGTGTAATCGAACTCGAAAGTC-TTTGTTGGAAGATAACCCTTCTAGCCTTGAGT
201460 TATGCTGCAAATGATGTGC
65 TATGCTGCAAATGATGTGC
* * * * * * *
201479 CTTTGAGCTAAGTGTAATCGAACTCGAAAGTCTTTGGTTGGAAGATAGCACTTCTCGACTTAAGC
1 CTTTGAGCTGAGTGTAATCGAACTCGAAAGTCTTT-GTTGGAAGATAACCCTTCTAGCCTTGAGT
*
201544 TATACTGCAAATGATGTGC
65 TATGCTGCAAATGATGTGC
* *
201563 CTTTGAGCTGAGTATAATCGAACTCGAAGGTCTTTGTT-GATAGATAACCCTTCTAGCCTTGAGT
1 CTTTGAGCTGAGTGTAATCGAACTCGAAAGTCTTTGTTGGA-AGATAACCCTTCTAGCCTTGAGT
*
201627 TATGCTGTAAATGATGTGC
65 TATGCTGCAAATGATGTGC
* * * * * * * *
201646 CTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTAGCATATAGCCCTTCTTGCCTTGAGC
1 CTTTGAGCTGAGTGTAATCGAACTCGAAAGTC-TTTGTTGGAAGATAACCCTTCTAGCCTTGAGT
*
201711 TAAGCTGCAAATGA
65 TATGCTGCAAATGA
201725 GCACGATATC
Statistics
Matches: 211, Mismatches: 31, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
82 2 0.01
83 71 0.34
84 137 0.65
85 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (83 bp):
CTTTGAGCTGAGTGTAATCGAACTCGAAAGTCTTTGTTGGAAGATAACCCTTCTAGCCTTGAGTT
ATGCTGCAAATGATGTGC
Found at i:201721 original size:167 final size:168
Alignment explanation
Indices: 201395--201724 Score: 475
Period size: 167 Copynumber: 2.0 Consensus size: 168
201385 CCCTTATCGA
* * *
201395 CTTTGAGCTGAGTGTAATCGAACTCGAAAGTCTTTTGTTGGCATATAACCCTTATAGCCTTGAGT
1 CTTTGAGCTGAGTATAATCGAACTCGAAAGTCTTTTGTTGACAGATAACCCTTATAGCCTTGAGT
* *
201460 TATGCTGCAAATGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAAGTCTTTGGTTGGAAGAT
66 TATGCTGCAAATGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAAGTCTTTGATTAGAAGAT
201525 AGCACTTCTCGACTTAAGCTATACTGCAAATGATGTGC
131 AGCACTTCTCGACTTAAGCTATACTGCAAATGATGTGC
* * *
201563 CTTTGAGCTGAGTATAATCGAACTCGAAGGTC-TTTGTTGATAGATAACCCTTCTAGCCTTGAGT
1 CTTTGAGCTGAGTATAATCGAACTCGAAAGTCTTTTGTTGACAGATAACCCTTATAGCCTTGAGT
* * * * * *
201627 TATGCTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTATTAGCATAT
66 TATGCTGCAAATGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAAGTCTTTGATTAGAAGAT
* * * *
201692 AGCCCTTCTTGCCTTGAGCTA-AGCTGCAAATGA
131 AGCACTTCTCGACTTAAGCTATA-CTGCAAATGA
201725 GCACGATATC
Statistics
Matches: 143, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
166 1 0.01
167 112 0.78
168 30 0.21
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (168 bp):
CTTTGAGCTGAGTATAATCGAACTCGAAAGTCTTTTGTTGACAGATAACCCTTATAGCCTTGAGT
TATGCTGCAAATGATGTGCCTTTGAGCTAAGTGTAATCGAACTCGAAAGTCTTTGATTAGAAGAT
AGCACTTCTCGACTTAAGCTATACTGCAAATGATGTGC
Found at i:202159 original size:43 final size:43
Alignment explanation
Indices: 202112--202195 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
202102 ATTCCCTTCG
**
202112 TCGTGAAGTTGAAACCGTGGATGTGTGGGCACGATATCCTCCA
1 TCGTGAAGTTGAAACCGTGGATCCGTGGGCACGATATCCTCCA
* * * *
202155 TCGTGGAGTTGAAATCGTGGATCCGTTGGTACGATATCCTC
1 TCGTGAAGTTGAAACCGTGGATCCGTGGGCACGATATCCTC
202196 TGTCGTCTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (43 bp):
TCGTGAAGTTGAAACCGTGGATCCGTGGGCACGATATCCTCCA
Found at i:202516 original size:15 final size:16
Alignment explanation
Indices: 202487--202521 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
202477 GGGGCTAAGT
202487 CAGAGCAGACCCGAAG
1 CAGAGCAGACCCGAAG
202503 CAGAGCAG-CCCGAAG
1 CAGAGCAGACCCGAAG
202518 CAGA
1 CAGA
202522 ACAGTTGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.37, C:0.31, G:0.31, T:0.00
Consensus pattern (16 bp):
CAGAGCAGACCCGAAG
Found at i:205414 original size:45 final size:48
Alignment explanation
Indices: 205339--205437 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 48
205329 ATTTATTTTC
* *
205339 ATTTTTCGAATAAATGCTTGCGAACTAGATATCATGCGGTTAGG-TTT
1 ATTTTTCGAATAAATGCATGCGAACTAGATATCATGAGGTTAGGATTT
* *
205386 ATTTTTTGAAT-AA-GCATGCGAATTAGATATCATGAGGTTAGGATTT
1 ATTTTTCGAATAAATGCATGCGAACTAGATATCATGAGGTTAGGATTT
*
205432 CTTTTT
1 ATTTTT
205438 GTGGATAACA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
45 26 0.57
46 10 0.22
47 10 0.22
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.41
Consensus pattern (48 bp):
ATTTTTCGAATAAATGCATGCGAACTAGATATCATGAGGTTAGGATTT
Found at i:213327 original size:31 final size:31
Alignment explanation
Indices: 213289--213442 Score: 274
Period size: 31 Copynumber: 5.0 Consensus size: 31
213279 CCCGAAGGAC
* *
213289 CAGTCCATA-GATTCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
213320 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
213351 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
213382 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
213413 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
213443 CCCTCGACCC
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:214147 original size:21 final size:21
Alignment explanation
Indices: 214117--214161 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
214107 ATTCTGTCGT
* *
214117 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
214138 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
214159 TTG
1 TTG
214162 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:218016 original size:31 final size:31
Alignment explanation
Indices: 217959--218111 Score: 265
Period size: 31 Copynumber: 5.0 Consensus size: 31
217949 CCCGAAGGAC
* *
217959 CAGTCCATA-GATTCCG-AGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
217989 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
218020 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
218051 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
218082 CAGTCCATATGTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
218112 CCCTCGACCC
Statistics
Matches: 119, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
30 13 0.11
31 106 0.89
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:218815 original size:21 final size:21
Alignment explanation
Indices: 218785--218829 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
218775 ATTCTGTCGT
* *
218785 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
218806 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
218827 TTG
1 TTG
218830 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:222064 original size:18 final size:18
Alignment explanation
Indices: 222027--222156 Score: 76
Period size: 18 Copynumber: 7.1 Consensus size: 18
222017 ATTTTGCTTG
*
222027 AAGAAGAAATAAAAGAGAA
1 AAGAAGAAA-AAATGAGAA
222046 AAGAAGAAAAAATGAGAA
1 AAGAAGAAAAAATGAGAA
*
222064 AA-AAGAAAAATGATGGAAAA
1 AAGAAGAAAAA--AT-GAGAA
**
222084 AACGAAAAGAAAAAAAAAGAA
1 AA-G--AAGAAAAAATGAGAA
222105 GAAG-AGAAAAAATG-GAAA
1 -AAGAAGAAAAAATGAG-AA
222123 AAGGAAG-AAAAA-GAGAA
1 AA-GAAGAAAAAATGAGAA
*
222140 AA-ATGAAAAAA-GAGAA
1 AAGAAGAAAAAATGAGAA
222156 A
1 A
222157 TAAAAGGAGG
Statistics
Matches: 90, Mismatches: 8, Indels: 29
0.71 0.06 0.23
Matches are distributed among these distances:
15 2 0.02
16 11 0.12
17 16 0.18
18 27 0.30
19 13 0.14
20 6 0.07
21 4 0.04
22 3 0.03
24 8 0.09
ACGTcount: A:0.73, C:0.01, G:0.22, T:0.05
Consensus pattern (18 bp):
AAGAAGAAAAAATGAGAA
Found at i:222122 original size:27 final size:25
Alignment explanation
Indices: 222088--222150 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 25
222078 GGAAAAAACG
*
222088 AAAA-GAAAAAAAAAGAAGAAGAGAA
1 AAAATGAAAAAAAAAGAAAAAGAG-A
**
222113 AAAATGGAAAAAGGAAGAAAAAGAGA
1 AAAAT-GAAAAAAAAAGAAAAAGAGA
222139 AAAATGAAAAAA
1 AAAATGAAAAAA
222151 GAGAAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 10 0.31
26 6 0.19
27 16 0.50
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (25 bp):
AAAATGAAAAAAAAAGAAAAAGAGA
Found at i:222162 original size:27 final size:27
Alignment explanation
Indices: 222088--222151 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
222078 GGAAAAAACG
* *
222088 AAAA-GAAAAAA-AAAGAAGAAGAGAA
1 AAAATGAAAAAAGGAAGAAAAAGAGAA
*
222113 AAAATGGAAAAAGGAAGAAAAAGAG-A
1 AAAATGAAAAAAGGAAGAAAAAGAGAA
222139 AAAATGAAAAAAG
1 AAAATGAAAAAAG
222152 AGAAATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 4 0.12
26 19 0.58
27 10 0.30
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (27 bp):
AAAATGAAAAAAGGAAGAAAAAGAGAA
Found at i:228351 original size:13 final size:13
Alignment explanation
Indices: 228335--228411 Score: 82
Period size: 13 Copynumber: 5.4 Consensus size: 13
228325 CCCGTTGACC
228335 TGACCCGACCCGT
1 TGACCCGACCCGT
228348 TGACCCGACCCGACCCGT
1 TGA--C--C-CGACCCGT
228366 TGACCCGACCCGT
1 TGACCCGACCCGT
228379 TGACCCGACCCGT
1 TGACCCGACCCGT
*
228392 TGACCGTTGACCCGT
1 TGACC--CGACCCGT
228407 TGACC
1 TGACC
228412 GTTGACCGGA
Statistics
Matches: 56, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
13 29 0.52
14 1 0.02
15 13 0.23
16 1 0.02
17 1 0.02
18 11 0.20
ACGTcount: A:0.16, C:0.44, G:0.23, T:0.17
Consensus pattern (13 bp):
TGACCCGACCCGT
Found at i:228356 original size:31 final size:32
Alignment explanation
Indices: 228318--228405 Score: 121
Period size: 31 Copynumber: 2.8 Consensus size: 32
228308 GTCACAACCC
228318 GACCCGACCCGTTGACC-TGACCCGACCCGTT
1 GACCCGACCCGTTGACCGTGACCCGACCCGTT
228349 GACCCGACCC---GACCCGTTGACCCGACCCGTT
1 GACCCGACCCGTTGA-CCG-TGACCCGACCCGTT
228380 GACCCGACCCGTTGACCGTTGACCCG
1 GACCCGACCCGTTGACCG-TGACCCG
228406 TTGACCGTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
28 2 0.04
29 2 0.04
31 34 0.67
33 11 0.22
34 2 0.04
ACGTcount: A:0.16, C:0.45, G:0.24, T:0.15
Consensus pattern (32 bp):
GACCCGACCCGTTGACCGTGACCCGACCCGTT
Found at i:228370 original size:8 final size:8
Alignment explanation
Indices: 228359--228418 Score: 64
Period size: 8 Copynumber: 8.5 Consensus size: 8
228349 GACCCGACCC
228359 GACCCGTT
1 GACCCGTT
228367 GACCC---
1 GACCCGTT
228372 GACCCGTT
1 GACCCGTT
228380 GACCC---
1 GACCCGTT
228385 GACCCGTT
1 GACCCGTT
228393 GA-CCGTT
1 GACCCGTT
228400 GACCCGTT
1 GACCCGTT
228408 GA-CCGTT
1 GACCCGTT
228415 GACC
1 GACC
228419 GGAGTTGACC
Statistics
Matches: 44, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
5 10 0.23
7 14 0.32
8 20 0.45
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:228390 original size:18 final size:18
Alignment explanation
Indices: 228314--228377 Score: 119
Period size: 18 Copynumber: 3.6 Consensus size: 18
228304 ACCGGTCACA
228314 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
228332 ACCTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
228350 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
228368 ACCCGACCCG
1 ACCCGACCCG
228378 TTGACCCGAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.17, C:0.50, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:228400 original size:7 final size:7
Alignment explanation
Indices: 228388--228419 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
228378 TTGACCCGAC
228388 CCGTTGA
1 CCGTTGA
228395 CCGTTGA
1 CCGTTGA
228402 CCCGTTGA
1 -CCGTTGA
228410 CCGTTGA
1 CCGTTGA
228417 CCG
1 CCG
228420 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:228418 original size:15 final size:13
Alignment explanation
Indices: 228354--228411 Score: 89
Period size: 13 Copynumber: 4.3 Consensus size: 13
228344 CCGTTGACCC
228354 GACCCGACCCGTT
1 GACCCGACCCGTT
228367 GACCCGACCCGTT
1 GACCCGACCCGTT
228380 GACCCGACCCGTT
1 GACCCGACCCGTT
*
228393 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
228408 GACC
1 GACC
228412 GTTGACCGGA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
13 30 0.71
15 12 0.29
ACGTcount: A:0.16, C:0.43, G:0.24, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:229756 original size:18 final size:18
Alignment explanation
Indices: 229730--229765 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
229720 TCAAAAGGAC
*
229730 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
229748 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
229766 CAGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:230987 original size:24 final size:24
Alignment explanation
Indices: 230891--230999 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
230881 GAATATTTTA
* *
230891 TCTGATTTCTGATTTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
230915 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
230939 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTATGT
230963 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* *
230987 TTTGATTTCTGAT
1 TCTGATATCTGAT
231000 ATCTCCGTTT
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 63 0.97
25 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTATGT
Found at i:233166 original size:31 final size:32
Alignment explanation
Indices: 233129--233229 Score: 129
Period size: 31 Copynumber: 3.2 Consensus size: 32
233119 GTCACAACCC
*
233129 GACCCGACCCGTTTACCCGACCCGTTGACC-T
1 GACCCGACCCGTTGACCCGACCCGTTGACCGT
*
233160 GACCCGACCTGTTGACCCGACCC---GACCCGTT
1 GACCCGACCCGTTGACCCGACCCGTTGA-CCG-T
233191 GACCCGACCCGTTGACCCGACCCGTTGACCGTT
1 GACCCGACCCGTTGACCCGACCCGTTGACCG-T
233224 GACCCG
1 GACCCG
233230 TTGACCGTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
28 2 0.03
29 2 0.03
31 44 0.72
33 11 0.18
34 2 0.03
ACGTcount: A:0.16, C:0.45, G:0.23, T:0.17
Consensus pattern (32 bp):
GACCCGACCCGTTGACCCGACCCGTTGACCGT
Found at i:233194 original size:8 final size:8
Alignment explanation
Indices: 233183--233242 Score: 64
Period size: 8 Copynumber: 8.5 Consensus size: 8
233173 GACCCGACCC
233183 GACCCGTT
1 GACCCGTT
233191 GACCC---
1 GACCCGTT
233196 GACCCGTT
1 GACCCGTT
233204 GACCC---
1 GACCCGTT
233209 GACCCGTT
1 GACCCGTT
233217 GA-CCGTT
1 GACCCGTT
233224 GACCCGTT
1 GACCCGTT
233232 GA-CCGTT
1 GACCCGTT
233239 GACC
1 GACC
233243 GGAGTTGACC
Statistics
Matches: 44, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
5 10 0.23
7 14 0.32
8 20 0.45
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:233214 original size:18 final size:18
Alignment explanation
Indices: 233143--233201 Score: 100
Period size: 18 Copynumber: 3.3 Consensus size: 18
233133 CGACCCGTTT
*
233143 ACCCGACCCGTTGACCTG
1 ACCCGACCCGTTGACCCG
*
233161 ACCCGACCTGTTGACCCG
1 ACCCGACCCGTTGACCCG
233179 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
233197 ACCCG
1 ACCCG
233202 TTGACCCGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.17, C:0.47, G:0.22, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:233224 original size:7 final size:7
Alignment explanation
Indices: 233212--233243 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
233202 TTGACCCGAC
233212 CCGTTGA
1 CCGTTGA
233219 CCGTTGA
1 CCGTTGA
233226 CCCGTTGA
1 -CCGTTGA
233234 CCGTTGA
1 CCGTTGA
233241 CCG
1 CCG
233244 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:233242 original size:15 final size:13
Alignment explanation
Indices: 233129--233235 Score: 91
Period size: 13 Copynumber: 8.3 Consensus size: 13
233119 GTCACAACCC
233129 GACCCGACCCGTT
1 GACCCGACCCGTT
*
233142 TACCCGACCCGTT
1 GACCCGACCCGTT
*
233155 GACCTGACCC---
1 GACCCGACCCGTT
*
233165 GACCTGTTGACCC---
1 GACC---CGACCCGTT
233178 GACCCGACCCGTT
1 GACCCGACCCGTT
233191 GACCCGACCCGTT
1 GACCCGACCCGTT
233204 GACCCGACCCGTT
1 GACCCGACCCGTT
*
233217 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
233232 GACC
1 GACC
233236 GTTGACCGGA
Statistics
Matches: 81, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.11
13 60 0.74
15 12 0.15
ACGTcount: A:0.16, C:0.44, G:0.22, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:234581 original size:18 final size:18
Alignment explanation
Indices: 234555--234590 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
234545 TCAAAAGGAC
*
234555 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
234573 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
234591 CAGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:235813 original size:24 final size:24
Alignment explanation
Indices: 235717--235825 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
235707 GAATATTTTA
* *
235717 TCTGATTTCTGATTTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
235741 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
235765 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTATGT
235789 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* *
235813 TTTGATTTCTGAT
1 TCTGATATCTGAT
235826 ATCTCCGTTT
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 63 0.97
25 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTATGT
Found at i:241930 original size:27 final size:27
Alignment explanation
Indices: 241895--241950 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
241885 GAGGTGGCGT
*
241895 TTGGGGGCTGGCTT-CTGCTGCTGTGGA
1 TTGGCGGCTGG-TTGCTGCTGCTGTGGA
*
241922 TTGGCGGCTGGTTGCTGCTGTTGTGGA
1 TTGGCGGCTGGTTGCTGCTGCTGTGGA
241949 TT
1 TT
241951 CGTGACATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.04, C:0.16, G:0.43, T:0.38
Consensus pattern (27 bp):
TTGGCGGCTGGTTGCTGCTGCTGTGGA
Found at i:249134 original size:29 final size:29
Alignment explanation
Indices: 249092--249150 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
249082 ATTTTCACCT
249092 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
*
249121 AACTAAATTGATGTACGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
249150 A
1 A
249151 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:253787 original size:29 final size:29
Alignment explanation
Indices: 253745--253803 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
253735 ATTTTCACCT
253745 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
253774 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
253803 A
1 A
253804 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:256923 original size:3 final size:3
Alignment explanation
Indices: 256909--256983 Score: 96
Period size: 3 Copynumber: 24.7 Consensus size: 3
256899 CCATTTTGAT
* *
256909 TTA TTGA TTA TTA TTA TTA TTA TCA TTA TTA TTA GTA TTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
256955 TAA ATA TTA CTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
256984 GAAGGCCCAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
3 58 0.95
4 3 0.05
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:284840 original size:36 final size:36
Alignment explanation
Indices: 284769--284841 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
284759 GTTTAAAAAT
* *
284769 ATTTATATATTTTCTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTAAAAATCATAAA
284805 ATTTATATAATTTT-TTTACAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTAAAAATCATAAA
284841 A
1 A
284842 AAGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 18 0.55
37 15 0.45
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAATTAAAAATCATAAA
Found at i:292253 original size:24 final size:24
Alignment explanation
Indices: 292221--292280 Score: 104
Period size: 23 Copynumber: 2.5 Consensus size: 24
292211 AAAGAGCTAT
292221 TAAATCTCTTTTAAATAAAATAAA
1 TAAATCTCTTTTAAATAAAATAAA
*
292245 TCAATCTCTTTT-AATAAAATAAA
1 TAAATCTCTTTTAAATAAAATAAA
292268 TAAATCTCTTTTA
1 TAAATCTCTTTTA
292281 TCTTTATCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 22 0.67
24 11 0.33
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (24 bp):
TAAATCTCTTTTAAATAAAATAAA
Found at i:309240 original size:20 final size:21
Alignment explanation
Indices: 309215--309253 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
309205 AAAAAAAATC
*
309215 CATGCTTCACTTT-CCTTTTA
1 CATGCTACACTTTGCCTTTTA
309235 CATGCTACACTTTGCCTTT
1 CATGCTACACTTTGCCTTT
309254 ATATTTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.46
Consensus pattern (21 bp):
CATGCTACACTTTGCCTTTTA
Found at i:311367 original size:2 final size:2
Alignment explanation
Indices: 311362--311389 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
311352 TAAAAAATTT
311362 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
311390 CACGCACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:317656 original size:23 final size:23
Alignment explanation
Indices: 317630--317674 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
317620 TTTTTATCAT
317630 AAAATCTTACTCCCGTTCATGAA
1 AAAATCTTACTCCCGTTCATGAA
* *
317653 AAAATCTTACTTCCGTTTATGA
1 AAAATCTTACTCCCGTTCATGA
317675 CTGTGAGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (23 bp):
AAAATCTTACTCCCGTTCATGAA
Found at i:322492 original size:18 final size:18
Alignment explanation
Indices: 322448--322493 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
322438 TAAACTATAT
*
322448 TTAAAATTAATTTTTTTG
1 TTAAAATAAATTTTTTTG
*
322466 TGTCTAAATAAATTTTTTTG
1 T-T-AAAATAAATTTTTTTG
322486 TTAAAATA
1 TTAAAATA
322494 GGTATCTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 6 0.26
19 2 0.09
20 15 0.65
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (18 bp):
TTAAAATAAATTTTTTTG
Found at i:322605 original size:24 final size:23
Alignment explanation
Indices: 322573--322621 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
322563 GTCACGTACA
* *
322573 ATTTATTTTAAAAATTAAATAAT
1 ATTTATTTTAAAAAATAAAAAAT
322596 ATTTAATTTTAAAAAATAAAAAAT
1 ATTT-ATTTTAAAAAATAAAAAAT
322620 AT
1 AT
322622 ATATAACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTATTTTAAAAAATAAAAAAT
Found at i:324947 original size:2 final size:2
Alignment explanation
Indices: 324940--324965 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
324930 CCGTACTCCA
324940 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
324966 GGGGGGCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:325621 original size:6 final size:6
Alignment explanation
Indices: 325610--325673 Score: 128
Period size: 6 Copynumber: 10.7 Consensus size: 6
325600 TTTATTTGAA
325610 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
325658 ACGACC ACGACC ACGA
1 ACGACC ACGACC ACGA
325674 GCCGAGCCGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.34, C:0.48, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:325681 original size:5 final size:5
Alignment explanation
Indices: 325671--325709 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
325661 ACCACGACCA
* * *
325671 CGAGC CGAGC CGAGC CGAGC CGTGC CGTGC CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
325710 ACGGACGGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.18, C:0.36, G:0.41, T:0.05
Consensus pattern (5 bp):
CGAGC
Found at i:326793 original size:17 final size:17
Alignment explanation
Indices: 326771--326803 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
326761 TTTCATTTAA
326771 AATTT-ATTGTATTTGCT
1 AATTTAATT-TATTTGCT
326788 AATTTAATTTATTTGC
1 AATTTAATTTATTTGC
326804 AAAAGGGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (17 bp):
AATTTAATTTATTTGCT
Found at i:330469 original size:10 final size:10
Alignment explanation
Indices: 330454--330483 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
330444 GGGAAATCAC
330454 GGAGAGAGAG
1 GGAGAGAGAG
330464 GGAGAGAGAG
1 GGAGAGAGAG
*
330474 AGAGAGAGAG
1 GGAGAGAGAG
330484 TGCACAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (10 bp):
GGAGAGAGAG
Found at i:330707 original size:91 final size:91
Alignment explanation
Indices: 330567--330749 Score: 366
Period size: 91 Copynumber: 2.0 Consensus size: 91
330557 TGCTCGTACG
330567 GATGAAATGGGAAGAGAGATAAAAAAAATTCTTTAACCGTAGAGACAAGAGAGGGGCAATTGCAA
1 GATGAAATGGGAAGAGAGATAAAAAAAATTCTTTAACCGTAGAGACAAGAGAGGGGCAATTGCAA
330632 AGGACATGGTTATGGATTTTATCACA
66 AGGACATGGTTATGGATTTTATCACA
330658 GATGAAATGGGAAGAGAGATAAAAAAAATTCTTTAACCGTAGAGACAAGAGAGGGGCAATTGCAA
1 GATGAAATGGGAAGAGAGATAAAAAAAATTCTTTAACCGTAGAGACAAGAGAGGGGCAATTGCAA
330723 AGGACATGGTTATGGATTTTATCACA
66 AGGACATGGTTATGGATTTTATCACA
330749 G
1 G
330750 TGTTTGCGGG
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.22
Consensus pattern (91 bp):
GATGAAATGGGAAGAGAGATAAAAAAAATTCTTTAACCGTAGAGACAAGAGAGGGGCAATTGCAA
AGGACATGGTTATGGATTTTATCACA
Found at i:331610 original size:2 final size:2
Alignment explanation
Indices: 331605--331629 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
331595 CTTATCCTCC
331605 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
331630 TAATCTCTCA
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:339507 original size:10 final size:11
Alignment explanation
Indices: 339484--339510 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
339474 CACGTCAATA
339484 TTTTATTAATT
1 TTTTATTAATT
339495 TTTTATTAATT
1 TTTTATTAATT
339506 TTTTA
1 TTTTA
339511 ACGACGGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTATTAATT
Found at i:345745 original size:7 final size:7
Alignment explanation
Indices: 345721--345761 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
345711 TCTCGTCTCG
345721 TGGTCG-
1 TGGTCGT
345727 TGGTCG-
1 TGGTCGT
345733 TGGTCGT
1 TGGTCGT
345740 TGGTCGT
1 TGGTCGT
345747 TGGTCGT
1 TGGTCGT
345754 TGGTCGT
1 TGGTCGT
345761 T
1 T
345762 TTCGTAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 12 0.35
7 22 0.65
ACGTcount: A:0.00, C:0.15, G:0.44, T:0.41
Consensus pattern (7 bp):
TGGTCGT
Found at i:347257 original size:27 final size:28
Alignment explanation
Indices: 347215--347276 Score: 117
Period size: 27 Copynumber: 2.2 Consensus size: 28
347205 TCCTCGGCTG
347215 ATCACCTAGTAGAATAACCTACCCCTGA
1 ATCACCTAGTAGAATAACCTACCCCTGA
347243 ATCACCTAGTA-AATAACCTACCCCTGA
1 ATCACCTAGTAGAATAACCTACCCCTGA
347270 ATCACCT
1 ATCACCT
347277 GCAGATGTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 23 0.68
28 11 0.32
ACGTcount: A:0.35, C:0.34, G:0.08, T:0.23
Consensus pattern (28 bp):
ATCACCTAGTAGAATAACCTACCCCTGA
Found at i:350461 original size:19 final size:19
Alignment explanation
Indices: 350437--350474 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
350427 TGTCGCAAGG
*
350437 AGCACTTGGCGACCTATGA
1 AGCACTTGGCGACCAATGA
350456 AGCACTTGGCGACCAATGA
1 AGCACTTGGCGACCAATGA
350475 GGTCACTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.18
Consensus pattern (19 bp):
AGCACTTGGCGACCAATGA
Found at i:350840 original size:12 final size:12
Alignment explanation
Indices: 350823--350847 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
350813 TGTAACAATA
350823 AACTTTAATTTT
1 AACTTTAATTTT
350835 AACTTTAATTTT
1 AACTTTAATTTT
350847 A
1 A
350848 TCACTAGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (12 bp):
AACTTTAATTTT
Found at i:356221 original size:31 final size:32
Alignment explanation
Indices: 356167--356228 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
356157 AAAAAATAAG
*
356167 ATATTGTCACTTTCATTTTTTATTTAATTAAA
1 ATATGGTCACTTTCATTTTTTATTTAATTAAA
356199 ATATGGTCACTTTCA-TTTTTATTTAATTAA
1 ATATGGTCACTTTCATTTTTTATTTAATTAA
356229 GATGTGATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (32 bp):
ATATGGTCACTTTCATTTTTTATTTAATTAAA
Found at i:356425 original size:16 final size:17
Alignment explanation
Indices: 356404--356436 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
356394 AAAATATTTT
356404 TAAATTA-AGTTAATAA
1 TAAATTATAGTTAATAA
*
356420 TAAATTATATTTAATAA
1 TAAATTATAGTTAATAA
356437 GTTAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TAAATTATAGTTAATAA
Found at i:356441 original size:25 final size:23
Alignment explanation
Indices: 356409--356478 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 23
356399 ATTTTTAAAT
*
356409 TAAGTTAATAATAAATTATATTTAA
1 TAAGTTAATAATAAA-AATATTT-A
*
356434 TAAGTTAAT-ATAAAAATATTTT
1 TAAGTTAATAATAAAAATATTTA
356456 TAAGTTAATATATATAAAATATT
1 TAAGTTAATA-ATA-AAAATATT
356479 ATGAATTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 8 0.20
25 17 0.43
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (23 bp):
TAAGTTAATAATAAAAATATTTA
Found at i:356488 original size:25 final size:23
Alignment explanation
Indices: 356435--356492 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 23
356425 TATATTTAAT
* *
356435 AAGTT-AATATAAAAATATTTTT
1 AAGTTAAATATAAAAATATTATG
356457 AAGTTAATATATATAAAATATTATG
1 AAGTTAA-ATATA-AAAATATTATG
*
356482 AATTTAAATAT
1 AAGTTAAATAT
356493 TTATACACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 5 0.17
23 1 0.03
24 9 0.30
25 15 0.50
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (23 bp):
AAGTTAAATATAAAAATATTATG
Found at i:357401 original size:8 final size:8
Alignment explanation
Indices: 357388--357452 Score: 51
Period size: 8 Copynumber: 7.8 Consensus size: 8
357378 TACTTTTTAT
357388 TTTTATTA
1 TTTTATTA
357396 TTTTATTTA
1 TTTTA-TTA
*
357405 TTTT-TTC
1 TTTTATTA
*
357412 TTTTATTTTCT
1 TTTTA--TT-A
*
357423 TTTTATTC
1 TTTTATTA
357431 TTTTATTA
1 TTTTATTA
*
357439 TTTTATTT
1 TTTTATTA
357447 TTTTAT
1 TTTTAT
357453 ATTAATTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
7 6 0.13
8 25 0.53
9 9 0.19
10 2 0.04
11 5 0.11
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTATTA
Found at i:357417 original size:16 final size:17
Alignment explanation
Indices: 357383--357462 Score: 74
Period size: 16 Copynumber: 4.5 Consensus size: 17
357373 GTATTTACTT
*
357383 TTTATTTTTATTATTTTA
1 TTTA-TTTTATTCTTTTA
357401 TTTATTTT-TTCTTTTA
1 TTTATTTTATTCTTTTA
*
357417 TTTTCTTTTTATTCTTTTA
1 -TTT-ATTTTATTCTTTTA
*
357436 -TTATTTTATTTTTTTA
1 TTTATTTTATTCTTTTA
357452 TATTAATTTTA
1 T-TT-ATTTTA
357463 GAGAAAGGGT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
16 19 0.37
17 9 0.17
18 10 0.19
19 14 0.27
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTATTTTATTCTTTTA
Found at i:357428 original size:35 final size:35
Alignment explanation
Indices: 357382--357462 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
357372 TGTATTTACT
357382 TTTTATTTTTATTATTTTATTTATTTT-TTCTTTTA
1 TTTTATTTTTATTATTTTA-TTATTTTATTCTTTTA
* * *
357417 TTTTCTTTTTATTCTTTTATTATTTTATTTTTTTA
1 TTTTATTTTTATTATTTTATTATTTTATTCTTTTA
* *
357452 TATTAATTTTA
1 TTTTATTTTTA
357463 GAGAAAGGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 7 0.18
35 32 0.82
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.78
Consensus pattern (35 bp):
TTTTATTTTTATTATTTTATTATTTTATTCTTTTA
Found at i:370499 original size:2 final size:2
Alignment explanation
Indices: 370492--370523 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
370482 AGAATCAATC
*
370492 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
370524 GCAAAAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:376676 original size:1 final size:1
Alignment explanation
Indices: 376670--376702 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
376660 ATTCCTCCTC
376670 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
376703 CAGGTTCAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:377071 original size:2 final size:2
Alignment explanation
Indices: 377064--377095 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
377054 TGGGCTTTTG
377064 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
377096 ATAATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:377124 original size:16 final size:15
Alignment explanation
Indices: 377100--377149 Score: 73
Period size: 16 Copynumber: 3.2 Consensus size: 15
377090 TATATAATAA
377100 TAATAATAATAATATT
1 TAATAATAATAA-ATT
*
377116 TAGTAATAATAAATT
1 TAATAATAATAAATT
377131 TAATAATAATAAAATT
1 TAATAATAAT-AAATT
377147 TAA
1 TAA
377150 ATGAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
TAATAATAATAAATT
Found at i:377438 original size:77 final size:76
Alignment explanation
Indices: 377269--377816 Score: 1017
Period size: 76 Copynumber: 7.2 Consensus size: 76
377259 GATGGAAATG
* * * *
377269 TTTGAAAACATCATGCAC-GAAAGGGCTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTG-AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGA
377333 TCCCGAAGGCTT
65 TCCCGAAGGCTT
377345 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAAGA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAAGA
377410 TCCCGAAGGCTT
65 TCCCGAAGGCTT
377422 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
377487 CCCGAAGGCTT
66 CCCGAAGGCTT
377498 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAAGA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAAGA
377563 TCCCGAAGGCTT
65 TCCCGAAGGCTT
377575 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAAGA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAAGA
377640 TCCCGAAGGCTT
65 TCCCGAAGGCTT
377652 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
377717 CCCGAAGGCTT
66 CCCGAAGGCTT
377728 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
377793 CCCGAAGGCTT
66 CCCGAAGGCTT
377804 TTTGGAAACATCA
1 TTTGGAAACATCA
377817 AAAAGCTCCC
Statistics
Matches: 465, Mismatches: 4, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
76 236 0.51
77 229 0.49
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
CCCGAAGGCTT
Found at i:377552 original size:153 final size:153
Alignment explanation
Indices: 377269--377816 Score: 1028
Period size: 153 Copynumber: 3.6 Consensus size: 153
377259 GATGGAAATG
* * * *
377269 TTTGAAAACATCATGCAC-GAAAGGGCTTATAGATGACCCGAAGGCTTTGAAAACATCAAAAAGC
1 TTTGGAAACATCATGCACTG-AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGA
377333 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
65 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
377398 CATCAAAAAAGATCCCGAAGGCTT
130 CATCAAAAAAGATCCCGAAGGCTT
377422 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
377487 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
66 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
377552 ATCAAAAAAGATCCCGAAGGCTT
131 ATCAAAAAAGATCCCGAAGGCTT
377575 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAAGA
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAAGA
377640 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
65 TCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAA
377705 CATC-AAAAAGATCCCGAAGGCTT
130 CATCAAAAAAGATCCCGAAGGCTT
377728 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
377793 CCCGAAGGCTTTTTGGAAACATCA
66 CCCGAAGGCTTTTTGGAAACATCA
377817 AAAAGCTCCC
Statistics
Matches: 389, Mismatches: 4, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
152 32 0.08
153 280 0.72
154 77 0.20
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (153 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAAGATCCCGAAGGCTT
Found at i:377816 original size:31 final size:31
Alignment explanation
Indices: 377764--377847 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
377754 TTACAGATGA
*
377764 CCCGAAGGC--TTTGAAAACATCAAAAAGAT
1 CCCGAAGGCTTTTTGGAAACATCAAAAAGAT
*
377793 CCCGAAGGCTTTTTGGAAACATCAAAAAGCT
1 CCCGAAGGCTTTTTGGAAACATCAAAAAGAT
377824 CCCGAAGGCTTTTTGGAAACATCA
1 CCCGAAGGCTTTTTGGAAACATCA
377848 TGCACTGAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
29 9 0.18
31 42 0.82
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (31 bp):
CCCGAAGGCTTTTTGGAAACATCAAAAAGAT
Found at i:377820 original size:107 final size:107
Alignment explanation
Indices: 377688--377923 Score: 440
Period size: 107 Copynumber: 2.2 Consensus size: 107
377678 TTACAGATGA
*
377688 CCCGAAGGC--TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAG
1 CCCGAAGGCTTTTTGGAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAG
377751 GACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
66 GACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
*
377793 CCCGAAGGCTTTTTGGAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAG
1 CCCGAAGGCTTTTTGGAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAG
377858 GACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
66 GACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
377900 CCCGAAGGCTTTTTGGAAACATCA
1 CCCGAAGGCTTTTTGGAAACATCA
377924 TGCACTGAAG
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
105 9 0.07
107 118 0.93
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (107 bp):
CCCGAAGGCTTTTTGGAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAG
GACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGAT
Done.