Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003696.1 Hibiscus syriacus cultivar Beakdansim tig00007902_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: 251402
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
File 1 of 4
Found at i:2593 original size:13 final size:12
Alignment explanation
Indices: 2569--2602 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
2559 TTTAAATATT
2569 TTTTATTTTTTA
1 TTTTATTTTTTA
2581 TTTTATTTCTTTA
1 TTTTATTT-TTTA
2594 TTTT-TTTTT
1 TTTTATTTTT
2603 ATAAATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 2 0.10
12 11 0.52
13 8 0.38
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:5613 original size:22 final size:22
Alignment explanation
Indices: 5588--5630 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
5578 ATTATTATTT
5588 AAAAAACACAAAA-TTTAAAAA
1 AAAAAACACAAAACTTTAAAAA
* *
5609 AAAAATCCCAAAACTTTAAAAA
1 AAAAAACACAAAACTTTAAAAA
5631 TCTTCATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.70, C:0.14, G:0.00, T:0.16
Consensus pattern (22 bp):
AAAAAACACAAAACTTTAAAAA
Found at i:10965 original size:57 final size:57
Alignment explanation
Indices: 10870--10997 Score: 143
Period size: 57 Copynumber: 2.2 Consensus size: 57
10860 TTTTTGGAAT
* * * *
10870 TTTTAAAAGTTTGGAAACTAATTTAGAATGAGGGTCATAGTTTAGGGATGAATTTGAAA
1 TTTTAAAAG-TTGG-AACCAATTTAGAATGACGATCATAATTTAGGGATGAATTTGAAA
* *
10929 TTTTCAAAAGTTGG-ACCAATTTAGAATGACGATCATAATTTGGGGATGGATTT-AGAA
1 TTTT-AAAAGTTGGAACCAATTTAGAATGACGATCATAATTTAGGGATGAATTTGA-AA
10986 TGTTTAAAAGTT
1 T-TTTAAAAGTT
10998 TAAGGACTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
56 1 0.02
57 43 0.72
58 3 0.05
59 8 0.13
60 5 0.08
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (57 bp):
TTTTAAAAGTTGGAACCAATTTAGAATGACGATCATAATTTAGGGATGAATTTGAAA
Found at i:14467 original size:21 final size:21
Alignment explanation
Indices: 14430--14469 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14420 TCTGCTGAAA
**
14430 CTCCACCTGTTTTGGAGTATG
1 CTCCACCTGTTGCGGAGTATG
14451 CTCCACCTGTTGCGGAGTA
1 CTCCACCTGTTGCGGAGTA
14470 CTACTTGTCT
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:0.15, C:0.28, G:0.25, T:0.33
Consensus pattern (21 bp):
CTCCACCTGTTGCGGAGTATG
Found at i:21162 original size:3 final size:3
Alignment explanation
Indices: 21154--21182 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21144 TCTAAAACAA
21154 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
21183 AAGTTTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:24938 original size:45 final size:44
Alignment explanation
Indices: 24888--24996 Score: 157
Period size: 44 Copynumber: 2.5 Consensus size: 44
24878 AATTTTGCCA
24888 AAAAT-AGCAAAATCCCGAAAATCACTCTAAATTGAAATTCGAAAT
1 AAAATAAGCAAAATCCC--AAATCACTCTAAATTGAAATTCGAAAT
**
24933 AAAATAAGCAATCTCCCAAATCACTCTAAATTGAAATTCGAAAT
1 AAAATAAGCAAAATCCCAAATCACTCTAAATTGAAATTCGAAAT
**
24977 AAAATAAGCAATCTCCCAAA
1 AAAATAAGCAAAATCCCAAA
24997 AATCCGGCCT
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
44 47 0.77
45 5 0.08
46 9 0.15
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.22
Consensus pattern (44 bp):
AAAATAAGCAAAATCCCAAATCACTCTAAATTGAAATTCGAAAT
Found at i:24955 original size:44 final size:44
Alignment explanation
Indices: 24906--24996 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
24896 AAAATCCCGA
24906 AAATCACTCTAAATTGAAATTCGAAATAAAATAAGCAATCTCCC
1 AAATCACTCTAAATTGAAATTCGAAATAAAATAAGCAATCTCCC
24950 AAATCACTCTAAATTGAAATTCGAAATAAAATAAGCAATCTCCC
1 AAATCACTCTAAATTGAAATTCGAAATAAAATAAGCAATCTCCC
24994 AAA
1 AAA
24997 AATCCGGCCT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (44 bp):
AAATCACTCTAAATTGAAATTCGAAATAAAATAAGCAATCTCCC
Found at i:27020 original size:35 final size:35
Alignment explanation
Indices: 26967--27042 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
26957 AAAACAGTCC
* *
26967 TCAATTTCATTATAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTATAAACCCCAAATTCCAAAATAAT
* * *
27002 TCAATTTCATTCTCAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTATAAACCCCAAATTCCAAAATAAT
27037 TCAATT
1 TCAATT
27043 AAATTCAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTATAAACCCCAAATTCCAAAATAAT
Found at i:27592 original size:130 final size:130
Alignment explanation
Indices: 27439--27686 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
27429 TATTTATATA
* ** *
27439 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
* * *
27504 TTAGCACATGATCATGACACGTGTCATTGGTGACGCATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
27569 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
* * *
27634 TTAACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
27687 GAAGAAAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:27659 original size:23 final size:21
Alignment explanation
Indices: 27613--27659 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
27603 AATTAATCAT
27613 TTAACCAGGATCTGACATATG
1 TTAACCAGGATCTGACATATG
* *
27634 TTAACACATGATCATGATATATG
1 TTAAC-CAGGATC-TGACATATG
27657 TTA
1 TTA
27660 TTGGTGACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (21 bp):
TTAACCAGGATCTGACATATG
Found at i:27717 original size:130 final size:129
Alignment explanation
Indices: 27453--27717 Score: 291
Period size: 130 Copynumber: 2.0 Consensus size: 129
27443 ATTTGGTCCT
* ** * *
27453 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
* * *** * * **** *
27518 TGACACGTGTCATTGGTGACGCATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
27583 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
* * * *
27648 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
27712 -A
128 CA
27713 AAATT
1 AAATT
27718 TGGGTATTGG
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
130 98 0.88
132 8 0.07
133 5 0.05
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATATGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:28045 original size:28 final size:27
Alignment explanation
Indices: 28014--28076 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
28004 AGTTGATACA
*
28014 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATATAAGATTT
** * *
28042 ATATATTTTTAAACTAAATATAATATTT
1 ATAT-TTTAAAAAATAAATATAAGATTT
28070 ATATTTT
1 ATATTTT
28077 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATATAAGATTT
Found at i:28177 original size:16 final size:18
Alignment explanation
Indices: 28156--28189 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
28146 ATTTCTTATT
28156 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
28172 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
28190 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:37230 original size:48 final size:48
Alignment explanation
Indices: 37169--37262 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
37159 AAATTTCCTT
37169 AGGGTAATTGACATTCCGCATTGACAGCTATTAAATAGAATTTGTAGC
1 AGGGTAATTGACATTCCGCATTGACAGCTATTAAATAGAATTTGTAGC
*
37217 AGGGTAATTGACATTTCGCATTGACAGCTATTAAATAGAATTTGTA
1 AGGGTAATTGACATTCCGCATTGACAGCTATTAAATAGAATTTGTA
37263 ACAAAAATGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (48 bp):
AGGGTAATTGACATTCCGCATTGACAGCTATTAAATAGAATTTGTAGC
Found at i:51882 original size:16 final size:16
Alignment explanation
Indices: 51861--51894 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
51851 TTACTATTCA
51861 CGTGAATAGTGAATTT
1 CGTGAATAGTGAATTT
51877 CGTGAATAGTGAATTT
1 CGTGAATAGTGAATTT
51893 CG
1 CG
51895 GTCGGCGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.35
Consensus pattern (16 bp):
CGTGAATAGTGAATTT
Found at i:52662 original size:15 final size:16
Alignment explanation
Indices: 52644--52676 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
52634 GTGGCAGATC
52644 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
*
52659 AAAATCTAGAACGGGA
1 AAAATCCAGAACGGGA
52675 AA
1 AA
52677 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.15, G:0.24, T:0.09
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:57855 original size:29 final size:29
Alignment explanation
Indices: 57813--57894 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
57803 AAACTAAATT
* *
57813 GATGTCATCGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAATAAA
*
57842 GATGTCATTGCTTACATCATTTAAATAAT
1 GATGTCATTGCTTACATCATTTAAATAAA
*
57871 GATGTCATTGCTTATATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
57895 GTTAGGTGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 43 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAATAAA
Found at i:61720 original size:30 final size:30
Alignment explanation
Indices: 61684--62050 Score: 725
Period size: 30 Copynumber: 12.2 Consensus size: 30
61674 AAGGAACATA
61684 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
61714 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
61744 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
61774 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
61804 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
61834 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
61864 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
61894 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
61924 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
61954 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
61984 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
62014 TGGATAGTTACTGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
62044 TGGATAG
1 TGGATAG
62051 GTCTTTCGGA
Statistics
Matches: 336, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 336 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATGACCTC
Found at i:65421 original size:21 final size:21
Alignment explanation
Indices: 65379--65421 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
65369 TTTCTGGGAT
* *
65379 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
65400 AGGGGAATCGATCCCCCCTCA
1 AGGGGAATCGATACCCACTCA
65421 A
1 A
65422 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:66578 original size:30 final size:30
Alignment explanation
Indices: 66542--66848 Score: 578
Period size: 30 Copynumber: 10.2 Consensus size: 30
66532 AAGGAACATA
66542 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
66572 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
66602 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
66632 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
66662 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
66692 TAGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
* *
66722 TGGATAATTACTGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
66752 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
66782 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
66812 TGGATAGTTACTGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
66842 TGGATAG
1 TGGATAG
66849 GTCTTTCGGA
Statistics
Matches: 270, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 270 1.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATGACCTC
Found at i:69161 original size:29 final size:29
Alignment explanation
Indices: 69119--69200 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
69109 AAACTAAATT
*
69119 GATGTCATTGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAATAAA
*
69148 GATGTCATTGCTTACATCATTTAAATAAT
1 GATGTCATTGCTTACATCATTTAAATAAA
69177 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
69201 GTTAGGTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAATAAA
Found at i:75518 original size:10 final size:10
Alignment explanation
Indices: 75488--75541 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
75478 AATCTATTTG
*
75488 AATTTAAAAA
1 AATTCAAAAA
* *
75498 AAATCAGAAA
1 AATTCAAAAA
*
75508 AATTTAAAAA
1 AATTCAAAAA
*
75518 AATACAAAAA
1 AATTCAAAAA
*
75528 AATACAAAAA
1 AATTCAAAAA
75538 AATT
1 AATT
75542 AGTATGTTTA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.20
Consensus pattern (10 bp):
AATTCAAAAA
Found at i:75527 original size:11 final size:10
Alignment explanation
Indices: 75494--75540 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
75484 TTTGAATTTA
75494 AAAAAAAT-C
1 AAAAAAATAC
* **
75503 AGAAAAATTT
1 AAAAAAATAC
75513 AAAAAAATAC
1 AAAAAAATAC
75523 AAAAAAATAC
1 AAAAAAATAC
75533 AAAAAAAT
1 AAAAAAAT
75541 TAGTATGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 7 0.22
10 25 0.78
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (10 bp):
AAAAAAATAC
Found at i:75528 original size:20 final size:21
Alignment explanation
Indices: 75488--75540 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
75478 AATCTATTTG
*
75488 AATTTAAAAAAA-ATCAGAAA
1 AATTTAAAAAAATATCAAAAA
75508 AATTTAAAAAAATA-CAAAAA
1 AATTTAAAAAAATATCAAAAA
**
75528 AATACAAAAAAAT
1 AATTTAAAAAAAT
75541 TAGTATGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.19
Consensus pattern (21 bp):
AATTTAAAAAAATATCAAAAA
Found at i:75607 original size:15 final size:17
Alignment explanation
Indices: 75576--75608 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
75566 ATGTATTTTT
75576 ATCTATCTTGCAATTTA
1 ATCTATCTTGCAATTTA
75593 ATCTA-CTTG-AATTTA
1 ATCTATCTTGCAATTTA
75608 A
1 A
75609 AAAAAAATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.45
Consensus pattern (17 bp):
ATCTATCTTGCAATTTA
Found at i:80488 original size:34 final size:34
Alignment explanation
Indices: 80424--80489 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
80414 TTCTCTAAGA
**
80424 ACCTCGTAAGGTCCTATGAAACGAGGAGTCAAAC
1 ACCTCGTAAGGTCCTATGAAACGAAAAGTCAAAC
*
80458 ACCTTGTAAGGTCCTATGAAACGAAAAGTCAA
1 ACCTCGTAAGGTCCTATGAAACGAAAAGTCAA
80490 CTTGCCCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (34 bp):
ACCTCGTAAGGTCCTATGAAACGAAAAGTCAAAC
Found at i:82735 original size:34 final size:35
Alignment explanation
Indices: 82654--82738 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 35
82644 CAACAACATC
* *
82654 TACCATACTTTGAAAAACATTTTTCAAAGAAGCATT
1 TACCAAACTTTGAAAAACATTTTTCAAAGAAG-AGT
**
82690 TACCAAACTTTGAAAAACATTTTTCAAAGTTG-GT
1 TACCAAACTTTGAAAAACATTTTTCAAAGAAGAGT
*
82724 TGCCAAACTTTGAAA
1 TACCAAACTTTGAAA
82739 CTAACTTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 15 0.34
36 29 0.66
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (35 bp):
TACCAAACTTTGAAAAACATTTTTCAAAGAAGAGT
Found at i:88793 original size:20 final size:20
Alignment explanation
Indices: 88768--88806 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
88758 ATTGAATTTA
* *
88768 TTCAAAATTTATTCAAAGTT
1 TTCAAAAATAATTCAAAGTT
88788 TTCAAAAATAATTCAAAGT
1 TTCAAAAATAATTCAAAGT
88807 CAATTTAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (20 bp):
TTCAAAAATAATTCAAAGTT
Found at i:91645 original size:15 final size:16
Alignment explanation
Indices: 91611--91648 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
91601 AATTTATATC
*
91611 AATTTTTCAAATGCTTT
1 AATTTTACAAAT-CTTT
91628 AATTTTACAAAT-TTT
1 AATTTTACAAATCTTT
91643 AATTTT
1 AATTTT
91649 TGACCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
17 11 0.55
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (16 bp):
AATTTTACAAATCTTT
Found at i:103780 original size:21 final size:21
Alignment explanation
Indices: 103754--103797 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
103744 GTAAAATACG
* *
103754 GTATGAATAGTATCGTGAACA
1 GTATGAACAATATCGTGAACA
103775 GTATGAACAATATCGTGAACA
1 GTATGAACAATATCGTGAACA
103796 GT
1 GT
103798 GCTACAATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (21 bp):
GTATGAACAATATCGTGAACA
Found at i:103900 original size:21 final size:21
Alignment explanation
Indices: 103859--103902 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
103849 AAGCAAAATT
* *
103859 GTGCATCGATGTACTGCTACA
1 GTGCATCGATGCACTGATACA
*
103880 GTGCATCGATGCAGTGATACA
1 GTGCATCGATGCACTGATACA
103901 GT
1 GT
103903 ACTGCTACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (21 bp):
GTGCATCGATGCACTGATACA
Found at i:104521 original size:39 final size:39
Alignment explanation
Indices: 104464--104540 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
104454 TGAATATTTA
104464 TCCCGAAGGACCACTGTATATGTCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTGTATATGTCCCGAAGG-CCACTATG
104504 TCCCGAAGG-CCACTGTATATGTCCCGAAGGCCACTAT
1 TCCCGAAGGACCACTGTATATGTCCCGAAGGCCACTAT
104541 ATATGTCCCC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 7 0.19
39 21 0.57
40 9 0.24
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (39 bp):
TCCCGAAGGACCACTGTATATGTCCCGAAGGCCACTATG
Found at i:104526 original size:21 final size:22
Alignment explanation
Indices: 104464--104560 Score: 134
Period size: 21 Copynumber: 4.7 Consensus size: 22
104454 TGAATATTTA
104464 TCCCGAAGGACCACTGTATATG
1 TCCCGAAGGACCACTGTATATG
104486 TCCCGAAGGACCAC----TATG
1 TCCCGAAGGACCACTGTATATG
104504 TCCCGAAGG-CCACTGTATATG
1 TCCCGAAGGACCACTGTATATG
*
104525 TCCCGAAGG-CCACTATATATG
1 TCCCGAAGGACCACTGTATATG
*
104546 TCCCCAAGGACCACT
1 TCCCGAAGGACCACT
104561 ATGTCCCGAA
Statistics
Matches: 68, Mismatches: 2, Indels: 10
0.85 0.03 0.12
Matches are distributed among these distances:
17 4 0.06
18 13 0.19
21 32 0.47
22 19 0.28
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.21
Consensus pattern (22 bp):
TCCCGAAGGACCACTGTATATG
Found at i:116359 original size:15 final size:18
Alignment explanation
Indices: 116312--116360 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
116302 TTTGGTTAAC
116312 GGAATGTAAGATTACTACT
1 GGAATGTAAGATTACTA-T
* *
116331 GGAATGTTACATTA-T-T
1 GGAATGTAAGATTACTAT
116347 -GAATGTAAGATTAC
1 GGAATGTAAGATTAC
116361 AGTGTTTGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
15 11 0.44
16 1 0.04
18 1 0.04
19 12 0.48
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (18 bp):
GGAATGTAAGATTACTAT
Found at i:116469 original size:15 final size:15
Alignment explanation
Indices: 116451--116481 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
116441 AAATTCTAAA
116451 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
116466 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
116481 T
1 T
116482 CTATCTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:117994 original size:118 final size:119
Alignment explanation
Indices: 117768--117996 Score: 266
Period size: 118 Copynumber: 1.9 Consensus size: 119
117758 TTCACGGATG
* * * * *
117768 AAGTAAAATGTAAAAGAAACACCGAAGTAGAAAGGGAGATTCAACTTTATTAATGGATAAGAGTC
1 AAGTAAAATGTAAAAGAAACACCGAAGTAGAAAGAGAGATGCAACCTTAGTAATGGATAACAGTC
* * * **
117833 TAAAAGAGGATGTTTAATATAAAACAAATACAAGTGCGGCACTTGGGTTTGCAC
66 TAAAAGAGAAAGTTCAATATAAAACAAATACAAGTGCAACACTTGGGTTTGCAC
* *
117887 AAGTAAAATGTAAACA-AAATACCGAAGTAG-AAGAGAGATGCAACCTTAGTAATTGATAACAGT
1 AAGTAAAATGTAAA-AGAAACACCGAAGTAGAAAGAGAGATGCAACCTTAGTAATGGATAACAGT
* * * **
117950 CTGAAAA-AGAAAGTTCAGTATAAAATATATACCGGTGCAACACTTGG
65 CT-AAAAGAGAAAGTTCAATATAAAACAAATACAAGTGCAACACTTGG
117997 ATGAGTACAT
Statistics
Matches: 91, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
118 59 0.65
119 31 0.34
120 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.23
Consensus pattern (119 bp):
AAGTAAAATGTAAAAGAAACACCGAAGTAGAAAGAGAGATGCAACCTTAGTAATGGATAACAGTC
TAAAAGAGAAAGTTCAATATAAAACAAATACAAGTGCAACACTTGGGTTTGCAC
Found at i:126514 original size:30 final size:30
Alignment explanation
Indices: 126480--126552 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
126470 CCCGAAGGAC
* *
126480 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCATAAAGATCCTCGATAA
*
126510 CTATCCATAGCTCATAAAGATCCTCGATAA
1 CTATCCATAGGTCATAAAGATCCTCGATAA
*
126540 CTGTCCATAGGTC
1 CTATCCATAGGTC
126553 CCGAAGAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (30 bp):
CTATCCATAGGTCATAAAGATCCTCGATAA
Found at i:129066 original size:2 final size:2
Alignment explanation
Indices: 129059--129138 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
129049 CTGATCACAG
129059 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
129101 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
129139 TTCCAAACTC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:131769 original size:30 final size:30
Alignment explanation
Indices: 131731--131802 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
131721 CCTGAAGGAC
*
131731 CTAT-CAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGATAA
131760 CTATCCAGAGGTCATAAAGATCCTCGATAA
1 CTATCCAGAGGTCATAAAGATCCTCGATAA
*
131790 CTATCCATAGGTC
1 CTATCCAGAGGTC
131803 CCGAAGAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGATAA
Found at i:131842 original size:31 final size:31
Alignment explanation
Indices: 131788--131850 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
131778 GATCCTCGAT
*
131788 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATAGGTCCCGAAGAACATAGGTA
* * **
131819 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATAGGTCCCGAAGAACATAGGTA
131850 A
1 A
131851 CCCTCGACTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (31 bp):
AACTATCCATAGGTCCCGAAGAACATAGGTA
Found at i:146027 original size:10 final size:10
Alignment explanation
Indices: 146004--146931 Score: 172
Period size: 10 Copynumber: 94.3 Consensus size: 10
145994 AATGTTAATT
146004 TTTA-AAGGG
1 TTTACAAGGG
* *
146013 TTTACTAGTG
1 TTTACAAGGG
146023 TTTACAAGGG
1 TTTACAAGGG
146033 TTTACAAGGG
1 TTTACAAGGG
***
146043 TTTATTGGGG
1 TTTACAAGGG
*
146053 TTTACAAAGG
1 TTTACAAGGG
* *
146063 TTTATAAGAG
1 TTTACAAGGG
*
146073 TTTATAAGGG
1 TTTACAAGGG
*
146083 TTTACTAGGG
1 TTTACAAGGG
* * *
146093 TTTGCTAGGA
1 TTTACAAGGG
* *
146103 TTTGCAAGTG
1 TTTACAAGGG
*
146113 TTTACTAGGG
1 TTTACAAGGG
***
146123 TTTGTTAGGG
1 TTTACAAGGG
**
146133 TTTATTAGGG
1 TTTACAAGGG
*
146143 TTTATAAGGG
1 TTTACAAGGG
**
146153 TTT-TTAGGG
1 TTTACAAGGG
** *
146162 TTTATTAGGA
1 TTTACAAGGG
**
146172 TTTTTAA-GG
1 TTTACAAGGG
146181 TTTACTAA-GG
1 TTTAC-AAGGG
*
146191 TTTGCAAGGG
1 TTTACAAGGG
*
146201 TTTATAAGGG
1 TTTACAAGGG
* *
146211 TTTACCATGG
1 TTTACAAGGG
*
146221 TTTATAAGGG
1 TTTACAAGGG
*
146231 TTTGCAAGGG
1 TTTACAAGGG
* *
146241 TTTACTAGGA
1 TTTACAAGGG
**
146251 TTTGTTAA-GG
1 TTT-ACAAGGG
*
146261 TTTACTA-GG
1 TTTACAAGGG
**
146270 TTT-TTAGGG
1 TTTACAAGGG
*** *
146279 TTTGTTAGGC
1 TTTACAAGGG
*
146289 TTTA-ATAAGG
1 TTTACA-AGGG
*
146299 TTTACTA--G
1 TTTACAAGGG
* *
146307 TTTGCTA-GG
1 TTTACAAGGG
*
146316 TTTACTAGGG
1 TTTACAAGGG
* * *
146326 TTTGCTACGG
1 TTTACAAGGG
*
146336 TTTACTAGGG
1 TTTACAAGGG
146346 TTTACAAGGG
1 TTTACAAGGG
*
146356 TTTACTAGGG
1 TTTACAAGGG
* **
146366 TTTTCTAA-AT
1 TTTAC-AAGGG
*** *
146376 TTTTTTAGTG
1 TTTACAAGGG
*
146386 TTTACTAGGG
1 TTTACAAGGG
**
146396 TTTGTAAGGG
1 TTTACAAGGG
**
146406 TTTGTAAGGG
1 TTTACAAGGG
*
146416 TTTACTAGGG
1 TTTACAAGGG
* *
146426 TTTGCTAGGG
1 TTTACAAGGG
*
146436 TTTGA-TAGGG
1 TTT-ACAAGGG
*
146446 TTTATAAGGG
1 TTTACAAGGG
*
146456 TTTGCTAA-GG
1 TTTAC-AAGGG
*
146466 TTTACTAGGG
1 TTTACAAGGG
146476 TTTACTAA-GG
1 TTTAC-AAGGG
*
146486 TTTAAAAGGG
1 TTTACAAGGG
***
146496 TTTGTTAGGG
1 TTTACAAGGG
*** *
146506 TTTGTTAGGTT
1 TTTACAAGG-G
146517 TTTACTAA-GG
1 TTTAC-AAGGG
146527 TTT---AGGG
1 TTTACAAGGG
**
146534 TTTATTAGGG
1 TTTACAAGGG
*
146544 TTT-TAAGGG
1 TTTACAAGGG
*
146553 TTTATTAA-GG
1 TTTA-CAAGGG
146563 TTTACAAGGG
1 TTTACAAGGG
146573 TTTACTAA-GG
1 TTTAC-AAGGG
***
146583 TTTATTTGGG
1 TTTACAAGGG
146593 TTTACAAGGG
1 TTTACAAGGG
* *
146603 TTTACTAGGT
1 TTTACAAGGG
* *
146613 TTTACTAGAG
1 TTTACAAGGG
146623 TTTACAAGGG
1 TTTACAAGGG
***
146633 TTTGTTA-GG
1 TTTACAAGGG
**
146642 -TTATTAGGG
1 TTTACAAGGG
* *
146651 TTTACTAGGA
1 TTTACAAGGG
*
146661 TTTGA-TAGGG
1 TTT-ACAAGGG
*
146671 TTTGCTAA-GG
1 TTTAC-AAGGG
* **
146681 TTTTCTTGGG
1 TTTACAAGGG
* *
146691 TTTACTAGGA
1 TTTACAAGGG
*
146701 TTT-CTTAGGG
1 TTTAC-AAGGG
**
146711 TTTATTAGGG
1 TTTACAAGGG
146721 TTTACAAGGG
1 TTTACAAGGG
**
146731 TTTATTAGGG
1 TTTACAAGGG
* *
146741 TTGATAAGGG
1 TTTACAAGGG
* * **
146751 CTAATTAGGG
1 TTTACAAGGG
*
146761 TTTATAAGGG
1 TTTACAAGGG
* *
146771 TTTACTA-GA
1 TTTACAAGGG
** * *
146780 TTTATTATGA
1 TTTACAAGGG
*
146790 TTTATTAA-GG
1 TTTA-CAAGGG
146800 TTTACAAGGG
1 TTTACAAGGG
*
146810 -TTACTAGGG
1 TTTACAAGGG
** *
146819 TTTATTAGGA
1 TTTACAAGGG
**
146829 TTTATTAGGG
1 TTTACAAGGG
* *
146839 TTTACTAGAG
1 TTTACAAGGG
*
146849 TTTA-ATAGTG
1 TTTACA-AGGG
*
146859 TTTACTAGGG
1 TTTACAAGGG
*
146869 TTTATAAGGG
1 TTTACAAGGG
* * *
146879 CTTACTATGG
1 TTTACAAGGG
*
146889 TTTATAAGGG
1 TTTACAAGGG
* * *
146899 CTTACTATGG
1 TTTACAAGGG
*
146909 TTTACAACGG
1 TTTACAAGGG
*
146919 TTTACTAGGG
1 TTTACAAGGG
146929 TTT
1 TTT
146932 GGTATGGTTT
Statistics
Matches: 690, Mismatches: 185, Indels: 87
0.72 0.19 0.09
Matches are distributed among these distances:
6 1 0.00
7 5 0.01
8 14 0.02
9 73 0.11
10 578 0.84
11 18 0.03
12 1 0.00
ACGTcount: A:0.23, C:0.06, G:0.28, T:0.43
Consensus pattern (10 bp):
TTTACAAGGG
Found at i:146033 original size:20 final size:20
Alignment explanation
Indices: 146009--146931 Score: 495
Period size: 20 Copynumber: 46.9 Consensus size: 20
145999 TAATTTTTAA
* *
146009 AGGGTTTACTAGTGTTTACA
1 AGGGTTTACTAGGGTTTACT
* *
146029 AGGGTTTACAAGGGTTTATT
1 AGGGTTTACTAGGGTTTACT
* * *
146049 GGGGTTTACAAAGGTTTA-T
1 AGGGTTTACTAGGGTTTACT
*
146068 AAGAGTTTA-TAAGGGTTTACT
1 -AGGGTTTACT-AGGGTTTACT
* * * *
146089 AGGGTTTGCTAGGATTTGCA
1 AGGGTTTACTAGGGTTTACT
* **
146109 AGTGTTTACTAGGGTTTGTT
1 AGGGTTTACTAGGGTTTACT
*
146129 AGGGTTTATTAGGGTTTA-T
1 AGGGTTTACTAGGGTTTACT
* *
146148 AAGGGTTT-TTAGGGTTTATT
1 -AGGGTTTACTAGGGTTTACT
* * *
146168 AGGATTT-TTAAGGTTTACT
1 AGGGTTTACTAGGGTTTACT
* * *
146187 AAGGTTTGCAAGGGTTTA-T
1 AGGGTTTACTAGGGTTTACT
* *
146206 AAGGGTTTACCATGGTTTA-T
1 -AGGGTTTACTAGGGTTTACT
* *
146226 AAGGGTTTGCAAGGGTTTACT
1 -AGGGTTTACTAGGGTTTACT
* ** *
146247 AGGATTTGTTAAGGTTTACT
1 AGGGTTTACTAGGGTTTACT
* **
146267 A-GGTTT-TTAGGGTTTGTT
1 AGGGTTTACTAGGGTTTACT
* * *
146285 AGGCTTTAATAAGGTTTACT
1 AGGGTTTACTAGGGTTTACT
*
146305 A--GTTTGCTA-GGTTTACT
1 AGGGTTTACTAGGGTTTACT
* *
146322 AGGGTTTGCTACGGTTTACT
1 AGGGTTTACTAGGGTTTACT
*
146342 AGGGTTTACAAGGGTTTACT
1 AGGGTTTACTAGGGTTTACT
* *** **
146362 AGGGTTTTCTAAATTTTTTT
1 AGGGTTTACTAGGGTTTACT
* *
146382 AGTGTTTACTAGGGTTT-GT
1 AGGGTTTACTAGGGTTTACT
*
146401 AAGGGTTT-GTAAGGGTTTACT
1 -AGGGTTTACT-AGGGTTTACT
*
146422 AGGGTTTGCTAGGGTTTGA-T
1 AGGGTTTACTAGGGTTT-ACT
*
146442 AGGGTTTA-TAAGGGTTTGCT
1 AGGGTTTACT-AGGGTTTACT
*
146462 AAGGTTTACTAGGGTTTACT
1 AGGGTTTACTAGGGTTTACT
* ** **
146482 AAGGTTTAAAAGGGTTTGTT
1 AGGGTTTACTAGGGTTTACT
** *
146502 AGGGTTTGTTAGGTTTTTACT
1 AGGGTTTACTAGG-GTTTACT
* *
146523 AAGG-TT--TAGGGTTTATT
1 AGGGTTTACTAGGGTTTACT
*
146540 AGGGTTT--TAAGGGTTTATT
1 AGGGTTTACT-AGGGTTTACT
* *
146559 AAGGTTTACAAGGGTTTACT
1 AGGGTTTACTAGGGTTTACT
* * * *
146579 AAGGTTTATTTGGGTTTACA
1 AGGGTTTACTAGGGTTTACT
*
146599 AGGGTTTACTAGGTTTTACT
1 AGGGTTTACTAGGGTTTACT
* * **
146619 AGAGTTTACAAGGGTTTGTT
1 AGGGTTTACTAGGGTTTACT
*
146639 A-GG-TTATTAGGGTTTACT
1 AGGGTTTACTAGGGTTTACT
* *
146657 AGGATTTGA-TAGGGTTTGCT
1 AGGGTTT-ACTAGGGTTTACT
* * *
146677 AAGGTTTTCTTGGGTTTACT
1 AGGGTTTACTAGGGTTTACT
* *
146697 AGGATTT-CTTAGGGTTTATT
1 AGGGTTTAC-TAGGGTTTACT
* *
146717 AGGGTTTACAAGGGTTTATT
1 AGGGTTTACTAGGGTTTACT
* * * *
146737 AGGGTTGA-TAAGGGCTAATT
1 AGGGTTTACT-AGGGTTTACT
146757 AGGGTTTA-TAAGGGTTTACT
1 AGGGTTTACT-AGGGTTTACT
* * * * *
146777 A-GATTTATTATGATTTATT
1 AGGGTTTACTAGGGTTTACT
* *
146796 AAGGTTTACAAGGG-TTACT
1 AGGGTTTACTAGGGTTTACT
* * *
146815 AGGGTTTATTAGGATTTATT
1 AGGGTTTACTAGGGTTTACT
* *
146835 AGGGTTTACTAGAGTTTAAT
1 AGGGTTTACTAGGGTTTACT
*
146855 AGTGTTTACTAGGGTTTA-T
1 AGGGTTTACTAGGGTTTACT
* *
146874 AAGGGCTTACTATGGTTTA-T
1 -AGGGTTTACTAGGGTTTACT
* * *
146894 AAGGGCTTACTATGGTTTACA
1 -AGGGTTTACTAGGGTTTACT
*
146915 ACGGTTTACTAGGGTTT
1 AGGGTTTACTAGGGTTT
146932 GGTATGGTTT
Statistics
Matches: 700, Mismatches: 164, Indels: 78
0.74 0.17 0.08
Matches are distributed among these distances:
17 17 0.02
18 34 0.05
19 100 0.14
20 533 0.76
21 16 0.02
ACGTcount: A:0.23, C:0.06, G:0.28, T:0.43
Consensus pattern (20 bp):
AGGGTTTACTAGGGTTTACT
Found at i:146042 original size:30 final size:30
Alignment explanation
Indices: 146009--146931 Score: 418
Period size: 30 Copynumber: 30.9 Consensus size: 30
145999 TAATTTTTAA
* *
146009 AGGGTTTACTAGTGTTTACAAGGGTTTACA
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * *
146039 AGGGTTTATTGGGGTTTACAAAGGTTTA-T
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * *
146068 AAGAGTTTA-TAAGGGTTTACTAGGGTTTGCT
1 -AGGGTTTACT-AGGGTTTACAAGGGTTTACT
* * * * * **
146099 AGGATTTGCAAGTGTTTACTAGGGTTTGTT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * *
146129 AGGGTTTATTAGGGTTTATAAGGGTTT-TT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * **
146158 AGGGTTTATTAGGATTTTTAA-GGTTTACT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * * * *
146187 AAGGTTTGCAAGGGTTTATAAGGGTTTACC
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* *
146217 ATGGTTTA-TAAGGGTTTGCAAGGGTTTACT
1 AGGGTTTACT-AGGGTTTACAAGGGTTTACT
* ** * * *
146247 AGGATTTGTTAAGGTTTACTA-GGTTT-TT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
** * *
146275 AGGGTTTGTTAGGCTTTA-ATAAGGTTTACT
1 AGGGTTTACTAGGGTTTACA-AGGGTTTACT
* * *
146305 A--GTTTGCTA-GGTTTACTAGGGTTTGCT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
*
146332 ACGGTTTACTAGGGTTTACAAGGGTTTACT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* *** *** *
146362 AGGGTTTTCTAAATTTTTTTAGTGTTTACT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* **
146392 AGGGTTT-GTAAGGGTTTGTAAGGGTTTACT
1 AGGGTTTACT-AGGGTTTACAAGGGTTTACT
* *
146422 AGGGTTTGCTAGGGTTTGA-TAGGGTTTA-T
1 AGGGTTTACTAGGGTTT-ACAAGGGTTTACT
* * *
146451 AAGGGTTTGCTAAGGTTTACTAGGGTTTACT
1 -AGGGTTTACTAGGGTTTACAAGGGTTTACT
* ** *** **
146482 AAGGTTTAAAAGGGTTTGTTAGGGTTTGTT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* **
146512 AGGTTTTTACTAAGGTTTAGGGTTTATTAGGGTTT--T
1 AGG-GTTTAC-------TAGGGTTTACAAGGGTTTACT
* *
146548 AAGGGTTTATTAAGGTTTACAAGGGTTTACT
1 -AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * *
146579 AAGGTTTATTTGGGTTTACAAGGGTTTACT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * **
146609 AGGTTTTACTAGAGTTTACAAGGGTTTGTT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * *
146639 A-GG-TTATTAGGGTTTACTAGGATTTGA-T
1 AGGGTTTACTAGGGTTTACAAGGGTTT-ACT
* * * **
146667 AGGGTTTGCTAAGGTTTTCTTGGGTTTACT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* ** *
146697 AGGATTT-CTTAGGGTTTATTAGGGTTTACA
1 AGGGTTTAC-TAGGGTTTACAAGGGTTTACT
* * * * * *
146727 AGGGTTTATTAGGGTTGATAAGGGCTAATT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * *
146757 AGGGTTTA-TAAGGGTTTACTA-GATTTATT
1 AGGGTTTACT-AGGGTTTACAAGGGTTTACT
* * * *
146786 ATGATTTATTAAGGTTTACAAGGG-TTACT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * **
146815 AGGGTTTATTAGGATTTATTAGGGTTTACT
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * * *
146845 AGAGTTTAATAGTGTTTACTAGGGTTTA-T
1 AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * * *
146874 AAGGGCTTACTATGGTTTATAAGGGCTTACT
1 -AGGGTTTACTAGGGTTTACAAGGGTTTACT
* * * *
146905 ATGGTTTACAACGGTTTACTAGGGTTT
1 AGGGTTTACTAGGGTTTACAAGGGTTT
146932 GGTATGGTTT
Statistics
Matches: 677, Mismatches: 172, Indels: 88
0.72 0.18 0.09
Matches are distributed among these distances:
27 14 0.02
28 49 0.07
29 122 0.18
30 458 0.68
31 10 0.01
36 5 0.01
37 3 0.00
38 16 0.02
ACGTcount: A:0.23, C:0.06, G:0.28, T:0.43
Consensus pattern (30 bp):
AGGGTTTACTAGGGTTTACAAGGGTTTACT
Found at i:146292 original size:28 final size:29
Alignment explanation
Indices: 146246--146301 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
146236 AAGGGTTTAC
*
146246 TAGGATTTGTTAAGGTTTACT-AGGTTTT
1 TAGGATTTGTTAAGGTTTAATAAGGTTTT
*
146274 TAGGGTTTGTT-AGGCTTTAATAAGGTTT
1 TAGGATTTGTTAAGG-TTTAATAAGGTTT
146302 ACTAGTTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.12
28 15 0.62
29 6 0.25
ACGTcount: A:0.21, C:0.04, G:0.27, T:0.48
Consensus pattern (29 bp):
TAGGATTTGTTAAGGTTTAATAAGGTTTT
Found at i:146318 original size:17 final size:17
Alignment explanation
Indices: 146296--146343 Score: 69
Period size: 17 Copynumber: 2.6 Consensus size: 17
146286 GGCTTTAATA
146296 AGGTTTACTAGTTTGCT
1 AGGTTTACTAGTTTGCT
146313 AGGTTTACTAGGGTTTGCT
1 AGGTTTACTA--GTTTGCT
146332 ACGGTTTACTAG
1 A-GGTTTACTAG
146344 GGTTTACAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.36
18 1 0.04
19 8 0.29
20 9 0.32
ACGTcount: A:0.19, C:0.12, G:0.27, T:0.42
Consensus pattern (17 bp):
AGGTTTACTAGTTTGCT
Found at i:146555 original size:38 final size:39
Alignment explanation
Indices: 146476--146585 Score: 109
Period size: 38 Copynumber: 2.8 Consensus size: 39
146466 TTTACTAGGG
* *
146476 TTTACTAAGGTTTAAAAGGGTTTGTTAGGGTTTGTTAGGTT
1 TTTACTAAGGTTT--AAGGGTTTATTAGGGTTTGTAAGGTT
*
146517 TTTACTAAGGTTT-AGGGTTTATTAGGGTTT-TAAGG-G
1 TTTACTAAGGTTTAAGGGTTTATTAGGGTTTGTAAGGTT
* * *
146553 TTTATTAAGGTTTACAAGGGTTTACTAAGGTTT
1 TTTACTAAGGTTT--AAGGGTTTATTAGGGTTT
146586 ATTTGGGTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
36 12 0.20
37 4 0.07
38 16 0.27
39 15 0.25
41 13 0.22
ACGTcount: A:0.24, C:0.04, G:0.27, T:0.45
Consensus pattern (39 bp):
TTTACTAAGGTTTAAGGGTTTATTAGGGTTTGTAAGGTT
Found at i:146948 original size:10 final size:10
Alignment explanation
Indices: 146769--146952 Score: 67
Period size: 10 Copynumber: 18.6 Consensus size: 10
146759 GGTTTATAAG
146769 GGTTTACTA-
1 GGTTTACTAT
* *
146778 GATTTATTAT
1 GGTTTACTAT
* * *
146788 GATTTATTAA
1 GGTTTACTAT
*
146798 GGTTTAC-AA
1 GGTTTACTAT
* *
146807 GGGTTACTAG
1 GGTTTACTAT
*
146817 GGTTTATTA-
1 GGTTTACTAT
* *
146826 GGATTTATTAG
1 GG-TTTACTAT
146837 GGTTTACTA-
1 GGTTTACTAT
*
146846 GAGTTTAATA-
1 G-GTTTACTAT
*
146856 GTGTTTACTAG
1 G-GTTTACTAT
*
146867 GGTTTA-TAAG
1 GGTTTACT-AT
*
146877 GGCTTACTAT
1 GGTTTACTAT
*
146887 GGTTTA-TAAG
1 GGTTTACT-AT
*
146897 GGCTTACTAT
1 GGTTTACTAT
* *
146907 GGTTTACAAC
1 GGTTTACTAT
*
146917 GGTTTACTAG
1 GGTTTACTAT
**
146927 GGTTTGGTAT
1 GGTTTACTAT
*
146937 GGTTTACAAT
1 GGTTTACTAT
146947 GGTTTA
1 GGTTTA
146953 TGTTGAAAAT
Statistics
Matches: 135, Mismatches: 30, Indels: 19
0.73 0.16 0.10
Matches are distributed among these distances:
9 20 0.15
10 110 0.81
11 5 0.04
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (10 bp):
GGTTTACTAT
Found at i:154740 original size:214 final size:214
Alignment explanation
Indices: 154365--154785 Score: 743
Period size: 214 Copynumber: 2.0 Consensus size: 214
154355 GGGCAGAACG
* *
154365 GTAGACCAAAGCTTCATAGTAAGATCATTTCTGGAAATTCATGCTGCCATACTAACAGAATATAT
1 GTAGAACAAAGCTTCATAGTAAGATCATTTCTAGAAATTCATGCTGCCATACTAACAGAATATAT
*
154430 TAGCCACTAGATACAACTCTGATCAACGTTCGAATAGTTCTTCATAGCAAAGTTTAAACTGAGAA
66 TAGCCACTAGATACAACTCTGATCAACGTTCGAATAGTTCTTCATAGCAAAGTTCAAACTGAGAA
* *
154495 TTACTAGCACATCTTACAGCCACTACCATTAGACAATCACTCTAAAATAAACGAGAAGCTGAGAA
131 TTACTAGCACATCTTACAGCCACTACCATTAGAAAATCACTCTAAAATAAACGAGAAACTGAGAA
154560 TTGTTATGGCATAAGAATA
196 TTGTTATGGCATAAGAATA
*
154579 GTAGAACAAAGCTTCATAGTAAGATCATTTCTAGAAATTCATGTTGCCATACTAACAGAATATAT
1 GTAGAACAAAGCTTCATAGTAAGATCATTTCTAGAAATTCATGCTGCCATACTAACAGAATATAT
* * *
154644 TAGCCACTAGATACAGCTCTGATCAACGTTTGAATAGTTCTTCATAGCAAAGTTCACACTGAGAA
66 TAGCCACTAGATACAACTCTGATCAACGTTCGAATAGTTCTTCATAGCAAAGTTCAAACTGAGAA
* *
154709 TTACTGGCACATCTTACAGCCACTACCATTAGAAAATCACTCTAATATAAACGAGAAACTGAGAA
131 TTACTAGCACATCTTACAGCCACTACCATTAGAAAATCACTCTAAAATAAACGAGAAACTGAGAA
154774 TTGTTATGGCAT
196 TTGTTATGGCAT
154786 GCGAATATAC
Statistics
Matches: 196, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
214 196 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (214 bp):
GTAGAACAAAGCTTCATAGTAAGATCATTTCTAGAAATTCATGCTGCCATACTAACAGAATATAT
TAGCCACTAGATACAACTCTGATCAACGTTCGAATAGTTCTTCATAGCAAAGTTCAAACTGAGAA
TTACTAGCACATCTTACAGCCACTACCATTAGAAAATCACTCTAAAATAAACGAGAAACTGAGAA
TTGTTATGGCATAAGAATA
Found at i:158892 original size:21 final size:20
Alignment explanation
Indices: 158825--158899 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
158815 CAGTTTCCAA
* * *
158825 AATCGCAACGCGATTCTTGAC
1 AATCGCAATGCGATT-TTCAT
158846 AATCGCAATGCGATTTTCAT
1 AATCGCAATGCGATTTTCAT
* *
158866 ATTCGCATTGCGATTTTCCAT
1 AATCGCAATGCGATTTT-CAT
*
158887 AATCGCAACGCGA
1 AATCGCAATGCGA
158900 ATATGAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 18 0.40
21 27 0.60
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (20 bp):
AATCGCAATGCGATTTTCAT
Found at i:158912 original size:20 final size:20
Alignment explanation
Indices: 158887--159039 Score: 75
Period size: 20 Copynumber: 7.7 Consensus size: 20
158877 GATTTTCCAT
* *
158887 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
158907 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
158927 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
158947 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
158967 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
158987 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
159007 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
159027 AATCGCAACGCGA
1 AATCGCAACGCGA
159040 TTTTTAAAGC
Statistics
Matches: 121, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
19 2 0.02
20 117 0.97
21 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:158935 original size:40 final size:40
Alignment explanation
Indices: 158883--159038 Score: 136
Period size: 40 Copynumber: 3.9 Consensus size: 40
158873 TTGCGATTTT
*
158883 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCG-AA
1 CCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
* * * * *
158921 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
* * * * * *
158962 CCGTAAATCGCAACGCGTATCCGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
* * * * *
159002 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGCG
1 CCATAAATCGCAACGCGAATACGAAAATCGCAACGCG
159039 ATTTTTAAAG
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
38 1 0.01
39 3 0.03
40 98 0.94
41 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.19
Consensus pattern (40 bp):
CCATAAATCGCAACGCGAATACGAAAATCGCAACGCGTAA
Found at i:158970 original size:60 final size:59
Alignment explanation
Indices: 158887--159039 Score: 207
Period size: 60 Copynumber: 2.6 Consensus size: 59
158877 GATTTTCCAT
* ** *
158887 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATAAATCGCAACGCGTATCCGTA
* * * *
158947 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATAAATCGCAACGCGTATCCGTA
*
159007 TATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
159040 TTTTTAAAGC
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
59 1 0.01
60 79 0.96
61 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (59 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATAAATCGCAACGCGTATCCGTA
Found at i:159457 original size:33 final size:33
Alignment explanation
Indices: 159418--159488 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
159408 TTCACTTAGA
159418 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
159451 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
159484 TTTCA
1 TTTCA
159489 AGATAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:159594 original size:21 final size:20
Alignment explanation
Indices: 159568--159674 Score: 102
Period size: 21 Copynumber: 5.5 Consensus size: 20
159558 TGCAGAAGAG
159568 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* **
159589 TCGCAACGTGAAAATGACTA
1 TCGCAACGAGAAAATGAAAA
159609 TCTGCAACGAGAAAAATGAAAA
1 TC-GCAACGAG-AAAATGAAAA
159631 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
159645 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
159664 TCGCAACGAGA
1 TCGCAACGAGA
159675 GAATCGCAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 11 0.16
20 9 0.13
21 25 0.36
22 10 0.14
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:159648 original size:14 final size:14
Alignment explanation
Indices: 159629--159685 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
159619 GAAAAATGAA
159629 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
159643 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
159662 AATCGCAACGAGAG
1 AATCGCAACGAGAG
159676 AATCGCAACG
1 AATCGCAACG
159686 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:159660 original size:33 final size:33
Alignment explanation
Indices: 159622--159701 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
159612 GCAACGAGAA
159622 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
159655 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
159688 AAACCAAAATCGCA
1 AAATGAAAATCGCA
159702 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:159719 original size:19 final size:19
Alignment explanation
Indices: 159697--159824 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
159687 GAAACCAAAA
*
159697 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
159716 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
159730 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
159749 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
159763 TCTCGTTGCGATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
* ***
159783 CTCTCGTTGCGACAATCATT
1 -TCGCGTTGCGATTTTCATT
*
159803 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
159823 TC
1 TC
159825 AACCAAAAGA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.23
16 6 0.07
17 6 0.07
19 22 0.25
20 19 0.22
21 14 0.16
ACGTcount: A:0.12, C:0.25, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:159738 original size:14 final size:14
Alignment explanation
Indices: 159719--159775 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
159709 TTTCATTTCG
159719 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
159733 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
159752 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
159766 CGTTGCGATT
1 CGTTGCGATT
159776 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:159744 original size:33 final size:33
Alignment explanation
Indices: 159702--159824 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
159692 CAAAATCGCA
159702 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
159735 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
159768 TTGCGATTTTCATTTCTCTCGTTGCGACAATCATTCTCTCG
1 TTGCGATTTTCA-TT-TCGCGTTGCG------ATTCTCTCG
159809 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
159825 AACCAAAAGA
Statistics
Matches: 81, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
33 45 0.56
34 2 0.02
35 9 0.11
39 2 0.02
40 2 0.02
41 21 0.26
ACGTcount: A:0.11, C:0.24, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:159786 original size:21 final size:21
Alignment explanation
Indices: 159760--159824 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
159750 CGCGTTGCGA
159760 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
159781 TTCTCTCGTTGCGACAATCA-
1 TTCTCTCGTTGCGATTTTCAT
159801 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
159822 TTC
1 TTC
159825 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.12, C:0.26, G:0.14, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:161920 original size:92 final size:93
Alignment explanation
Indices: 161519--161926 Score: 800
Period size: 93 Copynumber: 4.4 Consensus size: 93
161509 TAGATTGCTT
*
161519 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
161584 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
161612 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
161677 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
161705 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
161770 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
161798 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
161862 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
161890 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
161927 AATACCCTGA
Statistics
Matches: 314, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 72 0.23
93 242 0.77
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:162061 original size:14 final size:14
Alignment explanation
Indices: 162042--162098 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
162032 CGAAACTTAA
162042 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
162056 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
162075 AATCGCAACGACAG
1 AATCGCAACGAGAG
162089 AATCGCAACG
1 AATCGCAACG
162099 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:162080 original size:19 final size:18
Alignment explanation
Indices: 162056--162147 Score: 65
Period size: 19 Copynumber: 5.4 Consensus size: 18
162046 GCAACGAGAG
162056 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
162075 AATCGCAA--CGACAG--
1 AATCGCAACGCGAAAGAA
*
162089 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
162108 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAAGAA
*
162122 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
162141 AATCGCA
1 AATCGCA
162148 TTGCGATTTC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 19 0.32
15 1 0.02
16 7 0.12
17 6 0.10
18 1 0.02
19 26 0.43
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:162082 original size:33 final size:33
Alignment explanation
Indices: 162024--162147 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
162014 TAGTTTACTT
* * *
162024 TCGCAACACGAAACTTAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGACAGAA
**
162058 TCGCAACGCGAAATGAAAATCGCAACGACAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
*
162091 TCGCAACGCGAAACCAAAATCGCAACGACAAAA
1 TCGCAACGCGAAACCAAAATCGCAACGACAGAA
162124 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
162148 TTGCGATTTC
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (33 bp):
TCGCAACGCGAAACCAAAATCGCAACGACAGAA
Found at i:162124 original size:14 final size:14
Alignment explanation
Indices: 162073--162131 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
162063 ACGCGAAATG
162073 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
162087 AGAATCGCAACGCGAAACC
1 AAAATCGCAA--CG--A-C
162106 AAAATCGCAACGAC
1 AAAATCGCAACGAC
162120 AAAATCGCAACG
1 AAAATCGCAACG
162132 CGAAACCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.47, C:0.29, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:162202 original size:19 final size:19
Alignment explanation
Indices: 162178--162313 Score: 156
Period size: 19 Copynumber: 7.4 Consensus size: 19
162168 GCGATTCTCT
162178 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTGGTTTCG
*
162197 CGTTGCGATTCT-G--T--
1 CGTTGCGATTTTGGTTTCG
**
162211 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTGGTTTCG
162230 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTGGTTTCG
*
162249 CGTTGCGATTTTGGTTTCT
1 CGTTGCGATTTTGGTTTCG
* **
162268 CGTTGCGATTCTCATTTCG
1 CGTTGCGATTTTGGTTTCG
*
162287 CGTTGCGATTTTAGTTTCG
1 CGTTGCGATTTTGGTTTCG
*
162306 TGTTGCGA
1 CGTTGCGA
162314 AAGTAAACTA
Statistics
Matches: 98, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
14 11 0.11
16 1 0.01
17 1 0.01
18 1 0.01
19 84 0.86
ACGTcount: A:0.08, C:0.18, G:0.27, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTGGTTTCG
Found at i:162216 original size:14 final size:14
Alignment explanation
Indices: 162164--162220 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
162154 TTTCATTTCG
*
162164 CGTTGCGATTCTCT
1 CGTTGCGATTCTGT
*
162178 CGTTGCGATTTTGGTTT
1 CGTTGCGATTCT-G--T
162195 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTGT
162211 CGTTGCGATT
1 CGTTGCGATT
162221 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 21 0.60
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.31
ACGTcount: A:0.07, C:0.21, G:0.28, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTGT
Found at i:162263 original size:71 final size:65
Alignment explanation
Indices: 162148--162279 Score: 183
Period size: 71 Copynumber: 1.9 Consensus size: 65
162138 CAAAATCGCA
*
162148 TTGCGATTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTGGTTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTCATTTCGCGTTGCGATTCTCGCGTTGCGATTTTGGTTTCGCGTTGCGATTCTGTCG
* *
162213 TTGCGATTTTCATTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATTTTGGTTTCTCGTTGCGATT
1 TTGCGA-TTTCATTTCGCGTTGCGA---T--TCTCGCGTTGCGATTTTGGTTTCGCGTTGCGATT
162278 CT
60 CT
162280 CATTTCGCGT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
65 6 0.10
66 18 0.31
69 1 0.02
71 33 0.57
ACGTcount: A:0.08, C:0.20, G:0.26, T:0.47
Consensus pattern (65 bp):
TTGCGATTTCATTTCGCGTTGCGATTCTCGCGTTGCGATTTTGGTTTCGCGTTGCGATTCTGTCG
Found at i:162272 original size:38 final size:37
Alignment explanation
Indices: 162159--162313 Score: 164
Period size: 38 Copynumber: 4.4 Consensus size: 37
162149 TGCGATTTCA
*
162159 TTTCGCGTTGCGATTC----TCTCGTTGCGATTTTGG
1 TTTCGCGTTGCGATTCTGTTTCGCGTTGCGATTTTGG
**
162192 TTTCGCGTTGCGATTCTG--T--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTGTTTCGCGTTGCGATTTTGG
*
162225 TTTCGCGTTGCGATTTTGGTTTCGCGTTGCGATTTTGG
1 TTTCGCGTTGCGATTCT-GTTTCGCGTTGCGATTTTGG
* * *
162263 TTTCTCGTTGCGATTCTCATTTCGCGTTGCGATTTTAG
1 TTTCGCGTTGCGATTCT-GTTTCGCGTTGCGATTTTGG
*
162301 TTTCGTGTTGCGA
1 TTTCGCGTTGCGA
162314 AAGTAAACTA
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
33 44 0.43
34 1 0.01
35 1 0.01
36 1 0.01
38 56 0.54
ACGTcount: A:0.08, C:0.19, G:0.26, T:0.46
Consensus pattern (37 bp):
TTTCGCGTTGCGATTCTGTTTCGCGTTGCGATTTTGG
Found at i:162296 original size:57 final size:52
Alignment explanation
Indices: 162178--162313 Score: 191
Period size: 57 Copynumber: 2.5 Consensus size: 52
162168 GCGATTCTCT
*
162178 CGTTGCGATTTTGGTTTCGCGTTGCGATTCTGTCGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTGGTTTCGCGTTGCGATTCTGTCGTTGCGATTCTCATTTCG
*
162230 CGTTGCGATTTTGGTTTCGCGTTGCGATTTTGGTTTCTCGTTGCGATTCTCATTTCG
1 CGTTGCGATTTTGGTTTCGCGTTGCGATTCT-G----TCGTTGCGATTCTCATTTCG
* *
162287 CGTTGCGATTTTAGTTTCGTGTTGCGA
1 CGTTGCGATTTTGGTTTCGCGTTGCGA
162314 AAGTAAACTA
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
52 30 0.40
53 1 0.01
57 44 0.59
ACGTcount: A:0.08, C:0.18, G:0.27, T:0.46
Consensus pattern (52 bp):
CGTTGCGATTTTGGTTTCGCGTTGCGATTCTGTCGTTGCGATTCTCATTTCG
Found at i:164258 original size:14 final size:14
Alignment explanation
Indices: 164239--164274 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
164229 ATTGTTTAAT
164239 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
164253 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
164267 TGATTTGT
1 TGATTTGT
164275 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:164389 original size:19 final size:19
Alignment explanation
Indices: 164365--164452 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
164355 GCATTATGTT
164365 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
164384 GAAATGAAAATCGCAAT--
1 GAAATGAAAATCGCAATGC
*
164401 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAATGC
164417 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
164436 GGAAATGAAAATCGCAA
1 -GAAATGAAAATCGCAA
164453 CGAGAGAATC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 11 0.18
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 30 0.49
20 16 0.26
ACGTcount: A:0.48, C:0.15, G:0.23, T:0.15
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:164484 original size:53 final size:53
Alignment explanation
Indices: 164365--164471 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
164355 GCATTATGTT
*
164365 GAAATGAAAATCGCAATGC-GAAATGAAAATCGCAATGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
164417 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
164470 GA
1 GA
164472 TTTTCATTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 19 0.36
53 34 0.64
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (53 bp):
GAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:164489 original size:19 final size:19
Alignment explanation
Indices: 164461--164664 Score: 187
Period size: 19 Copynumber: 11.7 Consensus size: 19
164451 AACGAGAGAA
*
164461 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
164480 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
164499 TCCGCATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
164516 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
164533 TCGCATTGTGA--TTC-TC
1 TCGCATTGCGATTTTCATT
164549 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
164566 TCCGTATTGCGA--TTC-TC
1 T-CGCATTGCGATTTTCATT
164583 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
164600 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
164619 TCGCATTGCGATTTTC--T
1 TCGCATTGCGATTTTCATT
*
164636 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
164652 TCGCATTGCGATT
1 TCGCATTGCGATT
164665 CTCTCGTTGC
Statistics
Matches: 152, Mismatches: 11, Indels: 44
0.73 0.05 0.21
Matches are distributed among these distances:
14 27 0.18
16 20 0.13
17 20 0.13
18 8 0.05
19 61 0.40
20 16 0.11
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:164524 original size:14 final size:14
Alignment explanation
Indices: 164505--164593 Score: 52
Period size: 14 Copynumber: 5.6 Consensus size: 14
164495 CATTTCCGCA
164505 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
164519 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
*
164536 CATTGTGATTCTCTCG
1 --TTGCGATTCTCTCG
*
164552 TTGCGATTTTCATTTCCG
1 TTGCGA--TTC-TCT-CG
164570 TATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
164586 TTGCGATT
1 TTGCGATT
164594 TTCATTTCGC
Statistics
Matches: 58, Mismatches: 6, Indels: 22
0.67 0.07 0.26
Matches are distributed among these distances:
14 19 0.33
16 12 0.21
17 11 0.19
18 5 0.09
19 5 0.09
20 6 0.10
ACGTcount: A:0.11, C:0.22, G:0.19, T:0.47
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:164546 original size:33 final size:34
Alignment explanation
Indices: 164485--164612 Score: 224
Period size: 34 Copynumber: 3.8 Consensus size: 34
164475 TCATTTCGCA
164485 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
*
164519 TTGCGATTTTCATTT-CGCATTGTGATTCTCTCG
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
*
164552 TTGCGATTTTCATTTCCGTATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
164586 TTGCGATTTTCATTT-CGCATTGCGATT
1 TTGCGATTTTCATTTCCGCATTGCGATT
164613 TTCATTTCGC
Statistics
Matches: 89, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
33 43 0.48
34 46 0.52
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.47
Consensus pattern (34 bp):
TTGCGATTTTCATTTCCGCATTGCGATTCTCTCG
Found at i:164593 original size:67 final size:67
Alignment explanation
Indices: 164485--164612 Score: 238
Period size: 67 Copynumber: 1.9 Consensus size: 67
164475 TCATTTCGCA
*
164485 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGTGATTCTCT
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
164550 CG
66 CG
*
164552 TTGCGATTTTCATTTCCGTATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
164613 TTCATTTCGC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.47
Consensus pattern (67 bp):
TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCT
CG
Found at i:164648 original size:52 final size:53
Alignment explanation
Indices: 164552--164664 Score: 183
Period size: 52 Copynumber: 2.2 Consensus size: 53
164542 GATTCTCTCG
*
164552 TTGCGATTTTCATTTCCGTATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
* * *
164605 TTGCGATTTTCATTT-CGCATTGCGATTTTCTTGTTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
164657 TTGCGATT
1 TTGCGATT
164665 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
52 41 0.73
53 15 0.27
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.49
Consensus pattern (53 bp):
TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:164686 original size:33 final size:33
Alignment explanation
Indices: 164605--164678 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
164595 TCATTTCGCA
* *
164605 TTGCGATTTTCATTTCGCATTGCGATTTTCTTG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
164638 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
164671 TTGCGATT
1 TTGCGATT
164679 GTAATTTCCG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.12, C:0.19, G:0.20, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:164686 original size:119 final size:120
Alignment explanation
Indices: 164467--164697 Score: 392
Period size: 119 Copynumber: 1.9 Consensus size: 120
164457 AGAATCGCAA
164467 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
* * *
164532 TTCGCATTGTGATTCTCTCGTTGCGATTTTCATTTCCGTATTGCGATTCTCTCGT
66 TTCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCCGTATTGCGATTCTCTCGT
* * *
164587 TGCGATTTTCATTTCGCATTGCGATTTTCATTT-CGCATTGCGATTTTCTTGTTGGGATTTTCAT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
*
164651 TTCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCCGTGTTGCGAT
66 TTCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCCGTATTGCGAT
164698 AGTCAAATGC
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 71 0.68
120 33 0.32
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (120 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCAT
TTCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCCGTATTGCGATTCTCTCGT
Found at i:164695 original size:86 final size:86
Alignment explanation
Indices: 164467--164697 Score: 272
Period size: 86 Copynumber: 2.7 Consensus size: 86
164457 AGAATCGCAA
* * ** *
164467 TGCGATTTTCATTT-CGCATTGCGATT-T-TCATTTCCGCATTGCGATTCTCTCGTTGCGATTTT
1 TGCGATTTTCATTTCCGCATTGCGATTCTCTC-GTTGCG-ATTGTAATT-TCGCGTTGCGATTTT
*
164529 CATTTCGCATTGTGATTCTCTCGT
63 CATTTCGCATTGCGATTCTCTCGT
* * * *
164553 TGCGATTTTCATTTCCGTATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCAT
1 TGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCGCGTTGCGATTTTCAT
* *
164618 TTCGCATTGCGATTTTCTTGT
66 TTCGCATTGCGATTCTCTCGT
* *
164639 TGGGATTTTCATTT-CGCATTGCGATTCTCTCGTTGCGATTGTAATTTCCGTGTTGCGAT
1 TGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTGTAATTT-CGCGTTGCGAT
164698 AGTCAAATGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
85 30 0.24
86 70 0.56
87 17 0.14
88 5 0.04
89 2 0.02
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (86 bp):
TGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTGTAATTTCGCGTTGCGATTTTCAT
TTCGCATTGCGATTCTCTCGT
Found at i:167182 original size:24 final size:24
Alignment explanation
Indices: 167155--167201 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
167145 TTGAAACATC
167155 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
167179 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
167202 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:167918 original size:20 final size:20
Alignment explanation
Indices: 167890--168118 Score: 244
Period size: 20 Copynumber: 11.4 Consensus size: 20
167880 AAATTTCAGT
* * *
167890 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
167910 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
167930 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
167950 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
167970 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
167990 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
168010 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
168030 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
* *
168050 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
168070 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
168090 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
168110 GTTGCGATT
1 GTTGCGATT
168119 ATGGAAAATC
Statistics
Matches: 185, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 184 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:168136 original size:21 final size:20
Alignment explanation
Indices: 168112--168159 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
168102 ATATTCGCGT
168112 TGCGATTATGGAAAATCGCAA
1 TGCGATTAT-GAAAATCGCAA
* *
168133 TGCGAATATGAAAATCGCAT
1 TGCGATTATGAAAATCGCAA
168153 TGCGATT
1 TGCGATT
168160 GTCAAGAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (20 bp):
TGCGATTATGAAAATCGCAA
Found at i:172424 original size:19 final size:19
Alignment explanation
Indices: 172400--172436 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
172390 CAGTAATTGA
172400 CAATACCTAAGTTTTAAGC
1 CAATACCTAAGTTTTAAGC
172419 CAATACCTAAGTTTTAAG
1 CAATACCTAAGTTTTAAG
172437 ACATTCCGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (19 bp):
CAATACCTAAGTTTTAAGC
Found at i:178006 original size:21 final size:21
Alignment explanation
Indices: 177980--178030 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
177970 AAATTTCATG
177980 TTTTGAGTTACAGTTTTTAAA
1 TTTTGAGTTACAGTTTTTAAA
178001 TTTTGAGTTACAGTTTTTAAA
1 TTTTGAGTTACAGTTTTTAAA
*
178022 TTTCGAGTT
1 TTTTGAGTT
178031 TTGAGTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.06, G:0.16, T:0.53
Consensus pattern (21 bp):
TTTTGAGTTACAGTTTTTAAA
Found at i:178039 original size:21 final size:21
Alignment explanation
Indices: 178015--178059 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
178005 GAGTTACAGT
*
178015 TTTTAAATTTCGAGTTTTGAG
1 TTTTAAATTTCGAGATTTGAG
** *
178036 TTTTAGGTTTCGAGATTTGGG
1 TTTTAAATTTCGAGATTTGAG
178057 TTT
1 TTT
178060 AGGGTTTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.53
Consensus pattern (21 bp):
TTTTAAATTTCGAGATTTGAG
Found at i:178066 original size:21 final size:21
Alignment explanation
Indices: 178022--178062 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
178012 AGTTTTTAAA
* *
178022 TTTCGAGTTTTGAGTTTTAGG
1 TTTCGAGATTTGAGGTTTAGG
178043 TTTCGAGATTTG-GGTTTAGG
1 TTTCGAGATTTGAGGTTTAGG
178063 GTTTTATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.15, C:0.05, G:0.32, T:0.49
Consensus pattern (21 bp):
TTTCGAGATTTGAGGTTTAGG
Found at i:178134 original size:14 final size:14
Alignment explanation
Indices: 178117--178153 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
178107 TTTGGGTTTG
*
178117 GGGTTTTAAGATTT
1 GGGTTTCAAGATTT
*
178131 GGGTTTCGAGATTT
1 GGGTTTCAAGATTT
178145 GGGTTTCAA
1 GGGTTTCAA
178154 ATCTCAGGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.32, T:0.43
Consensus pattern (14 bp):
GGGTTTCAAGATTT
Found at i:178181 original size:35 final size:35
Alignment explanation
Indices: 178142--178311 Score: 110
Period size: 35 Copynumber: 4.9 Consensus size: 35
178132 GGTTTCGAGA
* *
178142 TTTGGGTTTCAAATCTCAGGTTTTGAATTTTAGGT
1 TTTGGGTTTCAAATTTCAGGTTTTGAATTTTAAGT
* * ** *
178177 TTTGGGTTTCAAATTTCGGGTTTCGGGTTTTAATT
1 TTTGGGTTTCAAATTTCAGGTTTTGAATTTTAAGT
* * * * *
178212 TTTAGGTTTCAAGTTTCAGGTTTT-AGGTTTCAAAT
1 TTTGGGTTTCAAATTTCAGGTTTTGA-ATTTTAAGT
**** ** **
178247 TTTGGGTTTTTGGTTTC-GAGTTTCAAATTTTGGGT
1 TTTGGGTTTCAAATTTCAG-GTTTTGAATTTTAAGT
* *
178282 TTCGGGTTTCAAATTTCGGGTTTTGAATTT
1 TTTGGGTTTCAAATTTCAGGTTTTGAATTT
178312 CAAATTTCAA
Statistics
Matches: 100, Mismatches: 31, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
34 1 0.01
35 97 0.97
36 2 0.02
ACGTcount: A:0.17, C:0.08, G:0.24, T:0.51
Consensus pattern (35 bp):
TTTGGGTTTCAAATTTCAGGTTTTGAATTTTAAGT
Found at i:178184 original size:21 final size:20
Alignment explanation
Indices: 178160--178221 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
178150 TCAAATCTCA
*
178160 GGTTTTGAATTTTAGGTTTTG
1 GGTTTT-AATTTTAGGTTTCG
* **
178181 GGTTTCAAATTTCGGGTTTCG
1 GGTTT-TAATTTTAGGTTTCG
178202 GGTTTTAATTTTTAGGTTTC
1 GGTTTTAA-TTTTAGGTTTC
178222 AAGTTTCAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
20 2 0.06
21 30 0.94
ACGTcount: A:0.15, C:0.06, G:0.26, T:0.53
Consensus pattern (20 bp):
GGTTTTAATTTTAGGTTTCG
Found at i:178205 original size:28 final size:28
Alignment explanation
Indices: 178182--178290 Score: 92
Period size: 28 Copynumber: 3.9 Consensus size: 28
178172 TAGGTTTTGG
178182 GTTTCAAATTTCGGGTTTCGGGTTTTAA
1 GTTTCAAATTTCGGGTTTCGGGTTTTAA
* * ** ** * *
178210 TTTTTAGGTTTCAAGTTTCAGGTTTTAG
1 GTTTCAAATTTCGGGTTTCGGGTTTTAA
* ** **
178238 GTTTCAAATTTTGGGTTTTTGGTTTCGA
1 GTTTCAAATTTCGGGTTTCGGGTTTTAA
*
178266 GTTTCAAATTTTGGGTTTCGGGTTT
1 GTTTCAAATTTCGGGTTTCGGGTTT
178291 CAAATTTCGG
Statistics
Matches: 59, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.16, C:0.08, G:0.25, T:0.51
Consensus pattern (28 bp):
GTTTCAAATTTCGGGTTTCGGGTTTTAA
Found at i:178206 original size:42 final size:42
Alignment explanation
Indices: 178160--178318 Score: 131
Period size: 42 Copynumber: 3.8 Consensus size: 42
178150 TCAAATCTCA
* * *
178160 GGTTTTGAATTTTAGGTTTTGGGTTTCAAATTTCGGGTTTCG
1 GGTTTTGAATTTTAGGTTTCGAGTTTCAAATTTTGGGTTTCG
* ** * *
178202 GGTTTT-AATTTTTAGGTTTCAAGTTTCAGGTTTTAGGTTTCA
1 GGTTTTGAA-TTTTAGGTTTCGAGTTTCAAATTTTGGGTTTCG
** ** *
178244 AATTTTGGGTTTTTGGTTTCGAGTTTCAAATTTTGGGTTTCG
1 GGTTTTGAATTTTAGGTTTCGAGTTTCAAATTTTGGGTTTCG
** ** * *
178286 GGTTTCAAATTTCGGGTTTTGAATTTCAAATTT
1 GGTTTTGAATTTTAGGTTTCGAGTTTCAAATTT
178319 CAAATTTTGG
Statistics
Matches: 87, Mismatches: 28, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
41 2 0.02
42 85 0.98
ACGTcount: A:0.18, C:0.08, G:0.24, T:0.51
Consensus pattern (42 bp):
GGTTTTGAATTTTAGGTTTCGAGTTTCAAATTTTGGGTTTCG
Found at i:178219 original size:14 final size:14
Alignment explanation
Indices: 178196--178243 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
178186 CAAATTTCGG
*
178196 GTTTCGGGTTTTAA
1 GTTTCAGGTTTTAA
* * *
178210 TTTTTAGGTTTCAA
1 GTTTCAGGTTTTAA
*
178224 GTTTCAGGTTTTAG
1 GTTTCAGGTTTTAA
178238 GTTTCA
1 GTTTCA
178244 AATTTTGGGT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.17, C:0.08, G:0.23, T:0.52
Consensus pattern (14 bp):
GTTTCAGGTTTTAA
Found at i:178270 original size:49 final size:48
Alignment explanation
Indices: 178217--178339 Score: 111
Period size: 49 Copynumber: 2.5 Consensus size: 48
178207 TAATTTTTAG
* *
178217 GTTTCAAGTTTCAGGTTTTAGGTTTCAAATTTTGGGTTTTTGGTTTCGA
1 GTTTCAAGTTTCAGGTTTTGGGTTTCAAATTTTGGG-TTTTGGTTTCAA
* ** * * *
178266 GTTTCAAATTTTGGGTTTCGGGTTTCAAATTTCGGGTTTTGAATTTCAA
1 GTTTCAAGTTTCAGGTTTTGGGTTTCAAATTTTGGGTTTTG-GTTTCAA
* * ** *
178315 ATTTCAAATTTTGGGTTTTAGGTTT
1 GTTTCAAGTTTCAGGTTTTGGGTTT
178340 TGGGTTTCAA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
48 5 0.08
49 57 0.92
ACGTcount: A:0.19, C:0.08, G:0.23, T:0.50
Consensus pattern (48 bp):
GTTTCAAGTTTCAGGTTTTGGGTTTCAAATTTTGGGTTTTGGTTTCAA
Found at i:178291 original size:28 final size:28
Alignment explanation
Indices: 178238--178374 Score: 117
Period size: 28 Copynumber: 5.1 Consensus size: 28
178228 CAGGTTTTAG
*
178238 GTTTCAAATTTTGGGTTTTTGGTTTCGA
1 GTTTCAAATTTTGGGTTTTGGGTTTCGA
*
178266 GTTTCAAA-------TTTTGGGTTTCGG
1 GTTTCAAATTTTGGGTTTTGGGTTTCGA
* ** *
178287 GTTTCAAATTTCGGGTTTTGAATTTCAA
1 GTTTCAAATTTTGGGTTTTGGGTTTCGA
* * * *
178315 ATTTCAAATTTTGGGTTTTAGGTTTTGG
1 GTTTCAAATTTTGGGTTTTGGGTTTCGA
* *
178343 GTTTCAAATTTTGGGTTTTGGTTTTTGA
1 GTTTCAAATTTTGGGTTTTGGGTTTCGA
178371 GTTT
1 GTTT
178375 TAGGCTTCGG
Statistics
Matches: 84, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 19 0.23
28 65 0.77
ACGTcount: A:0.17, C:0.07, G:0.24, T:0.53
Consensus pattern (28 bp):
GTTTCAAATTTTGGGTTTTGGGTTTCGA
Found at i:178294 original size:21 final size:21
Alignment explanation
Indices: 178167--178318 Score: 97
Period size: 21 Copynumber: 7.2 Consensus size: 21
178157 TCAGGTTTTG
* *
178167 AATTTTAGGTTTTGGGTTTCA
1 AATTTTAGGTTTCGAGTTTCA
** * *
178188 AATTTCGGGTTTCGGGTTTTA
1 AATTTTAGGTTTCGAGTTTCA
* *
178209 ATTTTTAGGTTTCAAGTTTCA
1 AATTTTAGGTTTCGAGTTTCA
** * * **
178230 GGTTTTAGGTTTCAAATTTTG
1 AATTTTAGGTTTCGAGTTTCA
** *
178251 GGTTTTTGGTTTCGAGTTTCA
1 AATTTTAGGTTTCGAGTTTCA
* *
178272 AATTTTGGGTTTCGGGTTTCA
1 AATTTTAGGTTTCGAGTTTCA
** * *
178293 AATTTCGGGTTTTGAATTTCA
1 AATTTTAGGTTTCGAGTTTCA
178314 AATTT
1 AATTT
178319 CAAATTTTGG
Statistics
Matches: 103, Mismatches: 28, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 103 1.00
ACGTcount: A:0.18, C:0.08, G:0.23, T:0.51
Consensus pattern (21 bp):
AATTTTAGGTTTCGAGTTTCA
Found at i:178298 original size:14 final size:14
Alignment explanation
Indices: 178281--178360 Score: 61
Period size: 14 Copynumber: 5.7 Consensus size: 14
178271 AAATTTTGGG
178281 TTTCGGGTTTCAAA
1 TTTCGGGTTTCAAA
**
178295 TTTCGGGTTTTGAA
1 TTTCGGGTTTCAAA
***
178309 TTTCAAATTTCAAA
1 TTTCGGGTTTCAAA
* * **
178323 TTTTGGGTTTTAGG
1 TTTCGGGTTTCAAA
*
178337 TTTTGGGTTTCAAA
1 TTTCGGGTTTCAAA
*
178351 TTTTGGGTTT
1 TTTCGGGTTT
178361 TGGTTTTTGA
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 49 1.00
ACGTcount: A:0.19, C:0.07, G:0.23, T:0.51
Consensus pattern (14 bp):
TTTCGGGTTTCAAA
Found at i:178326 original size:21 final size:21
Alignment explanation
Indices: 178288--178327 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
178278 GGGTTTCGGG
***
178288 TTTCAAATTTCGGGTTTTGAA
1 TTTCAAATTTCAAATTTTGAA
178309 TTTCAAATTTCAAATTTTG
1 TTTCAAATTTCAAATTTTG
178328 GGTTTTAGGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (21 bp):
TTTCAAATTTCAAATTTTGAA
Found at i:178333 original size:7 final size:7
Alignment explanation
Indices: 178323--178409 Score: 50
Period size: 7 Copynumber: 12.4 Consensus size: 7
178313 AAATTTCAAA
178323 TTTTGGG
1 TTTTGGG
*
178330 TTTTAGG
1 TTTTGGG
178337 TTTTGGG
1 TTTTGGG
****
178344 TTTCAAA
1 TTTTGGG
178351 TTTTGGG
1 TTTTGGG
*
178358 TTTTGGT
1 TTTTGGG
*
178365 TTTTGAG
1 TTTTGGG
*
178372 TTTTAGG
1 TTTTGGG
* *
178379 CTTCGGG
1 TTTTGGG
178386 TTTCT-GG
1 TTT-TGGG
**
178393 TTTTGAA
1 TTTTGGG
178400 TTTTGGG
1 TTTTGGG
178407 TTT
1 TTT
178410 CAGGTTTTAA
Statistics
Matches: 54, Mismatches: 24, Indels: 4
0.66 0.29 0.05
Matches are distributed among these distances:
6 1 0.02
7 53 0.98
ACGTcount: A:0.09, C:0.05, G:0.30, T:0.56
Consensus pattern (7 bp):
TTTTGGG
Found at i:178407 original size:21 final size:21
Alignment explanation
Indices: 178383--178437 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
178373 TTTAGGCTTC
* *
178383 GGGTTTCTGGTTTTGAATTTT
1 GGGTTTCAGGTTTTAAATTTT
*
178404 GGGTTTCAGGTTTTAAATTTC
1 GGGTTTCAGGTTTTAAATTTT
178425 GAGGTTT-AGGTTT
1 G-GGTTTCAGGTTT
178438 AGGGTTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.15, C:0.05, G:0.29, T:0.51
Consensus pattern (21 bp):
GGGTTTCAGGTTTTAAATTTT
Found at i:178415 original size:28 final size:28
Alignment explanation
Indices: 178356--178417 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
178346 TCAAATTTTG
* *
178356 GGTTTTGGTTTTTGAGTTTTAGGCTTCG
1 GGTTTTGGTTTTTGAATTTTAGGCTTCA
* *
178384 GGTTTCTGG-TTTTGAATTTTGGGTTTCA
1 GGTTT-TGGTTTTTGAATTTTAGGCTTCA
178412 GGTTTT
1 GGTTTT
178418 AAATTTCGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 1 0.03
28 25 0.86
29 3 0.10
ACGTcount: A:0.08, C:0.06, G:0.31, T:0.55
Consensus pattern (28 bp):
GGTTTTGGTTTTTGAATTTTAGGCTTCA
Found at i:178457 original size:21 final size:21
Alignment explanation
Indices: 178429--178479 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
178419 AATTTCGAGG
**
178429 TTTAGGTTTAGGGTTTCAAAT
1 TTTAGGTTTAGAATTTCAAAT
* *
178450 TTTGGGTTTCGAATTTCAAAT
1 TTTAGGTTTAGAATTTCAAAT
178471 TTTAGGTTT
1 TTTAGGTTT
178480 CAGGTTTTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.51
Consensus pattern (21 bp):
TTTAGGTTTAGAATTTCAAAT
Found at i:178500 original size:21 final size:21
Alignment explanation
Indices: 178476--178563 Score: 88
Period size: 21 Copynumber: 4.2 Consensus size: 21
178466 CAAATTTTAG
*
178476 GTTTCAGGTTTTGGGTTTCGA
1 GTTTCGGGTTTTGGGTTTCGA
178497 GTTTCGGGTTTCT-GGTTTCGA
1 GTTTCGGGTTT-TGGGTTTCGA
* *** *
178518 GTTTTGGGTTTTAAATTTCAA
1 GTTTCGGGTTTTGGGTTTCGA
* *
178539 ATTTCGGGTTTCGGGTTTCGA
1 GTTTCGGGTTTTGGGTTTCGA
178560 GTTT
1 GTTT
178564 TAAATTTTGT
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 1 0.02
21 50 0.96
22 1 0.02
ACGTcount: A:0.11, C:0.10, G:0.30, T:0.49
Consensus pattern (21 bp):
GTTTCGGGTTTTGGGTTTCGA
Found at i:178549 original size:35 final size:35
Alignment explanation
Indices: 178439--178570 Score: 104
Period size: 35 Copynumber: 3.8 Consensus size: 35
178429 TTTAGGTTTA
* * * *
178439 GGGTTTCAAATTTTGGGTTTCGAATTTCAAATTTT
1 GGGTTTCGAGTTTTGGGTTTCAAATTTCAAATTTC
* * * ***
178474 AGGTTTC-AGGTTTTGGGTTTCGAGTTTCGGGTTTC
1 GGGTTTCGA-GTTTTGGGTTTCAAATTTCAAATTTC
* *
178509 TGGTTTCGAGTTTTGGGTTTTAAATTTCAAATTTC
1 GGGTTTCGAGTTTTGGGTTTCAAATTTCAAATTTC
* * * *
178544 GGGTTTCGGGTTTCGAGTTTTAAATTT
1 GGGTTTCGAGTTTTGGGTTTCAAATTT
178571 TGTGTTTTGG
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
34 1 0.01
35 75 0.97
36 1 0.01
ACGTcount: A:0.17, C:0.09, G:0.26, T:0.48
Consensus pattern (35 bp):
GGGTTTCGAGTTTTGGGTTTCAAATTTCAAATTTC
Found at i:178584 original size:21 final size:21
Alignment explanation
Indices: 178560--178606 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
178550 CGGGTTTCGA
*
178560 GTTTTAAA-TTTTGTGTTTTGG
1 GTTTTAAAGTTTAG-GTTTTGG
*
178581 GTTTCAAAGTTTAGGTTTTGG
1 GTTTTAAAGTTTAGGTTTTGG
178602 GTTTT
1 GTTTT
178607 TAGTTTTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.15, C:0.02, G:0.26, T:0.57
Consensus pattern (21 bp):
GTTTTAAAGTTTAGGTTTTGG
Found at i:178599 original size:35 final size:35
Alignment explanation
Indices: 178568--178661 Score: 122
Period size: 35 Copynumber: 2.7 Consensus size: 35
178558 GAGTTTTAAA
178568 TTTTGTGTTTTGGGTTTCAAAGTTTAGGTTTTGGG
1 TTTTGTGTTTTGGGTTTCAAAGTTTAGGTTTTGGG
* * *
178603 TTTT-TAGTTTTTGGTTTCAAATTTTGGGTTTTGGG
1 TTTTGT-GTTTTGGGTTTCAAAGTTTAGGTTTTGGG
178638 TTTTG-GATTTTGGGTTTC-AAGTTT
1 TTTTGTG-TTTTGGGTTTCAAAGTTT
178662 CGGGTTTCGG
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
34 7 0.14
35 44 0.86
ACGTcount: A:0.12, C:0.03, G:0.28, T:0.57
Consensus pattern (35 bp):
TTTTGTGTTTTGGGTTTCAAAGTTTAGGTTTTGGG
Found at i:178633 original size:21 final size:21
Alignment explanation
Indices: 178609--178760 Score: 75
Period size: 21 Copynumber: 7.6 Consensus size: 21
178599 TGGGTTTTTA
*
178609 GTTTTTGGTTTCAAATTTTGG
1 GTTTTGGGTTTCAAATTTTGG
178630 GTTTTGGG--T-----TTTGG
1 GTTTTGGGTTTCAAATTTTGG
* * *
178644 ATTTTGGGTTTCAAGTTTCGG
1 GTTTTGGGTTTCAAATTTTGG
* * * **
178665 GTTTCGGATTTTAAATTTCAG
1 GTTTTGGGTTTCAAATTTTGG
* * *
178686 GTTTCGAGTTTCAAATTTTAG
1 GTTTTGGGTTTCAAATTTTGG
* * * * *
178707 GTTTTTGGTTTCGAGTTTCGA
1 GTTTTGGGTTTCAAATTTTGG
**
178728 GTTTTGGGTTTCAAATTTAAG
1 GTTTTGGGTTTCAAATTTTGG
*
178749 GCTTTGGGTTTC
1 GTTTTGGGTTTC
178761 GAGTTTCGAG
Statistics
Matches: 96, Mismatches: 28, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
14 12 0.12
16 1 0.01
19 1 0.01
21 82 0.85
ACGTcount: A:0.15, C:0.08, G:0.26, T:0.51
Consensus pattern (21 bp):
GTTTTGGGTTTCAAATTTTGG
Found at i:178634 original size:7 final size:7
Alignment explanation
Indices: 178624--178654 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
178614 TGGTTTCAAA
178624 TTTTGGG
1 TTTTGGG
178631 TTTTGGG
1 TTTTGGG
*
178638 TTTTGGA
1 TTTTGGG
178645 TTTTGGG
1 TTTTGGG
178652 TTT
1 TTT
178655 CAAGTTTCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.03, C:0.00, G:0.35, T:0.61
Consensus pattern (7 bp):
TTTTGGG
Found at i:178640 original size:28 final size:28
Alignment explanation
Indices: 178518--178641 Score: 106
Period size: 28 Copynumber: 4.4 Consensus size: 28
178508 CTGGTTTCGA
* *
178518 GTTTTGGGTTTTAAATTTCAAATTTCGG
1 GTTTTGGGTTTTAAGTTTCAAATTTTGG
* ** * *
178546 GTTTCGGGTTTCGAGTTTTAAATTTTGT
1 GTTTTGGGTTTTAAGTTTCAAATTTTGG
* **
178574 GTTTTGGGTTTCAAAGTTT-AGGTTTTGG
1 GTTTTGGGTTT-TAAGTTTCAAATTTTGG
** **
178602 GTTTTTAGTTTTTGGTTTCAAATTTTGG
1 GTTTTGGGTTTTAAGTTTCAAATTTTGG
178630 GTTTTGGGTTTT
1 GTTTTGGGTTTT
178642 GGATTTTGGG
Statistics
Matches: 72, Mismatches: 22, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
27 4 0.06
28 63 0.88
29 5 0.07
ACGTcount: A:0.15, C:0.05, G:0.26, T:0.55
Consensus pattern (28 bp):
GTTTTGGGTTTTAAGTTTCAAATTTTGG
Found at i:178703 original size:28 final size:28
Alignment explanation
Indices: 178652--178725 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
178642 GGATTTTGGG
* * **
178652 TTTCAAGTTTCGGGTTTCGGATTTTAAA
1 TTTCAGGTTTCGAGTTTCAAATTTTAAA
**
178680 TTTCAGGTTTCGAGTTTCAAATTTTAGG
1 TTTCAGGTTTCGAGTTTCAAATTTTAAA
**
178708 TTTTTGGTTTCGAGTTTC
1 TTTCAGGTTTCGAGTTTC
178726 GAGTTTTGGG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.18, C:0.11, G:0.22, T:0.50
Consensus pattern (28 bp):
TTTCAGGTTTCGAGTTTCAAATTTTAAA
Found at i:178725 original size:35 final size:34
Alignment explanation
Indices: 178686--178802 Score: 117
Period size: 35 Copynumber: 3.1 Consensus size: 34
178676 TAAATTTCAG
*
178686 GTTTCGAGTTTCAAATTTTAGGTTTTTGGTTTCGA
1 GTTTCGAGTTTCAAATTTAAGG-TTTTGGTTTCGA
*
178721 GTTTCGAGTTTTGGGTTTCAAATTTAAGGCTTTGGGTTTCGA
1 GTTTCGA-------GTTTCAAATTTAAGG-TTTTGGTTTCGA
*
178763 GTTTCGAGTTTCAAATTTCAGGTTTTGAGTTTCGA
1 GTTTCGAGTTTCAAATTTAAGGTTTTG-GTTTCGA
178798 GTTTC
1 GTTTC
178803 AAATTTTGTG
Statistics
Matches: 69, Mismatches: 5, Indels: 16
0.77 0.06 0.18
Matches are distributed among these distances:
34 4 0.06
35 33 0.48
42 32 0.46
ACGTcount: A:0.17, C:0.10, G:0.25, T:0.48
Consensus pattern (34 bp):
GTTTCGAGTTTCAAATTTAAGGTTTTGGTTTCGA
Found at i:178739 original size:42 final size:42
Alignment explanation
Indices: 178693--178773 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
178683 CAGGTTTCGA
* * *
178693 GTTTCAAATTTTAGGTTTTTGGTTTCGAGTTTCGAGTTTTGG
1 GTTTCAAATTTAAGGCTTTGGGTTTCGAGTTTCGAGTTTTGG
178735 GTTTCAAATTTAAGGCTTTGGGTTTCGAGTTTCGAGTTT
1 GTTTCAAATTTAAGGCTTTGGGTTTCGAGTTTCGAGTTT
178774 CAAATTTCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.16, C:0.09, G:0.26, T:0.49
Consensus pattern (42 bp):
GTTTCAAATTTAAGGCTTTGGGTTTCGAGTTTCGAGTTTTGG
Found at i:178768 original size:7 final size:7
Alignment explanation
Indices: 178756--178802 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
178746 AAGGCTTTGG
178756 GTTTCGA
1 GTTTCGA
178763 GTTTCGA
1 GTTTCGA
*
178770 GTTTCAA
1 GTTTCGA
*
178777 ATTTC-A
1 GTTTCGA
*
178783 GGTTTTGA
1 -GTTTCGA
178791 GTTTCGA
1 GTTTCGA
178798 GTTTC
1 GTTTC
178803 AAATTTTGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
6 1 0.03
7 31 0.94
8 1 0.03
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.47
Consensus pattern (7 bp):
GTTTCGA
Found at i:178782 original size:42 final size:42
Alignment explanation
Indices: 178694--178782 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
178684 AGGTTTCGAG
* * * ****
178694 TTTCAAATTTTAGGTTTTTGGTTTCGAGTTTCGAGTTTTGGG
1 TTTCAAATTTAAGGCTTTGGGTTTCGAGTTTCGAGTTTCAAA
178736 TTTCAAATTTAAGGCTTTGGGTTTCGAGTTTCGAGTTTCAAA
1 TTTCAAATTTAAGGCTTTGGGTTTCGAGTTTCGAGTTTCAAA
178778 TTTCA
1 TTTCA
178783 GGTTTTGAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.19, C:0.10, G:0.22, T:0.48
Consensus pattern (42 bp):
TTTCAAATTTAAGGCTTTGGGTTTCGAGTTTCGAGTTTCAAA
Found at i:178786 original size:28 final size:28
Alignment explanation
Indices: 178755--178808 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
178745 TAAGGCTTTG
178755 GGTTTCGAGTTTCGAGTTTCAAATTTCA
1 GGTTTCGAGTTTCGAGTTTCAAATTTCA
*
178783 GGTTTTGAGTTTCGAGTTTCAAATTT
1 GGTTTCGAGTTTCGAGTTTCAAATTT
178809 TGTGTTAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.20, C:0.11, G:0.22, T:0.46
Consensus pattern (28 bp):
GGTTTCGAGTTTCGAGTTTCAAATTTCA
Found at i:178857 original size:35 final size:33
Alignment explanation
Indices: 178778--178892 Score: 86
Period size: 35 Copynumber: 3.3 Consensus size: 33
178768 GAGTTTCAAA
* *
178778 TTTCAGGTTTTGAGTTTCGAGTTTCAAATTTTGTG
1 TTTCAGG-TTTGAGTTTTGAGTTTTAAATTTTG-G
***
178813 TTAGGGGTTTGCAGTTTTGAGTTTTAAATTTTAGG
1 TTTCAGGTTTG-AGTTTTGAGTTTTAAATTTT-GG
* * **
178848 TTTCAGGTTTTAGGTTTTTACCTTTAAATTTTGGG
1 TTTCAGGTTTGA-GTTTTGAGTTTTAAATTTT-GG
*
178883 TTTCAAGTTT
1 TTTCAGGTTT
178893 TGGTTTTCTG
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
34 5 0.08
35 57 0.90
36 1 0.02
ACGTcount: A:0.18, C:0.07, G:0.23, T:0.52
Consensus pattern (33 bp):
TTTCAGGTTTGAGTTTTGAGTTTTAAATTTTGG
Found at i:178864 original size:28 final size:27
Alignment explanation
Indices: 178825--178983 Score: 72
Period size: 28 Copynumber: 5.5 Consensus size: 27
178815 AGGGGTTTGC
178825 AGTTTT-GAGTTTTAAATTTTAGGTTTCA
1 AGTTTTAG-GTTTTAAATTTT-GGTTTCA
*
178853 GGTTTTAGGTTTTTACCTTTAAATTTTGGGTTTCA
1 AGTTTTAGG-TTTTA------AATTTT-GGTTTCA
*** *
178888 AGTTTT-GGTTTTCTGGTTTTAGGATTCA
1 AGTTTTAGGTTTT-AAATTTT-GGTTTCA
* * **
178916 AATTTTGGGTTTTAAGGTTTGAGTTTC-
1 AGTTTTAGGTTTTAAATTTTG-GTTTCA
*
178943 AGTTTTAGGTTTCAAATTTTGAGTTTCA
1 AGTTTTAGGTTTTAAATTTTG-GTTTCA
*
178971 GGTTTTAGGTTTT
1 AGTTTTAGGTTTT
178984 GGGCTTTAAA
Statistics
Matches: 99, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
27 23 0.23
28 40 0.40
29 12 0.12
33 4 0.04
34 2 0.02
35 18 0.18
ACGTcount: A:0.19, C:0.06, G:0.22, T:0.53
Consensus pattern (27 bp):
AGTTTTAGGTTTTAAATTTTGGTTTCA
Found at i:178865 original size:7 final size:7
Alignment explanation
Indices: 178841--179038 Score: 57
Period size: 7 Copynumber: 28.4 Consensus size: 7
178831 GAGTTTTAAA
178841 TTTTAGG
1 TTTTAGG
*
178848 TTTCAGG
1 TTTTAGG
178855 TTTTAGG
1 TTTTAGG
*
178862 TTTTTA-C
1 -TTTTAGG
* **
178869 CTTTAAA
1 TTTTAGG
*
178876 TTTTGGG
1 TTTTAGG
* *
178883 TTTCAAG
1 TTTTAGG
178890 TTTT-GG
1 TTTTAGG
*
178896 TTTTCTGG
1 TTTT-AGG
178904 TTTTAGG
1 TTTTAGG
* * **
178911 ATTCAAA
1 TTTTAGG
*
178918 TTTTGGG
1 TTTTAGG
178925 TTTTAAGG
1 TTTT-AGG
*
178933 TTTGA-G
1 TTTTAGG
*
178939 TTTCA-G
1 TTTTAGG
178945 TTTTAGG
1 TTTTAGG
* **
178952 TTTCAAA
1 TTTTAGG
178959 TTTT-GAG
1 TTTTAG-G
*
178966 TTTCAGG
1 TTTTAGG
178973 TTTTAGG
1 TTTTAGG
*
178980 TTTTGGG
1 TTTTAGG
* **
178987 CTTTAAA
1 TTTTAGG
*
178994 TTTTGGG
1 TTTTAGG
*
179001 TTTAAGG
1 TTTTAGG
179008 TTTT-GG
1 TTTTAGG
*
179014 GTTTAGGG
1 TTTTA-GG
*
179022 TTTTGGG
1 TTTTAGG
179029 TTTTAGG
1 TTTTAGG
179036 TTT
1 TTT
179039 CAAATTTCTA
Statistics
Matches: 129, Mismatches: 52, Indels: 20
0.64 0.26 0.10
Matches are distributed among these distances:
6 24 0.19
7 83 0.64
8 22 0.17
ACGTcount: A:0.16, C:0.05, G:0.26, T:0.53
Consensus pattern (7 bp):
TTTTAGG
Found at i:178893 original size:14 final size:14
Alignment explanation
Indices: 178876--178982 Score: 81
Period size: 14 Copynumber: 7.7 Consensus size: 14
178866 TACCTTTAAA
178876 TTTTGGGTTTCAAG
1 TTTTGGGTTTCAAG
* **
178890 TTTTGGTTTTCTGG
1 TTTTGGGTTTCAAG
* * *
178904 TTTTAGGATTCAAA
1 TTTTGGGTTTCAAG
*
178918 TTTTGGGTTTTAAG
1 TTTTGGGTTTCAAG
* *
178932 GTTTGAGTTTC-AG
1 TTTTGGGTTTCAAG
* *
178945 TTTTAGGTTTCAAA
1 TTTTGGGTTTCAAG
* *
178959 TTTTGAGTTTCAGG
1 TTTTGGGTTTCAAG
*
178973 TTTTAGGTTT
1 TTTTGGGTTT
178983 TGGGCTTTAA
Statistics
Matches: 66, Mismatches: 26, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
13 10 0.15
14 56 0.85
ACGTcount: A:0.17, C:0.06, G:0.24, T:0.53
Consensus pattern (14 bp):
TTTTGGGTTTCAAG
Done.