Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008744.1 Hibiscus syriacus cultivar Beakdansim tig00111833_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: 364351
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:10180 original size:18 final size:18
Alignment explanation
Indices: 10144--10188 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
10134 ATATTTCAAG
*
10144 TTCAATTTA--TTGGAGA
1 TTCAATTTATTTTGGAAA
10160 TTCAATTTATTTTGGAAA
1 TTCAATTTATTTTGGAAA
10178 TTCAATTTATT
1 TTCAATTTATT
10189 CTTTTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 9 0.35
18 17 0.65
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (18 bp):
TTCAATTTATTTTGGAAA
Found at i:11054 original size:84 final size:84
Alignment explanation
Indices: 10955--11266 Score: 583
Period size: 84 Copynumber: 3.7 Consensus size: 84
10945 CATTAACTGA
10955 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
11020 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTGG
11039 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
11104 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTGG
11123 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
11188 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTGG
* * *
11207 AAGATGAATTTGC-CAATAGCATCTT-TGAAAGTGTTCTTTGAGTTATCTAATCTGGTTTGG
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGG
11267 TAAAAATTAC
Statistics
Matches: 225, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
82 32 0.14
83 12 0.05
84 181 0.80
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (84 bp):
AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
AACCAATCATTGAATTTGG
Found at i:12325 original size:113 final size:113
Alignment explanation
Indices: 11995--12672 Score: 1013
Period size: 113 Copynumber: 6.0 Consensus size: 113
11985 CAAAGATTCA
* * *
11995 AATCTATCATTTGATGGATTATCTTTTCCAGA-GAAGGTTCATAATGAGAAGAACTCATCATCTG
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGGAA-GTTCATAATGAGAAGAA--C-TCATCTG
* **
12059 AAGGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTG
62 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
* * * * *
12111 AATTCATCACTTGATGGATTA-TTTTTGCCAGA-GAAGTTCATAATGAGAAGAACTCATCTGAAA
1 AATCCATCATTTGATGGATCAGCTTTT-CCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAG
12174 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
12223 AATCCATCATTTGATGGATCAGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
12288 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTCCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
12336 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGA
12401 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
12449 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
12514 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
* * * * *
12562 AATTCATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGGA-AGTTCATAATGAGAAGAA--C-TCATCTG
* * * * *
12626 AAGAAGAAAGAAAAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
62 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
12673 GCATAATTCT
Statistics
Matches: 527, Mismatches: 28, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
112 80 0.15
113 350 0.66
115 22 0.04
116 75 0.14
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCAGCTTTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:12999 original size:3 final size:3
Alignment explanation
Indices: 12991--13098 Score: 189
Period size: 3 Copynumber: 35.7 Consensus size: 3
12981 TTTTTATCCA
*
12991 TAT TAT TAT TAT TAA 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
13039 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
*
13087 TAA TAT ATAT TA
1 TAT TAT -TAT TA
13099 AACATATATA
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
3 97 0.97
4 3 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:13574 original size:18 final size:18
Alignment explanation
Indices: 13540--13574 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13530 AAAAAAAAAA
*
13540 GGGACAGAGACAGAGAAC
1 GGGACAGAGACACAGAAC
*
13558 GGGACAGAGAGACAGAA
1 GGGACAGAGACACAGAA
13575 AAAAAGAGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.40, T:0.00
Consensus pattern (18 bp):
GGGACAGAGACACAGAAC
Found at i:13584 original size:18 final size:18
Alignment explanation
Indices: 13563--13597 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
13553 AGAACGGGAC
13563 AGAGAGACAGAAAAAAAG
1 AGAGAGACAGAAAAAAAG
13581 AGAGAGACAGAAAAAAA
1 AGAGAGACAGAAAAAAA
13598 AAACAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.26, T:0.00
Consensus pattern (18 bp):
AGAGAGACAGAAAAAAAG
Found at i:17801 original size:7 final size:7
Alignment explanation
Indices: 17791--17817 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17781 AGTAAAAGTA
17791 AATATAC
1 AATATAC
17798 AATATAC
1 AATATAC
17805 AATATAC
1 AATATAC
17812 AATATA
1 AATATA
17818 AAAACAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (7 bp):
AATATAC
Found at i:18054 original size:17 final size:17
Alignment explanation
Indices: 18032--18066 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18022 TAAATAATAA
*
18032 TTAAAATAAATATTACT
1 TTAAAATAAATATAACT
18049 TTAAAATAAATATAACT
1 TTAAAATAAATATAACT
18066 T
1 T
18067 AATAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAATAAATATAACT
Found at i:20735 original size:12 final size:12
Alignment explanation
Indices: 20718--20744 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20708 ATATTTCCCT
20718 AATTAAAGACTA
1 AATTAAAGACTA
20730 AATTAAAGACTA
1 AATTAAAGACTA
20742 AAT
1 AAT
20745 ATCCTTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (12 bp):
AATTAAAGACTA
Found at i:20882 original size:15 final size:15
Alignment explanation
Indices: 20862--20894 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
20852 ATATTTAGCT
*
20862 GGGTGGGCGGATGTG
1 GGGTGGGCGGATGCG
20877 GGGTGGGCGGATGCG
1 GGGTGGGCGGATGCG
20892 GGG
1 GGG
20895 CGGGTAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.09, G:0.70, T:0.15
Consensus pattern (15 bp):
GGGTGGGCGGATGCG
Found at i:23901 original size:21 final size:21
Alignment explanation
Indices: 23877--23925 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
23867 CATGACATCT
23877 ATAATAACAAACTTGAAATCC
1 ATAATAACAAACTTGAAATCC
* *
23898 ATAACAACCAACTTGAAATCC
1 ATAATAACAAACTTGAAATCC
23919 ATAATAA
1 ATAATAA
23926 TAAATCAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.53, C:0.20, G:0.04, T:0.22
Consensus pattern (21 bp):
ATAATAACAAACTTGAAATCC
Found at i:25867 original size:24 final size:25
Alignment explanation
Indices: 25840--25890 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
25830 TTTGATTGCT
*
25840 AACGTGAAAGT-ATAAAAATATTAA
1 AACGTGAAAGTAAAAAAAATATTAA
25864 AACGTGAAAGTAAAAAAAATATTAA
1 AACGTGAAAGTAAAAAAAATATTAA
25889 AA
1 AA
25891 AAATATCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.22
Consensus pattern (25 bp):
AACGTGAAAGTAAAAAAAATATTAA
Found at i:26731 original size:22 final size:23
Alignment explanation
Indices: 26670--26731 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
26660 CAAATGATCA
26670 AAAATATACTATAAAGA-TAGAG
1 AAAATATACTATAAAGACTAGAG
*
26692 AAAATATACTACAAAGACT-GAG
1 AAAATATACTATAAAGACTAGAG
* *
26714 AAAATATACCATACAGAC
1 AAAATATACTATAAAGAC
26732 AATATTATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.56, C:0.13, G:0.11, T:0.19
Consensus pattern (23 bp):
AAAATATACTATAAAGACTAGAG
Found at i:29722 original size:2 final size:2
Alignment explanation
Indices: 29715--29746 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
29705 GTGACATGTT
29715 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
29747 GAGGCTGATT
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:30638 original size:15 final size:16
Alignment explanation
Indices: 30608--30640 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
30598 AATTAATATC
30608 TAAAATAATATATTTT
1 TAAAATAATATATTTT
30624 TAAAATAAT-TATTTT
1 TAAAATAATATATTTT
30639 TA
1 TA
30641 GTCTATATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAAATAATATATTTT
Found at i:40461 original size:75 final size:76
Alignment explanation
Indices: 40353--40496 Score: 211
Period size: 75 Copynumber: 1.9 Consensus size: 76
40343 CGTATGGGCA
*
40353 GACACAAATAAATTTTAAGAGTGAACACCTTTAGTAAAATGAACAACTAATATAAAGAAATCCGA
1 GACACAAATAAATTTTAAGAGTGAACACATTTAGTAAAATGAACAACTAATATAAAGAAATCCGA
40418 ATTCCAGGATG
66 ATTCCAGGATG
* * * * *
40429 GACA-AAATAAAATTTTATGATTG-ACACATTTAGTAAAATGAACCACTAATATAAAGTAATTCG
1 GACACAAAT-AAATTTTAAGAGTGAACACATTTAGTAAAATGAACAACTAATATAAAGAAATCCG
40492 AATTC
65 AATTC
40497 TAGAATGAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
75 45 0.74
76 16 0.26
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.27
Consensus pattern (76 bp):
GACACAAATAAATTTTAAGAGTGAACACATTTAGTAAAATGAACAACTAATATAAAGAAATCCGA
ATTCCAGGATG
Found at i:41627 original size:35 final size:35
Alignment explanation
Indices: 41588--41657 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
41578 ACTCACAATC
41588 TATTTTGCCTCATTTATAACCTAGTTCGTAAGATT
1 TATTTTGCCTCATTTATAACCTAGTTCGTAAGATT
* * *
41623 TATTTTGTCTCATTTATAACCTATTTCTTAAGATT
1 TATTTTGCCTCATTTATAACCTAGTTCGTAAGATT
41658 GATTAATCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.50
Consensus pattern (35 bp):
TATTTTGCCTCATTTATAACCTAGTTCGTAAGATT
Found at i:44676 original size:49 final size:49
Alignment explanation
Indices: 44604--44707 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
44594 TGTCTATAGA
* *
44604 AATATTTATAATAACCTTCAGAGCGAGTGTCGGTCGTAGGTTTATAATG
1 AATATTTATAAAAACCTTCAGAGCGAGTGTCGGCCGTAGGTTTATAATG
* * *
44653 AATATTTATAAAAACCTTTAGAGCGAGTGTCTGCCGTAGGTTTATTATG
1 AATATTTATAAAAACCTTCAGAGCGAGTGTCGGCCGTAGGTTTATAATG
*
44702 ATTATT
1 AATATT
44708 CGTAAGCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (49 bp):
AATATTTATAAAAACCTTCAGAGCGAGTGTCGGCCGTAGGTTTATAATG
Found at i:55334 original size:61 final size:61
Alignment explanation
Indices: 55269--55391 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
55259 AAGGAGTTAG
55269 AGAACTAGCGACATAATTTTACTATTTCTAGGAACATAAACAAACTTGTTCACCAACCCTA
1 AGAACTAGCGACATAATTTTACTATTTCTAGGAACATAAACAAACTTGTTCACCAACCCTA
*
55330 AGAACTAGTGACATAATTTTACTATTTCTAGGAACATAAACAAACTTGTTCACCAACCCTA
1 AGAACTAGCGACATAATTTTACTATTTCTAGGAACATAAACAAACTTGTTCACCAACCCTA
55391 A
1 A
55392 ATGAACATGC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (61 bp):
AGAACTAGCGACATAATTTTACTATTTCTAGGAACATAAACAAACTTGTTCACCAACCCTA
Found at i:55462 original size:23 final size:23
Alignment explanation
Indices: 55389--55462 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
55379 TCACCAACCC
* * *
55389 TAAATGAACATGCCTACGAACATA
1 TAAACGAACATACTTACGAACA-A
* * **
55413 TAAATGAACATACTTATGAACCT
1 TAAACGAACATACTTACGAACAA
*
55436 TAAACGAACATATTTACGAACAA
1 TAAACGAACATACTTACGAACAA
55459 TAAA
1 TAAA
55463 TAGACAAATT
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 22 0.55
24 18 0.45
ACGTcount: A:0.49, C:0.18, G:0.09, T:0.24
Consensus pattern (23 bp):
TAAACGAACATACTTACGAACAA
Found at i:57082 original size:13 final size:13
Alignment explanation
Indices: 57073--57109 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
57063 ATTTATTTTT
57073 TATTTATATTATA
1 TATTTATATTATA
57086 TATTTATA-TATA
1 TATTTATATTATA
57098 TA-TTATATTATA
1 TATTTATATTATA
57110 CATTATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.22
12 10 0.43
13 8 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTTATATTATA
Found at i:57114 original size:12 final size:12
Alignment explanation
Indices: 57076--57116 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
57066 TATTTTTTAT
57076 TTATATTATATA
1 TTATATTATATA
57088 TT-TATATATATA
1 TTATAT-TATATA
*
57100 TTATATTATACA
1 TTATATTATATA
57112 TTATA
1 TTATA
57117 CATTACCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 3 0.12
12 20 0.77
13 3 0.12
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (12 bp):
TTATATTATATA
Found at i:57529 original size:12 final size:13
Alignment explanation
Indices: 57512--57544 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
57502 AAATACTCAA
57512 ATAATAAT-TTAC
1 ATAATAATATTAC
57524 ATAATAATATTAC
1 ATAATAATATTAC
57537 ATAA-AATA
1 ATAATAATA
57545 ATTTCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAATAATATTAC
Found at i:57531 original size:15 final size:15
Alignment explanation
Indices: 57511--57548 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
57501 TAAATACTCA
57511 AATAATAATTTACAT
1 AATAATAATTTACAT
57526 AATAAT-A-TTACAT
1 AATAATAATTTACAT
57539 AA-AATAATTT
1 AATAATAATTT
57549 CAAAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 9 0.43
14 3 0.14
15 6 0.29
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (15 bp):
AATAATAATTTACAT
Found at i:61455 original size:21 final size:21
Alignment explanation
Indices: 61426--61465 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
61416 CCCCATACCC
61426 AAACCTCTACAGTAGGTTTTG
1 AAACCTCTACAGTAGGTTTTG
* *
61447 AAACTTCTATAGTAGGTTT
1 AAACCTCTACAGTAGGTTT
61466 CAAAACCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
AAACCTCTACAGTAGGTTTTG
Found at i:61471 original size:21 final size:21
Alignment explanation
Indices: 61426--61473 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
61416 CCCCATACCC
**
61426 AAACCTCTACAGTAGGTTTTG
1 AAACCTCTACAGTAGGTTTCA
* *
61447 AAACTTCTATAGTAGGTTTCA
1 AAACCTCTACAGTAGGTTTCA
61468 AAACCT
1 AAACCT
61474 TTGATTGATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (21 bp):
AAACCTCTACAGTAGGTTTCA
Found at i:63694 original size:30 final size:30
Alignment explanation
Indices: 63658--63729 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
63648 CCTGAAGGAC
* *
63658 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAAAGGTCATAAAGATCCTCGGAAA
*
63688 CTATCCAAAGGTCATAAAGATCCTTGGAAA
1 CTATCCAAAGGTCATAAAGATCCTCGGAAA
* *
63718 CTGTCCATAGGT
1 CTATCCAAAGGT
63730 TCCGAAGAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAAAGGTCATAAAGATCCTCGGAAA
Found at i:63753 original size:31 final size:31
Alignment explanation
Indices: 63715--63840 Score: 123
Period size: 31 Copynumber: 4.0 Consensus size: 31
63705 AGATCCTTGG
* *
63715 AAACTGTCCATAGGTTCCGAAGAACCTAGGT
1 AAACTGTCCATATGTTCCGAAGAACATAGGT
** *
63746 AAACTGTCCATATGTTCCTTAGAACGTAGGT
1 AAACTGTCCATATGTTCCGAAGAACATAGGT
* *
63777 ATATTGTCCATATG-TCTCGAA-AGACATAGGT
1 AAACTGTCCATATGTTC-CGAAGA-ACATAGGT
*
63808 AATTA-TGTCCATATGTTCCGTAGAACATAGGT
1 AA--ACTGTCCATATGTTCCGAAGAACATAGGT
63840 A
1 A
63841 TACCCTCGAC
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
30 3 0.04
31 49 0.63
32 22 0.28
33 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (31 bp):
AAACTGTCCATATGTTCCGAAGAACATAGGT
Found at i:64785 original size:20 final size:22
Alignment explanation
Indices: 64756--64813 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
64746 TTCCCCTTGA
*
64756 AGTGCTTCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
*
64776 AGTGCATCGATGTATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
64799 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
64814 CTACCCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:64886 original size:17 final size:17
Alignment explanation
Indices: 64864--64909 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
64854 TTTTAAAGGG
*
64864 ATGCATCGATGCACCCT
1 ATGCATCGATGCACCAT
64881 ATGCATCGATGCACCAT
1 ATGCATCGATGCACCAT
*
64898 TTGCATTCGATG
1 ATGCA-TCGATG
64910 TTTCTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (17 bp):
ATGCATCGATGCACCAT
Found at i:64907 original size:61 final size:62
Alignment explanation
Indices: 64801--64939 Score: 174
Period size: 61 Copynumber: 2.2 Consensus size: 62
64791 TCTTTAACAT
* * *
64801 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACCTTCGATGTTT-TTTTTTAAAGG
1 GTGCATCGATGCAC-ACCCATGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGA
* * * * *
64863 GATGCATCGATGCAC-CCTATGCATCGATGCACCATTTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACACCCATGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGA
64925 GTGCATCGATGCACA
1 GTGCATCGATGCACA
64940 TTCAATGTGC
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
61 42 0.64
62 11 0.17
63 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (62 bp):
GTGCATCGATGCACACCCATGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGA
Found at i:67195 original size:21 final size:21
Alignment explanation
Indices: 67171--67223 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
67161 TTCATAAGGA
*
67171 AGTATCGATACTCATTAATTG
1 AGTATCGATACTCATTAACTG
*
67192 AGTATTGATACTCATTAACTG
1 AGTATCGATACTCATTAACTG
67213 AGTATCGATAC
1 AGTATCGATAC
67224 CAAGGAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (21 bp):
AGTATCGATACTCATTAACTG
Found at i:67259 original size:41 final size:41
Alignment explanation
Indices: 67214--67305 Score: 148
Period size: 41 Copynumber: 2.2 Consensus size: 41
67204 CATTAACTGA
*
67214 GTATCGATACCAAGGAAATAGTATCGATACTCCCCATAGAG
1 GTATCGATACCAAGGAAATAATATCGATACTCCCCATAGAG
* * *
67255 GTATCGATACCAGGGCAATAATATCGATACTCCCCATAGGG
1 GTATCGATACCAAGGAAATAATATCGATACTCCCCATAGAG
67296 GTATCGATAC
1 GTATCGATAC
67306 TGGGGAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (41 bp):
GTATCGATACCAAGGAAATAATATCGATACTCCCCATAGAG
Found at i:67260 original size:21 final size:21
Alignment explanation
Indices: 67234--67306 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
67224 CAAGGAAATA
67234 GTATCGATACTCCCCATAGAG
1 GTATCGATACTCCCCATAGAG
* *
67255 GTATCGATAC-CAGGGCAATA-A-
1 GTATCGATACTC---CCCATAGAG
*
67276 -TATCGATACTCCCCATAGGG
1 GTATCGATACTCCCCATAGAG
67296 GTATCGATACT
1 GTATCGATACT
67307 GGGGAAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
18 4 0.10
20 10 0.25
21 21 0.52
22 1 0.03
23 4 0.10
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (21 bp):
GTATCGATACTCCCCATAGAG
Found at i:70596 original size:4 final size:4
Alignment explanation
Indices: 70587--70611 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
70577 TGGTTTTTGC
70587 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
70612 CTTATTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:72154 original size:10 final size:11
Alignment explanation
Indices: 72131--72158 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
72121 TGATATTTAA
72131 TTTTTAGAATT
1 TTTTTAGAATT
72142 TTTTTAGAATT
1 TTTTTAGAATT
72153 TTTTTA
1 TTTTTA
72159 AAATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (11 bp):
TTTTTAGAATT
Found at i:73293 original size:45 final size:48
Alignment explanation
Indices: 73221--73309 Score: 123
Period size: 45 Copynumber: 1.9 Consensus size: 48
73211 TATTGTTTTA
* *
73221 TTTTCCGAAATAAATGCATGTGAACTA-GAAATCATGCGGTTAGGTTAT
1 TTTTCCGAAACAAATGCATGTGAACTAGGAAA-CATGAGGTTAGGTTAT
73269 TTTTCC-AAACAAA-GCATG-GAACTAGGAAACATGAGGTTAGG
1 TTTTCCGAAACAAATGCATGTGAACTAGGAAACATGAGGTTAGG
73310 ATGTATATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
45 17 0.45
46 9 0.24
47 6 0.16
48 6 0.16
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (48 bp):
TTTTCCGAAACAAATGCATGTGAACTAGGAAACATGAGGTTAGGTTAT
Found at i:77150 original size:21 final size:20
Alignment explanation
Indices: 77121--77175 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 20
77111 GGGCATGCTC
*
77121 GAAGTAAGAAGAATAAAAAAA
1 GAAGAAAGAAGAA-AAAAAAA
77142 GAAGAAAGAAG--AAAAAAA
1 GAAGAAAGAAGAAAAAAAAA
77160 GAA-AAA-AAGAAAAAAA
1 GAAGAAAGAAGAAAAAAA
77176 GAAAAAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 3 0.10
17 3 0.10
18 15 0.48
21 10 0.32
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (20 bp):
GAAGAAAGAAGAAAAAAAAA
Found at i:77156 original size:18 final size:17
Alignment explanation
Indices: 77129--77181 Score: 81
Period size: 16 Copynumber: 3.1 Consensus size: 17
77119 TCGAAGTAAG
*
77129 AAGAATAAAAAAAGAAGA
1 AAGAAGAAAAAAAGAA-A
77147 AAGAAGAAAAAAAGAAA
1 AAGAAGAAAAAAAGAAA
77164 AA-AAGAAAAAAAGAAA
1 AAGAAGAAAAAAAGAAA
77180 AA
1 AA
77182 AAGGGATTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
16 16 0.47
17 3 0.09
18 15 0.44
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAGAAGAAAAAAAGAAA
Found at i:77163 original size:8 final size:8
Alignment explanation
Indices: 77135--77184 Score: 82
Period size: 8 Copynumber: 6.0 Consensus size: 8
77125 TAAGAAGAAT
77135 AAAAAAAG
1 AAAAAAAG
77143 AAGAAAGAAG
1 AA-AAA-AAG
77153 AAAAAAAG
1 AAAAAAAG
77161 AAAAAAAG
1 AAAAAAAG
77169 AAAAAAAG
1 AAAAAAAG
77177 AAAAAAAG
1 AAAAAAAG
77185 GGATTGATCT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
8 29 0.73
9 6 0.15
10 5 0.12
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:77679 original size:17 final size:17
Alignment explanation
Indices: 77657--77749 Score: 102
Period size: 17 Copynumber: 5.5 Consensus size: 17
77647 CATCAGAAAA
77657 AAAAAAGAGAAAAGAAG
1 AAAAAAGAGAAAAGAAG
77674 AAAAAAGAGAAAAGGAA-
1 AAAAAAGAGAAAA-GAAG
*
77691 AAAAAAGAGAAAAGGA-
1 AAAAAAGAGAAAAGAAG
*
77707 AAAAAAG-GAAAAAAAAG
1 AAAAAAGAG-AAAAGAAG
* *
77724 AGAAAAGGAAAAAAGAAG
1 A-AAAAAGAGAAAAGAAG
77742 AAAAAAGA
1 AAAAAAGA
77750 AAAGAAATTG
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
15 1 0.02
16 14 0.22
17 33 0.52
18 16 0.25
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAAAAGAGAAAAGAAG
Found at i:77686 original size:26 final size:25
Alignment explanation
Indices: 77657--77752 Score: 92
Period size: 26 Copynumber: 3.8 Consensus size: 25
77647 CATCAGAAAA
*
77657 AAAAAAGAGAAAAGAAGAAAAAA-G
1 AAAAAAGAGAAAAAAAGAAAAAAGG
* *
77681 AGAAAAG-GAAAAAAAAGAGAAAAGG
1 AAAAAAGAG-AAAAAAAGAAAAAAGG
*
77706 AAAAAA-AGGAAAAAAAAGAGAAAAGG
1 AAAAAAGA-G-AAAAAAAGAAAAAAGG
77732 AAAAAAGA-AGAAAAAAGAAAA
1 AAAAAAGAGA-AAAAAAGAAAA
77753 GAAATTGAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
23 1 0.02
24 19 0.31
25 16 0.26
26 24 0.39
27 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (25 bp):
AAAAAAGAGAAAAAAAGAAAAAAGG
Found at i:77723 original size:43 final size:43
Alignment explanation
Indices: 77657--77752 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
77647 CATCAGAAAA
*
77657 AAAAAAG-AGAAAAGAAGAAAAAAGAGAAAAGGAAAAAA-AAG
1 AAAAAAGAAAAAAAGAAGAAAAAAGAGAAAAGGAAAAAAGAAG
*
77698 AGAAAAGGAAAAAAAGGAA-AAAAAAGAGAAAAGGAAAAAAGAAG
1 A-AAAAAGAAAAAAA-GAAGAAAAAAGAGAAAAGGAAAAAAGAAG
77742 AAAAAAGAAAA
1 AAAAAAGAAAA
77753 GAAATTGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
41 1 0.02
42 5 0.10
43 35 0.73
44 7 0.15
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (43 bp):
AAAAAAGAAAAAAAGAAGAAAAAAGAGAAAAGGAAAAAAGAAG
Found at i:79413 original size:52 final size:50
Alignment explanation
Indices: 79287--79414 Score: 159
Period size: 52 Copynumber: 2.5 Consensus size: 50
79277 TCTGGGGAAA
* * * *
79287 CTTGAAAGCTCGCATCAGTATAAAAAAACATAAGCTATCCATGTGGGTAT
1 CTTGAAGGCTCACATCAGCATAAAAAAACATAAGCTATCCATGTGGGCAT
* *
79337 CTTAAAGGTTCACATCAGCATAAAAAAGACATAAG-TAATCCATGTGAGGCAT
1 CTTGAAGGCTCACATCAGCATAAAAAA-ACATAAGCT-ATCCATGTG-GGCAT
*
79389 CTTGAAGGCTCACACCAGCATAAAAA
1 CTTGAAGGCTCACATCAGCATAAAAA
79415 TGTTGGGATA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 23 0.35
51 16 0.24
52 27 0.41
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (50 bp):
CTTGAAGGCTCACATCAGCATAAAAAAACATAAGCTATCCATGTGGGCAT
Found at i:80965 original size:249 final size:248
Alignment explanation
Indices: 80500--81050 Score: 878
Period size: 249 Copynumber: 2.2 Consensus size: 248
80490 CCCAACCAAC
* * *
80500 AAGTTTCTCATTTAATCTTTTTTAGAAAATGAAATTCTTGAAAAGTAATAAGTTTCTTACCTAGT
1 AAGTTTCTCATTTAA---TGTTTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGT
80565 AAAGTATTTCCCACAAATTTGTAAATCTTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTA
63 AAAGTATTTCCCACAAATTTGTAAATCTTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTA
* * * * *
80630 AAACCTTCGGGTCATTTGTCAGACTTTCGAGAAAGATGATAAGTCCTTAGGGCCATTTGTAAAGC
128 AAACCTTCGGGTCATCTGTCAGACTTTCGAGAAAAAAGATAAGTCCTTAAGGCCATTCGTAAAGC
* *
80695 GTTTGGGTAGGATACTCACATATGATTTTCGCATGAAAATGAGACAGCGATTTTCA
193 CTTTGGGTAGGATACTCACATATGATTTTCGCATGAAAATGAGACAACGATTTTCA
80751 AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
1 AAGTTTCTCATTTAATGTT-TAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
*
80816 AGTATTTCCCACAAATTTGTAAAT-TATTCGGGTCATCTGTTAGTCTTTCGAGCATGCTGCTTAA
65 AGTATTTCCCACAAATTTGTAAATCT-TTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAA
*
80880 AACCTTCGGGTCATCTGTCAGTCTTTCGAGAAAAAAGATAAGTCCTTAAGGCCATTCGTAAAGCC
129 AACCTTCGGGTCATCTGTCAGACTTTCGAGAAAAAAGATAAGTCCTTAAGGCCATTCGTAAAGCC
* ** *
80945 TTTGGGTATGATGTTCACATATGATTTTCGCATGAAAATGAGATAACGATTTTCA
194 TTTGGGTAGGATACTCACATATGATTTTCGCATGAAAATGAGACAACGATTTTCA
81000 AAGTTTCTCATTTAATG-TT---AAATCAAATTCTTGAAAAGTAAGAAGTTTCTT
1 AAGTTTCTCATTTAATGTTTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTT
81051 GTAAATCATT
Statistics
Matches: 282, Mismatches: 16, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
244 32 0.11
247 1 0.00
248 5 0.02
249 229 0.81
251 15 0.05
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (248 bp):
AAGTTTCTCATTTAATGTTTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAAA
GTATTTCCCACAAATTTGTAAATCTTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAAA
CCTTCGGGTCATCTGTCAGACTTTCGAGAAAAAAGATAAGTCCTTAAGGCCATTCGTAAAGCCTT
TGGGTAGGATACTCACATATGATTTTCGCATGAAAATGAGACAACGATTTTCA
Found at i:81214 original size:217 final size:220
Alignment explanation
Indices: 80832--81272 Score: 744
Period size: 217 Copynumber: 2.0 Consensus size: 220
80822 TCCCACAAAT
* * * *
80832 TTGTAAATTATTCGGGTCATCTGTTAGTCTTTCGAGCATGCTGCTTAAAACCTTCGGGTCATCTG
1 TTGTAAATCATTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAAACCTTCGAGTCATCTA
* *
80897 TCAGTCTTTCGAGAAAAAAGATAAGTCCTTAAGGCCATTCGTAAAGCCTTTGGGTATGATGTTCA
66 TCAGTCTTTCGAGAAAAAAGATAAGTCCTTAAGGCCATCCGTAAAGCCTTTGGGTAGGATGTTCA
80962 CATATGATTTTCGCATGAAAATGAGATAACGATTTTCAAAGTTTCTCATTTAATG-T-T-AAATC
131 CATATGATTTTCGCATGAAAATGAGATAACGATTTTCAAAGTTTCTCATTTAATGTTCTAAAATC
81024 AAATTCTTGAAAAGTAAGAAGTTTC
196 AAATTCTTGAAAAGTAAGAAGTTTC
81049 TTGTAAATCATTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAAACCTTCGAGTCATCTA
1 TTGTAAATCATTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAAACCTTCGAGTCATCTA
* * * *
81114 TCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCTTTGGGTAGGATGTTCA
66 TCAGTCTTTCGAGAAAAAAGATAAGTCCTTAAGGCCATCCGTAAAGCCTTTGGGTAGGATGTTCA
*
81179 CATATGATTTTCGCATGAAAATGAGATAGCGATTTTCAAAGTTTCTCATTTAATGTTCTAGAAAA
131 CATATGATTTTCGCATGAAAATGAGATAACGATTTTCAAAGTTTCTCATTTAATGTTCT--AAAA
81244 TCAAATTCTTGAAAAGTAAGAAGTTTC
194 TCAAATTCTTGAAAAGTAAGAAGTTTC
81271 TT
1 TT
81273 ACCTAGTAAA
Statistics
Matches: 208, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
217 174 0.84
218 1 0.00
219 1 0.00
222 32 0.15
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (220 bp):
TTGTAAATCATTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAAACCTTCGAGTCATCTA
TCAGTCTTTCGAGAAAAAAGATAAGTCCTTAAGGCCATCCGTAAAGCCTTTGGGTAGGATGTTCA
CATATGATTTTCGCATGAAAATGAGATAACGATTTTCAAAGTTTCTCATTTAATGTTCTAAAATC
AAATTCTTGAAAAGTAAGAAGTTTC
Found at i:81587 original size:47 final size:47
Alignment explanation
Indices: 81514--81655 Score: 259
Period size: 47 Copynumber: 3.0 Consensus size: 47
81504 GGTAATTTGT
81514 AAAA-CCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
81560 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
* *
81607 AAAAGTCTTCGGATCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
81654 AA
1 AA
81656 TGAGATTTTA
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
46 4 0.04
47 89 0.96
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (47 bp):
AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
Found at i:85393 original size:20 final size:21
Alignment explanation
Indices: 85346--85407 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
85336 ATTCCCCTGT
85346 GGGGGAAATCGGTTCCCCTTCAAA
1 GGGGG-AATCGGTT-CCC-TCAAA
85370 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
85390 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
85408 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 8 0.22
24 5 0.14
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:95069 original size:12 final size:12
Alignment explanation
Indices: 95054--95107 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
95044 TTATTTAAAA
95054 GGGTATTGGGCC
1 GGGTATTGGGCC
**
95066 GGGTATTGGGTT
1 GGGTATTGGGCC
95078 GGGTATTGGGCC
1 GGGTATTGGGCC
* * *
95090 GAGAATCGGGCC
1 GGGTATTGGGCC
95102 GGGTAT
1 GGGTAT
95108 ATATATATAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.13, C:0.13, G:0.48, T:0.26
Consensus pattern (12 bp):
GGGTATTGGGCC
Found at i:95191 original size:32 final size:32
Alignment explanation
Indices: 95106--95207 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
95096 CGGGCCGGGT
* *
95106 ATATATATATATATATTTAAATTAAATATATAA
1 ATAT-TATATATATATTTAAATTAAATTTATTA
* *
95139 ATA-TATATTTTTTATTTAAATTAAATTTATTA
1 ATATTATA-TATATATTTAAATTAAATTTATTA
*
95171 ATATTATATATATATATAAA-TAATTATTT-TTA
1 ATATTATATATATATTTAAATTAA--ATTTATTA
95203 ATATT
1 ATATT
95208 TATCGGGTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
31 7 0.12
32 40 0.69
33 11 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
ATATTATATATATATTTAAATTAAATTTATTA
Found at i:95233 original size:12 final size:13
Alignment explanation
Indices: 95209--95240 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
95199 TTTAATATTT
95209 ATCGGGTCGGGTA
1 ATCGGGTCGGGTA
95222 ATCGGG-CGGGTA
1 ATCGGGTCGGGTA
95234 ATCGGGT
1 ATCGGGT
95241 AATCGGGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.16, C:0.16, G:0.47, T:0.22
Consensus pattern (13 bp):
ATCGGGTCGGGTA
Found at i:95496 original size:17 final size:17
Alignment explanation
Indices: 95474--95508 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
95464 TCTAGCATTA
95474 TTATTATATTTATTTAT
1 TTATTATATTTATTTAT
*
95491 TTATTATATTTTTTTAT
1 TTATTATATTTATTTAT
95508 T
1 T
95509 AATTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTATATTTATTTAT
Found at i:95500 original size:13 final size:13
Alignment explanation
Indices: 95474--95514 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
95464 TCTAGCATTA
95474 TTATTATATT-TAT
1 TTATT-TATTATAT
95487 TTATTTATTATAT
1 TTATTTATTATAT
*
95500 TTTTTTATTA-AT
1 TTATTTATTATAT
95512 TTA
1 TTA
95515 AAATAAGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTATTATAT
Found at i:101955 original size:21 final size:21
Alignment explanation
Indices: 101897--101964 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 21
101887 TTTTTTTTTA
101897 AAAAAATAATAGTATAATAATAAT
1 AAAAAATAATA-TA-AA-AATAAT
101921 GAATAAAA-AA-ATAAAAATAAT
1 -AA-AAAATAATATAAAAATAAT
*
101942 AAAAAATAATATAAATAT-AT
1 AAAAAATAATATAAAAATAAT
101962 AAA
1 AAA
101965 GTTATAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
19 4 0.10
20 9 0.23
21 13 0.33
22 2 0.05
23 2 0.05
24 1 0.03
25 4 0.10
26 4 0.10
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (21 bp):
AAAAAATAATATAAAAATAAT
Found at i:102666 original size:37 final size:37
Alignment explanation
Indices: 102616--102720 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
102606 GTGCTTGTGG
* * * *
102616 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
102653 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
102690 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
102721 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:103567 original size:105 final size:105
Alignment explanation
Indices: 103263--103893 Score: 916
Period size: 105 Copynumber: 6.0 Consensus size: 105
103253 GCATTGTTCC
* ** ** *
103263 GAGTCCAATATCCTCCGTCATGAAGTTGAAATTGGCTCTG-GAACCGAGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGAGAAGTTG-TTGTTGACA
* * * * *
103327 ACCAGTC-GTCCCTTCGTTGTGAAGTTAAACTTGTGTTGTCTC
64 AGCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
103369 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-A-TGA-AA-TT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAG
* *
103429 CAACGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
103469 GAGTCCAATATCCTTCGTTGTGAAGCTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAG
103534 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
103574 GATTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAG
103639 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
103679 AAGTACAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAG
*
103744 CAGCGGTCCCTTCGTCTTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
103784 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTG-TTGTTGACAA
* * * * *
103849 CCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
103890 GAGT
1 GAGT
103894 GTCATGATAT
Statistics
Matches: 482, Mismatches: 35, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
99 1 0.00
100 80 0.17
101 1 0.00
102 4 0.01
103 4 0.01
104 4 0.01
105 304 0.63
106 84 0.17
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGAGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:104153 original size:36 final size:36
Alignment explanation
Indices: 104100--104168 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
104090 AGAGAAATTG
* *
104100 TCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACTA
1 TCTCAAGCGAGACAAAATTCATTTCAAGGGAAACTA
*
104136 TCTCAAGCGAGATAAAATTCATTTCAAGGGAAA
1 TCTCAAGCGAGACAAAATTCATTTCAAGGGAAA
104169 TGTTTTCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (36 bp):
TCTCAAGCGAGACAAAATTCATTTCAAGGGAAACTA
Found at i:104289 original size:106 final size:106
Alignment explanation
Indices: 104065--104438 Score: 465
Period size: 106 Copynumber: 3.8 Consensus size: 106
104055 GATTTCGTTA
* *
104065 AATTGTTTTCAAAGTTTATGTTTGGAGAGAAATTGTCTCAAGGGAGACAAAA--TTC-GTTTCAA
1 AATTGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGA
* * *
104127 GGGAAACTATCTC-A-AGCGAGATAAAATTCATTTCAAGGG
66 GGGAAACTATCTCAAGAGAGAGAGAAAAATCATTTCAAGGG
* * **
104166 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGA
1 AATTGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGA
104231 GGGAAACTATCTCAAGAGAGAGAGAAAAATCATTTCAAGGG
66 GGGAAACTATCTCAAGAGAGAGAGAAAAATCATTTCAAGGG
104272 AATTGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGA
1 AATTGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGA
* *
104337 GGGAAACTATCTC---AG-GAGAG--AATTAATTTCAAGGG
66 GGGAAACTATCTCAAGAGAGAGAGAAAAATCATTTCAAGGG
*
104372 AAATGTTTTC-------A-------AGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGA
1 AATTGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGA
104423 GGGAAACTATCTCAAG
66 GGGAAACTATCTCAAG
104439 CAAGATAAAA
Statistics
Matches: 249, Mismatches: 16, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
86 53 0.21
93 1 0.00
100 22 0.09
101 47 0.19
102 5 0.02
103 5 0.02
104 19 0.08
105 1 0.00
106 96 0.39
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.30
Consensus pattern (106 bp):
AATTGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGA
GGGAAACTATCTCAAGAGAGAGAGAAAAATCATTTCAAGGG
Found at i:104539 original size:36 final size:35
Alignment explanation
Indices: 104499--104612 Score: 102
Period size: 36 Copynumber: 3.2 Consensus size: 35
104489 CTTTCGAGTG
* *
104499 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAAT-TTGTTTTAAGA
* ** * * * **
104535 AAAACAATCTTGAGTGAAATAAATATTCTTTCGAGA
1 AAAACAGTCTCAAGTGAGACAAAT-TTGTTTTAAGA
*
104571 AAAACAGTCTCAAGTGAGACAAAGTATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAA-TTTGTTTTAAGA
104607 AAAACA
1 AAAACA
104613 AATTTGAGTG
Statistics
Matches: 57, Mismatches: 20, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
36 56 0.98
37 1 0.02
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (35 bp):
AAAACAGTCTCAAGTGAGACAAATTTGTTTTAAGA
Found at i:104590 original size:72 final size:73
Alignment explanation
Indices: 104487--104628 Score: 200
Period size: 72 Copynumber: 2.0 Consensus size: 73
104477 ATGAAATGCC
* * *
104487 TTCTTTCGAGTGAAAACGGTCTCAAGCGAGACAAA-TCTTGTTTTAAGAAAAAC-AATCTTGAGT
1 TTCTTTCGAGTAAAAACAGTCTCAAGCGAGACAAAGT-ATGTTTTAAGAAAAACAAAT-TTGAGT
104550 GAAATAAATA
64 GAAATAAATA
*
104560 TTCTTTCGAG-AAAAACAGTCTCAAGTGAGACAAAGTATGTTTTAAGAAAAACAAATTTGAGTGA
1 TTCTTTCGAGTAAAAACAGTCTCAAGCGAGACAAAGTATGTTTTAAGAAAAACAAATTTGAGTGA
*
104624 GATAA
66 AATAA
104629 TCATCTGCAT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
72 48 0.77
73 14 0.23
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (73 bp):
TTCTTTCGAGTAAAAACAGTCTCAAGCGAGACAAAGTATGTTTTAAGAAAAACAAATTTGAGTGA
AATAAATA
Found at i:106011 original size:192 final size:189
Alignment explanation
Indices: 105706--106088 Score: 640
Period size: 192 Copynumber: 2.0 Consensus size: 189
105696 TTAGAGGGAC
** * * *
105706 AGCTTAATATTATAATATTTTTATCAGGTTTAACTGAAGGGTTCATCTCATCACAAAGTCTTTAG
1 AGCTTAATATTATAATACCTTTATCAGGCTTAACTGAAGGGTTCATCTCATCACAAAGTCTTCAA
* *
105771 CCTGACAAAAGCAGTGGAGCAAACATCGAATTGCCAAGTGTCCGAGCAATGTCATGGTTTGAATG
66 CCTGACAAAAGCAGTGGAGCAAACACCGAATCGCCAAGTGTCCGAGCAATGTCATGGTTTGAATG
105836 CAATCTATTCATAAAGCCAGGGATTTTGAGTTTCCTATATAACCAATTGCCTTAGTGGAAT
131 CAATCTATTCATAAAGCCAGGGATTTTGAGTTTCC--TATAACCAATTGCCTTAGTGGAAT
*
105897 AGCTTAATATTATAATCACCTTTATTAGGCTTAACTGAAGGGTTCATCTCATCACAAAGTCTTCA
1 AGCTTAATATTATAAT-ACCTTTATCAGGCTTAACTGAAGGGTTCATCTCATCACAAAGTCTTCA
105962 ACCTGACAAAAGCAGTGGAGCAAACACCGAATCGCCAAGTGTCCGAGCAATGTCATGGTTTGAAT
65 ACCTGACAAAAGCAGTGGAGCAAACACCGAATCGCCAAGTGTCCGAGCAATGTCATGGTTTGAAT
* * *
106027 GCGATCTATTCATAAAGCCATGGCTTTTGAGTTTCCTATAACCAATTGCCTTAGTGGAAT
130 GCAATCTATTCATAAAGCCAGGGATTTTGAGTTTCCTATAACCAATTGCCTTAGTGGAAT
106087 AG
1 AG
106089 TTTATCTTTA
Statistics
Matches: 180, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
190 26 0.14
191 16 0.09
192 138 0.77
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (189 bp):
AGCTTAATATTATAATACCTTTATCAGGCTTAACTGAAGGGTTCATCTCATCACAAAGTCTTCAA
CCTGACAAAAGCAGTGGAGCAAACACCGAATCGCCAAGTGTCCGAGCAATGTCATGGTTTGAATG
CAATCTATTCATAAAGCCAGGGATTTTGAGTTTCCTATAACCAATTGCCTTAGTGGAAT
Found at i:110191 original size:2 final size:2
Alignment explanation
Indices: 110180--110209 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
110170 AAAGGAAAAA
*
110180 AT AT AA 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
110210 CAAAGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:110730 original size:18 final size:17
Alignment explanation
Indices: 110709--110751 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
110699 ATATATACAT
110709 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
110727 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
110744 ATAA-AATA
1 ATAATAATA
110752 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:110759 original size:60 final size:59
Alignment explanation
Indices: 110637--110759 Score: 133
Period size: 62 Copynumber: 2.0 Consensus size: 59
110627 ATATTAAAGA
* * * *
110637 ATATATATATATAATAATAAAATATAGTAAAAAAATAAATGAAAATAATTTAATATATATAT
1 ATATATACATATAATAATAAAACATAATAAAAAAATAAATG-AAATAA--TAATATACATAT
*
110699 ATATATACATATAATAATAATAACATGAATAATAAAAATAAATG-AATAA-AATATCCATAT
1 ATATATACATATAATAATAA-AACAT-AATAA-AAAAATAAATGAAATAATAATATACATAT
110759 A
1 A
110760 ATAAATAAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
60 10 0.19
62 19 0.36
63 9 0.17
64 4 0.08
65 11 0.21
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (59 bp):
ATATATACATATAATAATAAAACATAATAAAAAAATAAATGAAATAATAATATACATAT
Found at i:111149 original size:37 final size:37
Alignment explanation
Indices: 111108--111212 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
111098 GTATTTGTGG
* * * *
111108 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * * *
111145 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
111182 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
111213 GACAAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:117394 original size:21 final size:20
Alignment explanation
Indices: 117370--117692 Score: 264
Period size: 21 Copynumber: 15.6 Consensus size: 20
117360 TTCGCATTCT
117370 GATAG-TCCAAGTTCGCGTTGC
1 GATAGTTCCAAGTT--CGTTGC
*
117391 GATAG-TCGAAGTTCGCGTTGC
1 GATAGTTCCAAGTT--CGTTGC
* * * *
117412 GAT-TTTCCAAATTTGTTGA
1 GATAGTTCCAAGTTCGTTGC
* *
117431 TATAG-TCCAAGTTTGCGTTGT
1 GATAGTTCCAAG-TT-CGTTGC
*
117452 GATTTA-TTCCAAATTCGTTGC
1 GA--TAGTTCCAAGTTCGTTGC
117473 GATAGTCTCCAAGTTCGTTGC
1 GATAGT-TCCAAGTTCGTTGC
*
117494 GATAGTCTCCAAATTCGTTGC
1 GATAGT-TCCAAGTTCGTTGC
*
117515 GATAGTCTCCAAATTCGTTGC
1 GATAGT-TCCAAGTTCGTTGC
117536 GATAGTCTCCAAGTTCGTTGC
1 GATAGT-TCCAAGTTCGTTGC
117557 GATAGTATCCAAGTTCGTTGC
1 GATAGT-TCCAAGTTCGTTGC
*
117578 GATAGTCTCCAAATTCGTTGC
1 GATAGT-TCCAAGTTCGTTGC
* *
117599 GATAGTCTCCAAATTCGTTGAT
1 GATAGT-TCCAAGTTCGTTG-C
* *
117621 G-TAGTCTCCAAATTCGTTGT
1 GATAGT-TCCAAGTTCGTTGC
* * *
117641 GGTAGTCTCCAAATTCGTTGT
1 GATAGT-TCCAAGTTCGTTGC
117662 GATAGTCTCCAAGTTCGTTGC
1 GATAGT-TCCAAGTTCGTTGC
117683 GATAG-TCCAA
1 GATAGTTCCAA
117693 AATCGCAACG
Statistics
Matches: 267, Mismatches: 24, Indels: 24
0.85 0.08 0.08
Matches are distributed among these distances:
19 18 0.07
20 5 0.02
21 234 0.88
22 3 0.01
23 7 0.03
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
GATAGTTCCAAGTTCGTTGC
Found at i:117478 original size:42 final size:41
Alignment explanation
Indices: 117459--117692 Score: 319
Period size: 42 Copynumber: 5.6 Consensus size: 41
117449 TGTGATTTAT
117459 TCCAAATTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
1 TCCAAATTCGTTGCGATAGT-TCCAAGTTCGTTGCGATAGTC
*
117501 TCCAAATTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTC
1 TCCAAATTCGTTGCGATAGT-TCCAAGTTCGTTGCGATAGTC
*
117543 TCCAAGTTCGTTGCGATAGTATCCAAGTTCGTTGCGATAGTC
1 TCCAAATTCGTTGCGATAGT-TCCAAGTTCGTTGCGATAGTC
* *
117585 TCCAAATTCGTTGCGATAGTCTCCAAATTCGTTGATG-TAGTC
1 TCCAAATTCGTTGCGATAGT-TCCAAGTTCGTTG-CGATAGTC
* * * *
117627 TCCAAATTCGTTGTGGTAGTCTCCAAATTCGTTGTGATAGTC
1 TCCAAATTCGTTGCGATAGT-TCCAAGTTCGTTGCGATAGTC
*
117669 TCCAAGTTCGTTGCGATAG-TCCAA
1 TCCAAATTCGTTGCGATAGTTCCAA
117693 AATCGCAACG
Statistics
Matches: 177, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
40 5 0.03
41 2 0.01
42 169 0.95
43 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (41 bp):
TCCAAATTCGTTGCGATAGTTCCAAGTTCGTTGCGATAGTC
Found at i:117513 original size:63 final size:63
Alignment explanation
Indices: 117459--117689 Score: 383
Period size: 63 Copynumber: 3.7 Consensus size: 63
117449 TGTGATTTAT
117459 TCCAAATTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTC
1 TCCAAATTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTC
* *
117522 TCCAAATTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTATCCAAGTTCGTTGCGATAGTC
1 TCCAAATTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTC
* * * *
117585 TCCAAATTCGTTGCGATAGTCTCCAAATTCGTTGATG-TAGTCTCCAAATTCGTTGTGGTAGTC
1 TCCAAATTCGTTGCGATAGTCTCCAAGTTCGTTG-CGATAGTCTCCAAATTCGTTGCGATAGTC
*
117648 TCCAAATTCGTTGTGATAGTCTCCAAGTTCGTTGCGATAGTC
1 TCCAAATTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
117690 CAAAATCGCA
Statistics
Matches: 155, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
62 1 0.01
63 153 0.99
64 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (63 bp):
TCCAAATTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTC
Found at i:118833 original size:21 final size:21
Alignment explanation
Indices: 118808--119099 Score: 211
Period size: 21 Copynumber: 14.0 Consensus size: 21
118798 TGCGATTTTG
118808 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
118829 GACTATCGCAATGAACTTGGA
1 GACTATCGCAACGAACTTGGA
* * * *
118850 TATTATCACAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
*
118871 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
*
118892 GACTATCACAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
* *
118913 GACTATCGTAACGAACTTGTA
1 GACTATCGCAACGAACTTGGA
118934 -A-TAAATCGCAACGCGAACTT-G-
1 GACT--ATCGCAA--CGAACTTGGA
*
118955 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
118976 -A-TAAATCGCAACGCAAACTT-G-
1 GACT--ATCGCAACG--AACTTGGA
*
118997 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
*
119018 -A-AATCGCAACGCAAACTT-G-
1 GACTATCGCAACG--AACTTGGA
*
119037 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
* *
119058 -A-AATCGCAACGCGAACTT--C
1 GACTATCGCAA--CGAACTTGGA
119077 GACTATCGCAACGCGAACTTGGA
1 GACTATCGCAA--CGAACTTGGA
119100 CTATTGCAAT
Statistics
Matches: 215, Mismatches: 28, Indels: 54
0.72 0.09 0.18
Matches are distributed among these distances:
19 32 0.15
20 10 0.05
21 157 0.73
22 3 0.01
23 13 0.06
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (21 bp):
GACTATCGCAACGAACTTGGA
Found at i:119033 original size:40 final size:41
Alignment explanation
Indices: 118812--119089 Score: 284
Period size: 42 Copynumber: 6.7 Consensus size: 41
118802 ATTTTGGACT
* * *
118812 ATCGCAACG--AACTTGGAGACTATCGCAATGAACTTGGATATT
1 ATCGCAACGCAAACTT-G-GACTATCGCAACGAATTTGGATA-A
* * * *
118854 ATCACAACG--AATTTGGAGACTATCGCAACGAATTTGGAGACT
1 ATCGCAACGCAAACTT-G-GACTATCGCAACGAATTTGGATA-A
* * * *
118896 ATCACAACG--AACTTGGAGACTATCGTAACGAACTTGTAATAA
1 ATCGCAACGCAAACTT-G-GACTATCGCAACGAATTTG-GATAA
*
118938 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCAAACTTGGACTATCGCAACGAATTTGG-ATAA
118980 ATCGCAACGCAAACTTGGACTATCGCAACGAATTTGGA-AA
1 ATCGCAACGCAAACTTGGACTATCGCAACGAATTTGGATAA
119020 ATCGCAACGCAAACTTGGACTATCGCAACGAATTTGGA-AA
1 ATCGCAACGCAAACTTGGACTATCGCAACGAATTTGGATAA
* *
119060 ATCGCAACGCGAACTTCGACTATCGCAACG
1 ATCGCAACGCAAACTTGGACTATCGCAACG
119090 CGAACTTGGA
Statistics
Matches: 213, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
40 70 0.33
41 1 0.00
42 134 0.63
43 3 0.01
44 5 0.02
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (41 bp):
ATCGCAACGCAAACTTGGACTATCGCAACGAATTTGGATAA
Found at i:119045 original size:61 final size:60
Alignment explanation
Indices: 118913--119108 Score: 155
Period size: 61 Copynumber: 3.2 Consensus size: 60
118903 CGAACTTGGA
* * * ** *
118913 GACTATCGTAACGAACTTGTAATAAATCGCAACGCGAACTTGGACTATCGCAACG--AATTTG
1 GACTATCGCAACGAACTTG-GA-AAATCGCAAC-CGAACTTCGAAAATCGCAACGCAAACTTG
* ** * *
118974 GAATAAATCGCAACGCAAACTTGGACTATCGCAA-CGAATTTGGAAAATCGCAACGCAAACTTG
1 GACT--ATCGCAACG--AACTTGGAAAATCGCAACCGAACTTCGAAAATCGCAACGCAAACTTG
* ** *
119037 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAAAATCGCAAC-CGAACTTCGAAAATCGCAACGCAAACTTG
*
119098 GACTATTGCAA
1 GACTATCGCAA
119109 TGCGAATATG
Statistics
Matches: 108, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
59 14 0.13
61 64 0.59
63 23 0.21
64 1 0.01
65 6 0.06
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (60 bp):
GACTATCGCAACGAACTTGGAAAATCGCAACCGAACTTCGAAAATCGCAACGCAAACTTG
Found at i:119523 original size:24 final size:25
Alignment explanation
Indices: 119471--119524 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
119461 ACATCATCCC
* * * *
119471 TAAAATCATTTAAAAATATATATTT
1 TAAAATAATTAAAAAATATAAATTA
119496 TAAAATAATTAAAAAATA-AAATTA
1 TAAAATAATTAAAAAATATAAATTA
119520 TAAAA
1 TAAAA
119525 ATTATCATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TAAAATAATTAAAAAATATAAATTA
Found at i:125244 original size:32 final size:31
Alignment explanation
Indices: 125200--125286 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
125190 AAAATTTATA
* *
125200 TACTAAAATGAAATAAAAATTTAACAATA-GGG
1 TACTAAAATGAAACAAAAA-GTAA-AATATGGG
*
125232 TAGTAAAATGAAACAAAAAGTAAAATATGGG
1 TACTAAAATGAAACAAAAAGTAAAATATGGG
*
125263 TACTAAAATGAAACAAAAAATAAA
1 TACTAAAATGAAACAAAAAGTAAA
125287 CTTTAGGTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
30 4 0.08
31 28 0.57
32 17 0.35
ACGTcount: A:0.61, C:0.06, G:0.13, T:0.21
Consensus pattern (31 bp):
TACTAAAATGAAACAAAAAGTAAAATATGGG
Found at i:130597 original size:30 final size:30
Alignment explanation
Indices: 130563--130633 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
130553 AAAACCGAAT
130563 TAAACGGGGACA-GAGAAAAACCGTTTATGC
1 TAAACGGGGACAGGA-AAAAACCGTTTATGC
* **
130593 TAAACGGGGACTGGAAAAAATTGTTTATGC
1 TAAACGGGGACAGGAAAAAACCGTTTATGC
130623 TAAACGGGGAC
1 TAAACGGGGAC
130634 GGGTTTGGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 35 0.95
31 2 0.05
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (30 bp):
TAAACGGGGACAGGAAAAAACCGTTTATGC
Found at i:130764 original size:15 final size:15
Alignment explanation
Indices: 130742--130783 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
130732 AATTAAAAAA
130742 TATATATATATAATAT
1 TATATATATATAAT-T
*
130758 T-TATATATTTAATT
1 TATATATATATAATT
130772 TATATATATATA
1 TATATATATATA
130784 TACTCGGCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 2 0.09
15 20 0.87
16 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATATATATAATT
Found at i:131167 original size:58 final size:60
Alignment explanation
Indices: 131076--131206 Score: 153
Period size: 58 Copynumber: 2.2 Consensus size: 60
131066 GAATGAGATT
* * *
131076 CATAGTTT-AGGGATGAAATTAGAATGTTAAAAAGTTCAAGGATTAATTT-AAA-ATGAGC
1 CATAGTTTGA-GGATGAAATTAGAATATTAAAAAGTTCAAGGAATAATTTGAAATAAGAGC
* * *
131134 CATAGTTTGAGGATGAAATT-GAAATATTTAAAAGTTTAAGGAATAATTTGAAATAAGGGC
1 CATAGTTTGAGGATGAAATTAG-AATATTAAAAAGTTCAAGGAATAATTTGAAATAAGAGC
*
131194 CAAAGTTTGAGGA
1 CATAGTTTGAGGA
131207 CATATAGTGT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
57 1 0.02
58 41 0.66
59 4 0.06
60 16 0.26
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.31
Consensus pattern (60 bp):
CATAGTTTGAGGATGAAATTAGAATATTAAAAAGTTCAAGGAATAATTTGAAATAAGAGC
Found at i:134506 original size:2 final size:2
Alignment explanation
Indices: 134499--134533 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
134489 TGATTATCAC
134499 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
134534 ACCAGTCTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:152061 original size:3 final size:3
Alignment explanation
Indices: 152053--152124 Score: 85
Period size: 3 Copynumber: 24.0 Consensus size: 3
152043 TTTTATTTAT
* * *
152053 TTA TTA TTA TTA TTA TAA TTA TTA TAA TAA TTA TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
152098 TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA
152125 AAAAATAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.07
3 51 0.84
4 6 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:153412 original size:12 final size:12
Alignment explanation
Indices: 153387--153444 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
153377 ACGAAGATAT
* *
153387 CAGAAATCAAAA
1 CAGAATTCAGAA
153399 CAGAATTCAGAA
1 CAGAATTCAGAA
* * *
153411 CAGAATCCATAT
1 CAGAATTCAGAA
*
153423 CAGAAATCAGAA
1 CAGAATTCAGAA
153435 CAGAATTCAG
1 CAGAATTCAG
153445 GTCATTTATC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.52, C:0.19, G:0.14, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:153479 original size:24 final size:24
Alignment explanation
Indices: 153399--153481 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
153389 GAAATCAAAA
* *
153399 CAGAATTCAGAACAGAATCCATA-T
1 CAGAAATCAGAACAGAATTCA-AGT
*
153423 CAGAAATCAGAACAGAATTCAGGT
1 CAGAAATCAGAACAGAATTCAAGT
***
153447 CATTTATCAGAACAGAATTCAAGT
1 CAGAAATCAGAACAGAATTCAAGT
*
153471 CGGAAATCAGA
1 CAGAAATCAGA
153482 TAAAATATTT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.20
Consensus pattern (24 bp):
CAGAAATCAGAACAGAATTCAAGT
Found at i:155963 original size:7 final size:7
Alignment explanation
Indices: 155951--155995 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
155941 TGGTCAACTC
155951 CGGTCAA
1 CGGTCAA
155958 CGGTCAA
1 CGGTCAA
155965 CGGGTCAA
1 C-GGTCAA
155973 CGGTCAA
1 CGGTCAA
155980 CGGGTC-A
1 C-GGTCAA
155987 -GGTCAA
1 CGGTCAA
155993 CGG
1 CGG
155996 GTCGGGTCGG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 4 0.12
6 1 0.03
7 18 0.53
8 11 0.32
ACGTcount: A:0.24, C:0.27, G:0.36, T:0.13
Consensus pattern (7 bp):
CGGTCAA
Found at i:155972 original size:8 final size:8
Alignment explanation
Indices: 155952--156029 Score: 64
Period size: 8 Copynumber: 10.5 Consensus size: 8
155942 GGTCAACTCC
155952 GGTCAAC-
1 GGTCAACG
155959 GGTCAACG
1 GGTCAACG
155967 GGTCAAC-
1 GGTCAACG
155974 GGTCAACG
1 GGTCAACG
155982 GGTC-A--
1 GGTCAACG
155987 GGTCAACG
1 GGTCAACG
**
155995 GGTCGGGTCG
1 GGTC--AACG
156005 GGTCAACG
1 GGTCAACG
156013 GGT---CG
1 GGTCAACG
156018 GGTCAACG
1 GGTCAACG
156026 GGTC
1 GGTC
156030 GGGTCGGGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
5 9 0.16
6 1 0.02
7 15 0.26
8 26 0.46
10 6 0.11
ACGTcount: A:0.19, C:0.24, G:0.41, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:155972 original size:15 final size:15
Alignment explanation
Indices: 155952--155998 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
155942 GGTCAACTCC
155952 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
155967 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
155982 GGTC-A-GGTCAACG
1 GGTCAACGGTCAACG
155995 GGTC
1 GGTC
155999 GGGTCGGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.38
14 1 0.03
15 19 0.59
ACGTcount: A:0.23, C:0.26, G:0.36, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:155992 original size:13 final size:13
Alignment explanation
Indices: 155959--156003 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
155949 TCCGGTCAAC
155959 GGTCAACGGGTCAA
1 GGTCAACGGGTC-A
155973 CGGTCAACGGGTCA
1 -GGTCAACGGGTCA
*
155987 GGTCAACGGGTCG
1 GGTCAACGGGTCA
156000 GGTC
1 GGTC
156004 GGGTCAACGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 16 0.55
14 1 0.03
15 12 0.41
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCA
Found at i:156012 original size:31 final size:31
Alignment explanation
Indices: 155974--156038 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
155964 ACGGGTCAAC
155974 GGTCAACGGGTCAGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCAGGTCAACGGGTCGGGTCG
*
156005 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCAGGTCAACGGGTCGGGTCG
156036 GGT
1 GGT
156039 TGTGACCGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.14, C:0.22, G:0.48, T:0.17
Consensus pattern (31 bp):
GGTCAACGGGTCAGGTCAACGGGTCGGGTCG
Found at i:156014 original size:13 final size:13
Alignment explanation
Indices: 155998--156034 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
155988 GTCAACGGGT
155998 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
156011 CGGGTCGGGTCAA
1 CGGGTCGGGTCAA
156024 CGGGTCGGGTC
1 CGGGTCGGGTC
156035 GGGTTGTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.11, C:0.24, G:0.49, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTCAA
Found at i:156038 original size:18 final size:18
Alignment explanation
Indices: 155980--156022 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
155970 CAACGGTCAA
155980 CGGGTCAGGTCAACGGGT
1 CGGGTCAGGTCAACGGGT
*
155998 CGGGTCGGGTCAACGGGT
1 CGGGTCAGGTCAACGGGT
156016 CGGGTCA
1 CGGGTCA
156023 ACGGGTCGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.23, G:0.47, T:0.16
Consensus pattern (18 bp):
CGGGTCAGGTCAACGGGT
Found at i:159230 original size:7 final size:7
Alignment explanation
Indices: 159195--159235 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
159185 TTTTCATATA
159195 TGCATTT
1 TGCATTT
159202 T-CATTT
1 TGCATTT
159208 TGCATCTT
1 TGCAT-TT
159216 TGCATTT
1 TGCATTT
*
159223 TTCATTT
1 TGCATTT
159230 TGCATT
1 TGCATT
159236 CATACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.20
7 17 0.57
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (7 bp):
TGCATTT
Found at i:167205 original size:144 final size:147
Alignment explanation
Indices: 167032--167311 Score: 476
Period size: 144 Copynumber: 1.9 Consensus size: 147
167022 ATGTTTTCAT
*
167032 AGAACTTTATCTCACTTGAGATTGTTTTTTTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCA
1 AGAACTTTATCTCACTTGAGATTGTTTTTTTAAAAACAAAATTTGTCTCGCTTGAGACAGTTTCA
* *
167097 CTCGAAACAAAACTTTATCTCACTTGAGATT-ATTTT-TTAAAA-AAAAATTTGTCTCGCTTGAG
66 CTCGAAACAAAAATTTATCTCACTTGAGATTGATTTTCTTAAAACAAAAATTTGTCTCGCTTAAG
167159 ACAGTTTCACTCGAAAC
131 ACAGTTTCACTCGAAAC
167176 AGAACTTTATCTCACTTGAGATTGTTTTTTTAAAAACAAAATTTGTCTCGCTTGAGACAGTTTCA
1 AGAACTTTATCTCACTTGAGATTGTTTTTTTAAAAACAAAATTTGTCTCGCTTGAGACAGTTTCA
* * *
167241 CTTGAAACAAAAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTGTCTCGCTTAAG
66 CTCGAAACAAAAATTTATCTCACTTGAGATTGATTTTCTTAAAACAAAAATTTGTCTCGCTTAAG
*
167306 ATAGTT
131 ACAGTT
167312 ATTTCGAGTT
Statistics
Matches: 126, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
144 93 0.74
145 4 0.03
146 6 0.05
147 23 0.18
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (147 bp):
AGAACTTTATCTCACTTGAGATTGTTTTTTTAAAAACAAAATTTGTCTCGCTTGAGACAGTTTCA
CTCGAAACAAAAATTTATCTCACTTGAGATTGATTTTCTTAAAACAAAAATTTGTCTCGCTTAAG
ACAGTTTCACTCGAAAC
Found at i:167248 original size:73 final size:73
Alignment explanation
Indices: 167034--167311 Score: 454
Period size: 73 Copynumber: 3.8 Consensus size: 73
167024 GTTTTCATAG
*
167034 AACTTTATCTCACTTGAGATTGTTTTTTTTAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACT
1 AACTTTATCTCACTTGAGATTGTTTTTTTAAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACT
167099 CGAAACAA
66 CGAAACAA
*
167107 AACTTTATCTCACTTGAGATT-ATTTTTTAAAAA-AAAATTTGTCTCGCTTGAGACAGTTTCACT
1 AACTTTATCTCACTTGAGATTGTTTTTTTAAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACT
*
167170 CGAAACAG
66 CGAAACAA
167178 AACTTTATCTCACTTGAGATTGTTTTTTTAAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACT
1 AACTTTATCTCACTTGAGATTGTTTTTTTAAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACT
*
167243 TGAAACAA
66 CGAAACAA
* * *
167251 AAATTTATCTCACTTGAGATTGTTTTTCTT-AAAACAAAGATTTGTCTCGCTTAAGATAGTT
1 AACTTTATCTCACTTGAGATTGTTTTT-TTAAAAACAAA-ATTTGTCTCGCTTGAGACAGTT
167312 ATTTCGAGTT
Statistics
Matches: 192, Mismatches: 9, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
71 58 0.30
72 21 0.11
73 91 0.47
74 22 0.11
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (73 bp):
AACTTTATCTCACTTGAGATTGTTTTTTTAAAAACAAAATTTGTCTCGCTTGAGACAGTTTCACT
CGAAACAA
Found at i:167607 original size:76 final size:76
Alignment explanation
Indices: 167481--167711 Score: 399
Period size: 76 Copynumber: 3.0 Consensus size: 76
167471 TATTTCCCAT
* *
167481 ATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGAAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
167546 GCCTTAGGGTC
66 GCCTTAGGGTC
*
167557 ATCTGTAAGTTCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
167622 GCCTTAGGGTC
66 GCCTTAGGGTC
* *
167633 ATCTGTAAGTCCCACAGTGCATGATATTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
* *
167698 ACCTTCGGGTC
66 GCCTTAGGGTC
167709 ATC
1 ATC
167712 AGCATTACCA
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 147 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (76 bp):
ATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
GCCTTAGGGTC
Found at i:167853 original size:113 final size:113
Alignment explanation
Indices: 167709--168008 Score: 505
Period size: 113 Copynumber: 2.7 Consensus size: 113
167699 CCTTCGGGTC
* *
167709 ATCAGCATTACCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 ATCAGCATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
*
167773 TAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATGG
65 TAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATAG
*
167822 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCAT
1 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
*
167887 AATGAGAAGAGCTTGTTCAACTTTTTGCTCAAATCCATCACTTGATAG
66 AATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATAG
* * *
167935 ATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAG-AGTTCAT
1 ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
167999 AATGAGAAGA
66 AATGAGAAGA
168009 ACTCATCTGA
Statistics
Matches: 177, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
112 17 0.10
113 159 0.90
114 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (113 bp):
ATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTTGATAG
Found at i:167998 original size:39 final size:40
Alignment explanation
Indices: 167953--168044 Score: 159
Period size: 39 Copynumber: 2.3 Consensus size: 40
167943 TTCCAGAAAA
167953 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAA-G
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGG
167992 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGG
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGG
* *
168032 AATTTATAATGAG
1 AGTTCATAATGAG
168045 TTTGTTCAAC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 38 0.76
40 12 0.24
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.21
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGG
Found at i:168108 original size:147 final size:149
Alignment explanation
Indices: 167836--168155 Score: 390
Period size: 147 Copynumber: 2.2 Consensus size: 149
167826 GCATTTCCAG
167836 AGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCT
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTT-ATAATGAGAAGAGCT
* *
167900 TGTTCAACTTTTTGCTCAAATCCATCACTTGATAGATCAGCTTTTCCAGAAAAAGTTCATAATGA
65 TGTTCAACTTTTTGCTCAAATCCATCACTTGATAGATCAGCTTTGCCAGAAAAAGTTCATAATAA
167965 GAAGAACTCATCTGAAGAAGAA
130 GAAGAACTCATCTGAAG-AG-A
* *
167987 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAAGAAGGAA-TT-T-AT-A-ATGAGT
1 AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-AAGAA-GAAGTTATAATGAGAAGAGC
* * * * *
168046 TTGTTCAACTTTTTGCTCGATTTCATCA-TTCGATGGAT-ATG-TATTGCCAGAAATAGTTCATA
64 TTGTTCAACTTTTTGCTCAAATCCATCACTT-GATAGATCA-GCT-TTGCCAGAAAAAGTTCATA
*
168108 ATAAGAAGAACTCATCTGAAGAGG
126 ATAAGAAGAACTCATCTGAAGAGA
*
168132 AGAAGAAGTTCATAATGACAAGAA
1 AGAAG-AGTTCATAATGAGAAGAA
168156 TTTGTTCAGC
Statistics
Matches: 151, Mismatches: 11, Indels: 19
0.83 0.06 0.10
Matches are distributed among these distances:
145 5 0.03
146 23 0.15
147 73 0.48
148 1 0.01
149 2 0.01
150 1 0.01
151 7 0.05
152 36 0.24
153 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.27
Consensus pattern (149 bp):
AGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTATAATGAGAAGAGCTT
GTTCAACTTTTTGCTCAAATCCATCACTTGATAGATCAGCTTTGCCAGAAAAAGTTCATAATAAG
AAGAACTCATCTGAAGAGA
Found at i:168529 original size:3 final size:3
Alignment explanation
Indices: 168523--168579 Score: 73
Period size: 3 Copynumber: 19.0 Consensus size: 3
168513 TTTTTTTTAT
*
168523 TTA TTA TTA TTA TTA TAA TTA TTA TTA -TA TATA TTA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA TTA
168568 TTA TTA TTA TTA
1 TTA TTA TTA TTA
168580 AATAATTACA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
2 4 0.08
3 38 0.79
4 6 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:172565 original size:2 final size:2
Alignment explanation
Indices: 172558--172593 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
172548 TAGTCTCTAA
172558 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
172594 TATTTTTTCC
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:173223 original size:42 final size:42
Alignment explanation
Indices: 173164--173247 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
173154 AAATAATGTT
* *
173164 TAAATCATACATACCATAATATAAAATGAGTTACGATTCATA
1 TAAATCATACAGACCATAATATAAAATGAGTTACGACTCATA
173206 TAAATCATACAGACCATAATATAAAATGAGTTACGACTCATA
1 TAAATCATACAGACCATAATATAAAATGAGTTACGACTCATA
173248 CATAAATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (42 bp):
TAAATCATACAGACCATAATATAAAATGAGTTACGACTCATA
Found at i:174306 original size:20 final size:19
Alignment explanation
Indices: 174281--174354 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 19
174271 CGTTGCAGCT
174281 AGAGTGTAT-GGATACACTGC
1 AGAGTGTATCGG-TACACT-C
174301 AGAGTGTATCGGTACAC-C
1 AGAGTGTATCGGTACACTC
174319 --AGTGTAT-GGATACACTAC
1 AGAGTGTATCGG-TACACT-C
*
174337 AGGGTGTATCGGTACACT
1 AGAGTGTATCGGTACACT
174355 AATTACATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
15 2 0.04
16 12 0.26
18 2 0.04
20 26 0.57
21 4 0.09
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (19 bp):
AGAGTGTATCGGTACACTC
Found at i:174324 original size:16 final size:17
Alignment explanation
Indices: 174303--174353 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 17
174293 TACACTGCAG
174303 AGTGTATCGGTACAC-C
1 AGTGTATCGGTACACAC
174319 AGTGTAT-GGATACACTAC
1 AGTGTATCGG-TACAC-AC
174337 AGGGTGTATCGGTACAC
1 A--GTGTATCGGTACAC
174354 TAATTACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.07
16 12 0.41
18 2 0.07
20 11 0.38
21 2 0.07
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (17 bp):
AGTGTATCGGTACACAC
Found at i:174330 original size:36 final size:36
Alignment explanation
Indices: 174283--174453 Score: 137
Period size: 36 Copynumber: 5.0 Consensus size: 36
174273 TTGCAGCTAG
174283 AGTGTATGGATACACTGCAGAGTGTATCGGTACACC
1 AGTGTATGGATACACTGCAGAGTGTATCGGTACACC
* *
174319 AGTGTATGGATACACTACAGGGTGTATCGGTACA-C
1 AGTGTATGGATACACTGCAGAGTGTATCGGTACACC
* * * * * * * *
174354 --T-AAT---TACA-TTCGGTGTTTGAGCAGT-CA-T
1 AGTGTATGGATACACTGCAGAGTGT-ATCGGTACACC
* *
174382 AGGGGTATGGATACACTGCAGGGTGTATCGGTACACC
1 A-GTGTATGGATACACTGCAGAGTGTATCGGTACACC
*
174419 AGTGTATGGATACACTGCAGAGTGTTTCGGTACAC
1 AGTGTATGGATACACTGCAGAGTGTATCGGTACAC
174454 TTTAGCATTT
Statistics
Matches: 102, Mismatches: 22, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
28 8 0.08
29 8 0.08
32 4 0.04
33 1 0.01
35 9 0.09
36 71 0.70
37 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (36 bp):
AGTGTATGGATACACTGCAGAGTGTATCGGTACACC
Found at i:174416 original size:20 final size:19
Alignment explanation
Indices: 174393--174454 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
174383 GGGGTATGGA
174393 TACACTGCAGGGTGTATCGG
1 TACACTGCA-GGTGTATCGG
174413 TACAC--CA-GTGTAT-GG
1 TACACTGCAGGTGTATCGG
*
174428 ATACACTGCAGAGTGTTTCGG
1 -TACACTGCAG-GTGTATCGG
174449 TACACT
1 TACACT
174455 TTAGCATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
15 2 0.06
16 11 0.31
18 4 0.11
20 16 0.46
21 2 0.06
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (19 bp):
TACACTGCAGGTGTATCGG
Found at i:174979 original size:34 final size:32
Alignment explanation
Indices: 174917--174986 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
174907 CCTTACAAAC
* *
174917 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
174949 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
174983 TCCC
1 TCCC
174987 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:175292 original size:21 final size:21
Alignment explanation
Indices: 175268--175310 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
175258 CCCAGAATAG
*
175268 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
175289 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
175310 A
1 A
175311 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:175372 original size:21 final size:21
Alignment explanation
Indices: 175346--175385 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
175336 CTGTTGAACA
175346 GGGGGGG-ATCGGTACCCCCT
1 GGGGGGGAATCGGTACCCCCT
175366 GGGGGGGAATCGGTACCCCC
1 GGGGGGGAATCGGTACCCCC
175386 CTGGACATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.12, C:0.30, G:0.45, T:0.12
Consensus pattern (21 bp):
GGGGGGGAATCGGTACCCCCT
Found at i:175467 original size:15 final size:15
Alignment explanation
Indices: 175447--175476 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
175437 CCCCCTGGGG
175447 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
175462 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
175477 CCCTGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:175498 original size:37 final size:37
Alignment explanation
Indices: 175425--175498 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
175415 AACCTGCAGG
* *
175425 GGGGTATCTGTACCCCCTGGGGGGGGTATCTGTACCC
1 GGGGTATCTGTACCCCCTGGGGGGGGAATCTATACCC
175462 GGGGTATCTGTACCCCCCT-GGGGGGGAATCTATACCC
1 GGGGTATCTGTA-CCCCCTGGGGGGGGAATCTATACCC
175499 CTGGGCAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 28 0.82
38 6 0.18
ACGTcount: A:0.14, C:0.28, G:0.35, T:0.23
Consensus pattern (37 bp):
GGGGTATCTGTACCCCCTGGGGGGGGAATCTATACCC
Found at i:175625 original size:29 final size:31
Alignment explanation
Indices: 175593--175651 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 31
175583 AAACTTTGAA
175593 TAAATTCAATT-AAGTCCAAAAA-CATTTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTTT
175622 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTT
175652 GCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTT
Found at i:178317 original size:34 final size:32
Alignment explanation
Indices: 178255--178324 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
178245 CCTTACAAAC
* *
178255 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
178287 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
178321 TCCC
1 TCCC
178325 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:178564 original size:20 final size:22
Alignment explanation
Indices: 178539--178578 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
178529 AGTTGTATAT
178539 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
178559 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
178579 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:178630 original size:21 final size:21
Alignment explanation
Indices: 178606--178648 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
178596 CCCAGAATAG
*
178606 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
178627 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
178648 A
1 A
178649 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:178764 original size:20 final size:20
Alignment explanation
Indices: 178739--178851 Score: 129
Period size: 20 Copynumber: 6.1 Consensus size: 20
178729 AAAACCTGCA
178739 GGGGGTATCTGTACCCCCTG
1 GGGGGTATCTGTACCCCCTG
178759 GGGGGTATCTGTA--CCC--
1 GGGGGTATCTGTACCCCCTG
178775 -GGGGTATCTGTACCCCCTG
1 GGGGGTATCTGTACCCCCTG
178794 GGGGGTATCTGTA--CCC--
1 GGGGGTATCTGTACCCCCTG
178810 -GGGGTATCTGTACCCCCTG
1 GGGGGTATCTGTACCCCCTG
* *
178829 GGGGGAAATCTATACCCCCTG
1 GGGGG-TATCTGTACCCCCTG
178850 GG
1 GG
178852 CAATCTTGAA
Statistics
Matches: 80, Mismatches: 2, Indels: 21
0.78 0.02 0.20
Matches are distributed among these distances:
15 24 0.30
17 6 0.08
18 6 0.08
20 29 0.36
21 15 0.19
ACGTcount: A:0.13, C:0.28, G:0.35, T:0.24
Consensus pattern (20 bp):
GGGGGTATCTGTACCCCCTG
Found at i:178779 original size:35 final size:35
Alignment explanation
Indices: 178740--178833 Score: 188
Period size: 35 Copynumber: 2.7 Consensus size: 35
178730 AAACCTGCAG
178740 GGGGTATCTGTACCCCCTGGGGGGTATCTGTACCC
1 GGGGTATCTGTACCCCCTGGGGGGTATCTGTACCC
178775 GGGGTATCTGTACCCCCTGGGGGGTATCTGTACCC
1 GGGGTATCTGTACCCCCTGGGGGGTATCTGTACCC
178810 GGGGTATCTGTACCCCCTGGGGGG
1 GGGGTATCTGTACCCCCTGGGGGG
178834 AAATCTATAC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 59 1.00
ACGTcount: A:0.11, C:0.28, G:0.37, T:0.24
Consensus pattern (35 bp):
GGGGTATCTGTACCCCCTGGGGGGTATCTGTACCC
Found at i:178780 original size:15 final size:15
Alignment explanation
Indices: 178760--178824 Score: 85
Period size: 15 Copynumber: 4.0 Consensus size: 15
178750 TACCCCCTGG
178760 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
178775 GGGGTATCTGTACCCCC
1 GGGGTATCTGTA--CCC
178792 TGGGGGGTATCTGTACCC
1 ---GGGGTATCTGTACCC
178810 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
178825 CCTGGGGGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
15 27 0.60
17 3 0.07
18 3 0.07
20 12 0.27
ACGTcount: A:0.12, C:0.28, G:0.34, T:0.26
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:178973 original size:29 final size:31
Alignment explanation
Indices: 178941--178999 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 31
178931 AAACTTTGAA
178941 TAAATTCAATT-AAGTCCAAAAA-CATTTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTTT
178970 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTT
179000 GCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTT
Found at i:181530 original size:20 final size:20
Alignment explanation
Indices: 181507--181566 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
181497 GTATGGATAG
181507 ACTACAGAGTGTATCGGTAC
1 ACTACAGAGTGTATCGGTAC
181527 ACT----AGTGTAT-GGATAC
1 ACTACAGAGTGTATCGG-TAC
* *
181543 ACTGCAGGGTGTATCGGTAC
1 ACTACAGAGTGTATCGGTAC
181563 ACTA
1 ACTA
181567 ATTACATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 2 0.06
16 13 0.41
20 15 0.47
21 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ACTACAGAGTGTATCGGTAC
Found at i:181535 original size:16 final size:16
Alignment explanation
Indices: 181514--181566 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 16
181504 TAGACTACAG
181514 AGTGTATCGGTACACT
1 AGTGTATCGGTACACT
181530 AGTGTAT-GGATACACT
1 AGTGTATCGG-TACACT
181546 GCAGGGTGTATCGGTACACT
1 --A--GTGTATCGGTACACT
181566 A
1 A
181567 ATTACATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 2 0.06
16 13 0.42
18 2 0.06
20 12 0.39
21 2 0.06
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (16 bp):
AGTGTATCGGTACACT
Found at i:181555 original size:36 final size:36
Alignment explanation
Indices: 181495--181566 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
181485 TGCAGTCAGG
*
181495 GTGTATGGATAGACTACAGAGTGTATCGGTACACTA
1 GTGTATGGATACACTACAGAGTGTATCGGTACACTA
* *
181531 GTGTATGGATACACTGCAGGGTGTATCGGTACACTA
1 GTGTATGGATACACTACAGAGTGTATCGGTACACTA
181567 ATTACATTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (36 bp):
GTGTATGGATACACTACAGAGTGTATCGGTACACTA
Found at i:181642 original size:36 final size:36
Alignment explanation
Indices: 181597--181772 Score: 244
Period size: 36 Copynumber: 4.9 Consensus size: 36
181587 AGTCATAGGG
* * * *
181597 GTATAGATACACTGCAGGGTGTATCGATAGACCAGT
1 GTATGGATACACTGTAGAGTGTATCGATACACCAGT
* *
181633 GTATGGATACACTGTAGAGTGTATCGGTACACTAGT
1 GTATGGATACACTGTAGAGTGTATCGATACACCAGT
** * * *
181669 GTATGGATACACTACAGGGTGTATCGGTACACTAGT
1 GTATGGATACACTGTAGAGTGTATCGATACACCAGT
181705 GTATGGATACACTGTAGAGTGTATCGATACACCAGT
1 GTATGGATACACTGTAGAGTGTATCGATACACCAGT
*
181741 GTATGGATACACTGTAGAGTGTATCGGTACAC
1 GTATGGATACACTGTAGAGTGTATCGATACAC
181773 TTTAGCATTT
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 125 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (36 bp):
GTATGGATACACTGTAGAGTGTATCGATACACCAGT
Found at i:181719 original size:72 final size:72
Alignment explanation
Indices: 181597--181773 Score: 273
Period size: 72 Copynumber: 2.5 Consensus size: 72
181587 AGTCATAGGG
* * * * *
181597 GTATAGATACACTGCAGGGTGTATCGATAGACCAGTGTATGGATACACTGTAGAGTGTATCGGTA
1 GTATGGATACACTGCAGGGTGTATCGGTACACTAGTGTATGGATACACTGTAGAGTGTATCGATA
*
181662 CACTAGT
66 CACCAGT
*
181669 GTATGGATACACTACAGGGTGTATCGGTACACTAGTGTATGGATACACTGTAGAGTGTATCGATA
1 GTATGGATACACTGCAGGGTGTATCGGTACACTAGTGTATGGATACACTGTAGAGTGTATCGATA
181734 CACCAGT
66 CACCAGT
* *
181741 GTATGGATACACTGTAGAGTGTATCGGTACACT
1 GTATGGATACACTGCAGGGTGTATCGGTACACT
181774 TTAGCATTTT
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 95 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (72 bp):
GTATGGATACACTGCAGGGTGTATCGGTACACTAGTGTATGGATACACTGTAGAGTGTATCGATA
CACCAGT
Found at i:182236 original size:34 final size:32
Alignment explanation
Indices: 182183--182252 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
182173 ACCTTACAAC
*
182183 TCCCTAGTTTTTCCGGGATAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
* *
182215 TCCCTAGCTTTTACACGGGATAAGCTAGAACTTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
182249 TCCC
1 TCCC
182253 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Done.