Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 91
Found at i:2477725 original size:12 final size:12
Alignment explanation
Indices: 2477708--2477741 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2477698 GATAGAGTAC
2477708 AATTGAAATAGT
1 AATTGAAATAGT
2477720 AATTGAAATAGT
1 AATTGAAATAGT
*
2477732 AATCGAAATA
1 AATTGAAATA
2477742 TATATACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.29
Consensus pattern (12 bp):
AATTGAAATAGT
Found at i:2478610 original size:14 final size:14
Alignment explanation
Indices: 2478588--2478638 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
2478578 TCAATAATAT
*
2478588 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
2478602 GTTCATTTA---T-
1 GTTCATTTATGTTC
2478612 GTTCATTTATGTTC
1 GTTCATTTATGTTC
*
2478626 GTTCGTTTATGTT
1 GTTCATTTATGTT
2478639 TGTTTATGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 9 0.29
11 1 0.03
13 1 0.03
14 20 0.65
ACGTcount: A:0.12, C:0.12, G:0.18, T:0.59
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:2478663 original size:24 final size:24
Alignment explanation
Indices: 2478585--2478662 Score: 111
Period size: 24 Copynumber: 3.2 Consensus size: 24
2478575 CGTTCAATAA
2478585 TATGTTCGTTTATGTTCGTTCATT
1 TATGTTCGTTTATGTTCGTTCATT
* *
2478609 TATGTTCATTTATGTTCGTTCGTT
1 TATGTTCGTTTATGTTCGTTCATT
* * *
2478633 TATGTTTGTTTATGTGCGCTCATT
1 TATGTTCGTTTATGTTCGTTCATT
2478657 TATGTT
1 TATGTT
2478663 TAGCCCAATC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.13, C:0.12, G:0.18, T:0.58
Consensus pattern (24 bp):
TATGTTCGTTTATGTTCGTTCATT
Found at i:2478906 original size:24 final size:24
Alignment explanation
Indices: 2478832--2478907 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
2478822 TTTATGTTTG
*
2478832 TTTATGTTCGTTTA-TTGTGTTCA
1 TTTATGTTCATTTATTTGTGTTCA
** *** *
2478855 TTTATGTTCATTTACATCCATTTA
1 TTTATGTTCATTTATTTGTGTTCA
* *
2478879 TTTATGTTCCTTTATTTGTGTTCG
1 TTTATGTTCATTTATTTGTGTTCA
2478903 TTTAT
1 TTTAT
2478908 CATTTAAATA
Statistics
Matches: 38, Mismatches: 14, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
23 13 0.34
24 25 0.66
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.61
Consensus pattern (24 bp):
TTTATGTTCATTTATTTGTGTTCA
Found at i:2479929 original size:20 final size:21
Alignment explanation
Indices: 2479888--2479929 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2479878 TGTCGAGATT
*
2479888 TCATCCCCAAACGGCTATAAA
1 TCATCCCCAAACGGCTAGAAA
*
2479909 TCATCCCC-AATGGCTAGAAA
1 TCATCCCCAAACGGCTAGAAA
2479929 T
1 T
2479930 AGCCACAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.36, C:0.31, G:0.12, T:0.21
Consensus pattern (21 bp):
TCATCCCCAAACGGCTAGAAA
Found at i:2485365 original size:16 final size:14
Alignment explanation
Indices: 2485329--2485363 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2485319 TTTAGAAGAT
*
2485329 AAAACATTTATAAA
1 AAAATATTTATAAA
2485343 AAAATATTTATAAA
1 AAAATATTTATAAA
2485357 AAAATAT
1 AAAATAT
2485364 ATCAATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATATTTATAAA
Found at i:2497707 original size:21 final size:21
Alignment explanation
Indices: 2497683--2497743 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
2497673 AACTTTGAAA
2497683 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
2497704 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
2497718 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
2497739 AAATG
1 AAATG
2497744 TTTCTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:2497774 original size:37 final size:36
Alignment explanation
Indices: 2497675--2497792 Score: 166
Period size: 35 Copynumber: 3.2 Consensus size: 36
2497665 TGGCAACCAA
2497675 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTT-AAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
2497712 CTTT-GAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
2497747 CTTTAAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTAAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
* *
2497784 GTTGAAAAA
1 CTTTAAAAA
2497793 TTGTAATGGA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
35 34 0.47
36 5 0.07
37 34 0.47
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (36 bp):
CTTTAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:2502356 original size:2 final size:2
Alignment explanation
Indices: 2502351--2502436 Score: 50
Period size: 2 Copynumber: 48.5 Consensus size: 2
2502341 TTATATTAAT
* *
2502351 TA TA TA TA TA TA TA TA TA TA TA T- TA T- TT TT TA TA T- TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
2502389 T- TA TA TA TA TA -A TA T- TT TA TA TT TT TA TA T- TA -A T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2502425 TA TA TA TA -A TA T
1 TA TA TA TA TA TA T
2502437 TTTATATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
1 11 0.16
2 58 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (2 bp):
TA
Found at i:2502360 original size:33 final size:33
Alignment explanation
Indices: 2502318--2502479 Score: 215
Period size: 33 Copynumber: 4.8 Consensus size: 33
2502308 GCCCCGATTA
2502318 TATATATATAATATTTTTATTTTTTATATTAATT
1 TATATATATAATATTTTTATTTTTTATATTAA-T
2502352 ATATATATATATATATATATATTATTTTTTATATTAAT
1 -TATATATATA-ATAT-T-T-TTATTTTTTATATTAAT
2502390 TATATATATAATA-TTTTATATTTTTATATTAAT
1 TATATATATAATATTTTTAT-TTTTTATATTAAT
2502423 TATATATATAATA-TTTTATATTTTTATATTAA-
1 TATATATATAATATTTTTAT-TTTTTATATTAAT
2502455 T-TATATATAATATTTTATATTTTTT
1 TATATATATAATATTTT-TATTTTTT
2502480 CCTTTTTTTC
Statistics
Matches: 120, Mismatches: 0, Indels: 17
0.88 0.00 0.12
Matches are distributed among these distances:
31 11 0.09
32 13 0.11
33 49 0.41
34 1 0.01
35 10 0.08
36 7 0.06
37 11 0.09
38 2 0.02
39 16 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (33 bp):
TATATATATAATATTTTTATTTTTTATATTAAT
Found at i:2502410 original size:64 final size:64
Alignment explanation
Indices: 2502339--2502475 Score: 192
Period size: 64 Copynumber: 2.1 Consensus size: 64
2502329 TATTTTTATT
2502339 TTTTATATTAATTATA-T-A-TATATATATATATATATTAT-TTTTTATATTAATTATATATATA
1 TTTTATATT-ATTATATTAATTATATATATA-ATATATTATATTTTTATATTAA-T-TATATATA
2502400 ATA
62 ATA
* *
2502403 TTTTATATTTTTATATTAATTATATATATAATATTTTATATTTTTATATTAATTATATATAATA
1 TTTTATATTATTATATTAATTATATATATAATATATTATATTTTTATATTAATTATATATAATA
2502467 TTTTATATT
1 TTTTATATT
2502476 TTTTCCTTTT
Statistics
Matches: 67, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
63 5 0.07
64 30 0.45
65 10 0.15
66 22 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (64 bp):
TTTTATATTATTATATTAATTATATATATAATATATTATATTTTTATATTAATTATATATAATA
Found at i:2502486 original size:72 final size:71
Alignment explanation
Indices: 2502320--2502479 Score: 210
Period size: 72 Copynumber: 2.3 Consensus size: 71
2502310 CCCGATTATA
* *
2502320 TATATATAATATTTT-TATTTTTTATATTAATTATATATATATATATATATATATTATTTTTTAT
1 TATATATAATATTTTATATTTTTTTTTTTAATTATATATATATATATATATATATTATTTTTTAT
2502384 ATTAATT
66 ATTAA-T
* *
2502391 ATATATATAATATTTTATA-TTTTTATATTAATTATATATATA-ATAT-T-T-TA-TA-TTTTTA
1 -TATATATAATATTTTATATTTTTTTTTTTAATTATATATATATATATATATATATTATTTTTTA
2502449 TATTAAT
65 TATTAAT
2502456 TATATATAATATTTTATATTTTTT
1 TATATATAATATTTTATATTTTTT
2502480 CCTTTTTTTC
Statistics
Matches: 86, Mismatches: 0, Indels: 11
0.89 0.00 0.11
Matches are distributed among these distances:
64 18 0.21
65 6 0.07
66 12 0.14
67 2 0.02
68 2 0.02
69 1 0.01
70 1 0.01
71 4 0.05
72 38 0.44
73 2 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (71 bp):
TATATATAATATTTTATATTTTTTTTTTTAATTATATATATATATATATATATATTATTTTTTAT
ATTAAT
Found at i:2508043 original size:21 final size:20
Alignment explanation
Indices: 2507957--2508114 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
2507947 AAATGACCAA
**
2507957 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
2507976 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
2507996 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
2508016 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
2508037 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
2508058 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
2508078 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
2508099 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
2508115 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:2508143 original size:20 final size:20
Alignment explanation
Indices: 2508082--2508311 Score: 241
Period size: 20 Copynumber: 11.5 Consensus size: 20
2508072 GATTTTCCAG
* ** *
2508082 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2508102 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2508122 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2508142 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2508162 AATAGAAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2508182 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2508202 TATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2508222 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2508242 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2508262 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2508282 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2508302 AATCGCAACG
1 AATCGCAACG
2508312 AGAATCTATA
Statistics
Matches: 179, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 175 0.98
21 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2509062 original size:24 final size:24
Alignment explanation
Indices: 2509023--2509069 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2509013 AAATTTGGTC
2509023 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
2509047 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
2509070 GATGTTTCAG
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:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:2509261 original size:12 final size:12
Alignment explanation
Indices: 2509244--2509268 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2509234 ATATAATCCT
2509244 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2509256 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2509268 G
1 G
2509269 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2511656 original size:72 final size:72
Alignment explanation
Indices: 2511563--2511772 Score: 284
Period size: 72 Copynumber: 2.9 Consensus size: 72
2511553 GCAACGAGAG
*
2511563 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
2511628 AAATGAA
66 AAATGAA
*
2511635 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
2511699 GAAATGAA
65 GAAATGAA
* * * * * *
2511707 AATCGCAACGAGAGAATCG-CAATGCGGAA-ATGAAAATCGCAATGC-GAAATGAAAATTGCATT
1 AATCGCAATGCGA-AAT-GAAAAT-CGCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAAT
2511769 GCGA
63 GCGA
2511773 TTCTCTCGTT
Statistics
Matches: 124, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
72 99 0.80
73 20 0.16
74 5 0.04
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.15
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCGCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:2511684 original size:53 final size:52
Alignment explanation
Indices: 2511549--2511762 Score: 303
Period size: 53 Copynumber: 4.1 Consensus size: 52
2511539 CGGAAATTAC
*
2511549 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
2511596 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
2511654 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
2511707 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
2511760 AAT
1 AAT
2511763 TGCATTGCGA
Statistics
Matches: 152, Mismatches: 3, Indels: 18
0.88 0.02 0.10
Matches are distributed among these distances:
47 8 0.05
49 1 0.01
50 1 0.01
52 14 0.09
53 112 0.74
55 2 0.01
56 1 0.01
58 13 0.09
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:2511806 original size:53 final size:53
Alignment explanation
Indices: 2511743--2511858 Score: 146
Period size: 53 Copynumber: 2.2 Consensus size: 53
2511733 GAAATGAAAA
*
2511743 TCGCAATGCGAAATGAAAATT-GCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *** * *
2511795 TCCGCATTGCG-ATTTTCATTTCGCATTGTGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
2511848 TCGCATTGCGA
1 TCGCATTGCGA
2511859 TTTTCATTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
52 15 0.28
53 39 0.72
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (53 bp):
TCGCATTGCGAAATGAAAATTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:2511873 original size:53 final size:53
Alignment explanation
Indices: 2511764--2511879 Score: 207
Period size: 53 Copynumber: 2.2 Consensus size: 53
2511754 AATGAAAATT
2511764 GCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTC
1 GCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTC
*
2511817 GCATTGTGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCC
1 GCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTT-C
2511870 GCATTGCGAT
1 GCATTGCGAT
2511880 AGTCATTTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 19 0.32
53 41 0.68
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (53 bp):
GCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTC
Found at i:2511887 original size:20 final size:19
Alignment explanation
Indices: 2511781--2511879 Score: 127
Period size: 20 Copynumber: 5.4 Consensus size: 19
2511771 GATTCTCTCG
2511781 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
2511801 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
2511820 TTGTGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
2511834 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2511853 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
2511873 TTGCGAT
1 TTGCGAT
2511880 AGTCATTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
14 5 0.07
16 7 0.10
17 7 0.10
19 24 0.35
20 26 0.38
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2512005 original size:14 final size:14
Alignment explanation
Indices: 2511986--2512022 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2511976 CATCAATTAC
2511986 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2512000 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2512014 ACAAATCAA
1 ACAAATCAA
2512023 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2513988 original size:19 final size:19
Alignment explanation
Indices: 2513946--2514118 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
2513936 TAGTTTACTT
* *
2513946 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
2513966 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
2513985 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
2514004 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
2514023 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
2514042 TTGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2514056 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2514075 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
2514089 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2514108 TCGCAATGCGA
1 TCGCAACGCGA
2514119 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
15 1 0.01
16 7 0.06
17 7 0.06
18 1 0.01
19 81 0.64
20 12 0.10
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2514067 original size:33 final size:33
Alignment explanation
Indices: 2514021--2514113 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
2514011 GCGAAACCAA
*
2514021 AATCGCAACGCGAAATGAAAATTGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
2514054 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
2514087 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2514114 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:2514149 original size:14 final size:14
Alignment explanation
Indices: 2514130--2514188 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
2514120 TTTGGTTTCG
2514130 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
2514144 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
2514161 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
2514177 CGTTGCGATTTT
1 CGTTGCGATTTT
2514189 CATTTCACGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2514156 original size:33 final size:33
Alignment explanation
Indices: 2514114--2514237 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
2514104 AAAATCGCAA
*
2514114 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
2514147 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** * *
2514180 TGCGATTTTCATTTCACGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
2514213 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
2514238 AAGTAAACTA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
33 70 0.86
34 11 0.14
ACGTcount: A:0.10, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:2514168 original size:19 final size:19
Alignment explanation
Indices: 2514114--2514172 Score: 83
Period size: 19 Copynumber: 3.4 Consensus size: 19
2514104 AAAATCGCAA
2514114 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2514133 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2514147 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2514166 TGCGATT
1 TGCGATT
2514173 CTGTCGTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.34
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 19 0.54
ACGTcount: A:0.07, C:0.15, G:0.31, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2514215 original size:14 final size:14
Alignment explanation
Indices: 2514163--2514219 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2514153 TTTGGTTTCG
*
2514163 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
2514177 CGTTGCGATTTTCATTTCA
1 CGTTGCGA--TTC---TCT
2514196 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2514210 CGTTGCGATT
1 CGTTGCGATT
2514220 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2516179 original size:20 final size:20
Alignment explanation
Indices: 2516148--2516211 Score: 92
Period size: 20 Copynumber: 3.1 Consensus size: 20
2516138 TTTTGGTTGA
2516148 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
2516168 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
2516188 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
2516209 AAT
1 AAT
2516212 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:2516200 original size:21 final size:21
Alignment explanation
Indices: 2516146--2516210 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
2516136 TCTTTTGGTT
2516146 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
2516167 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
2516187 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
2516208 GAA
1 GAA
2516211 TCGCAACGCG
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:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:2516214 original size:14 final size:14
Alignment explanation
Indices: 2516192--2516256 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
2516182 CGAGAGAAAT
2516192 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
2516206 GAGAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
2516224 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
* *
2516239 GATAATCGCAACGC
1 GAAAATCGCAACGA
2516253 GAAA
1 GAAA
2516257 TGAAAATCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 25 0.61
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.24
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:2516227 original size:33 final size:33
Alignment explanation
Indices: 2516146--2516268 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
2516136 TCTTTTGGTT
*
2516146 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
2516187 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
2516220 GAAATGAAAATCGCAACGAGATAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2516253 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2516269 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
33 49 0.61
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.28
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2516304 original size:14 final size:14
Alignment explanation
Indices: 2516285--2516341 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2516275 TTTGGTTTCG
2516285 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2516299 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
2516316 CGCATTGCGATTCTCT
1 CG--TTGCGATTCTCT
2516332 CGTTGCGATT
1 CGTTGCGATT
2516342 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2516317 original size:33 final size:33
Alignment explanation
Indices: 2516269--2516348 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
2516259 AAAATCGCAA
** *
2516269 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
2516302 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
2516335 TGCGATTTTCATTT
1 TGCGATTTTCATTT
2516349 TTCTCGTTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:2516354 original size:21 final size:21
Alignment explanation
Indices: 2516329--2516402 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
2516319 ATTGCGATTC
2516329 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
2516350 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
2516371 TCACGTTGCGATTTTCATTTC
1 TCTCGTTGCGATTTTCATTTT
2516392 TCTCGTTGCGA
1 TCTCGTTGCGA
2516403 CTATTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:2516524 original size:33 final size:33
Alignment explanation
Indices: 2516482--2516552 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2516472 AATACTAACT
2516482 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
2516515 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
2516548 TGAAA
1 TGAAA
2516553 TCTAAGTGAA
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:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:2516957 original size:20 final size:20
Alignment explanation
Indices: 2516932--2517124 Score: 246
Period size: 20 Copynumber: 9.6 Consensus size: 20
2516922 CTTTAAAAAT
2516932 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2516952 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
2516972 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
2516993 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
2517013 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
2517033 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2517053 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2517073 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2517093 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2517113 CGCGTTGCGATT
1 CGCGTTGCGATT
2517125 CTGGAAAATC
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
20 134 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2517537 original size:12 final size:12
Alignment explanation
Indices: 2517491--2517539 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
2517481 AAAAATGATT
2517491 ATAATAT-ATAA
1 ATAATATAATAA
*
2517502 ATTAATA-AATTA
1 A-TAATATAATAA
2517514 ATAATAATAATAA
1 ATAAT-ATAATAA
2517527 ATAATATAATAA
1 ATAATATAATAA
2517539 A
1 A
2517540 ATGTTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 5 0.16
12 18 0.56
13 9 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATATAATAA
Found at i:2518004 original size:28 final size:29
Alignment explanation
Indices: 2517944--2518004 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 29
2517934 GGTCTTTGTG
2517944 TTTCAAGAGAAACATTTTCAAAAGTTTTT
1 TTTCAAGAGAAACATTTTCAAAAGTTTTT
2517973 TTTCAAGAGAAACGA-TTTC-AAAGTTTTT
1 TTTCAAGAGAAAC-ATTTTCAAAAGTTTTT
2518001 TTTC
1 TTTC
2518005 GTGTTTCAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 13 0.42
29 17 0.55
30 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (29 bp):
TTTCAAGAGAAACATTTTCAAAAGTTTTT
Found at i:2518012 original size:35 final size:33
Alignment explanation
Indices: 2517938--2518053 Score: 134
Period size: 35 Copynumber: 3.6 Consensus size: 33
2517928 CTCGAAGGTC
*
2517938 TTTGTGTTTCAAGAGAAAC-ATTTTCAAAAG--T
1 TTTGTGTTTCAAGAGAAACGA-TTTCAAAGGTTT
*
2517969 TTT-T-TTTCAAGAGAAACGATTTCAAAGTTTTT
1 TTTGTGTTTCAAGAGAAACGATTTCAAAG-GTTT
* *
2518001 TTTCGTGTTTCAAGAGAGACGATTTCCAAGGTTT
1 TTT-GTGTTTCAAGAGAAACGATTTCAAAGGTTT
2518035 TTTGTGTTTCAAGAGAAAC
1 TTTGTGTTTCAAGAGAAAC
2518054 TGTCTTTAGG
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
29 20 0.28
30 2 0.03
31 3 0.04
32 4 0.06
33 15 0.21
34 7 0.10
35 21 0.29
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (33 bp):
TTTGTGTTTCAAGAGAAACGATTTCAAAGGTTT
Found at i:2518157 original size:37 final size:37
Alignment explanation
Indices: 2518106--2518192 Score: 133
Period size: 37 Copynumber: 2.4 Consensus size: 37
2518096 CAAAGGTTGG
*
2518106 TGTTTC-AAGAGAAACTGTCTCAATAGAGACAAAACTT
1 TGTTTCAAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
2518143 TGTTTCAAAG-GAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAAGAGAAACTGTCTCAAGAGAGACAAAATT
2518179 TGTTTCAAGAGAGA
1 TGTTTCAA-AGAGA
2518193 CAAAATTTGT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
36 10 0.22
37 31 0.67
38 5 0.11
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (37 bp):
TGTTTCAAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:2518186 original size:21 final size:21
Alignment explanation
Indices: 2518162--2518211 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
2518152 GGAAACTGTC
2518162 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
2518183 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
*
2518204 TTAAGAGA
1 TCAAGAGA
2518212 AACTGTCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.28
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:2518214 original size:57 final size:58
Alignment explanation
Indices: 2518125--2518233 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 58
2518115 AGAAACTGTC
*
2518125 TCAATAGAGACAAAACTTTGTTTCAAAGGAAACTGTCTCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAACTTTGTTTCAAAGGAAACTGTCTCAAGAGAGACAAAATTTGTT
*
2518183 TCAAGAGAGACAAAA-TTTGTTT-TAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TCAAGAGAGACAAAACTTTGTTTCAAAG-GAAACTGTCTCAAGAGAGACAAAA
2518234 CTTAGTTCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
56 3 0.06
57 31 0.65
58 14 0.29
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.25
Consensus pattern (58 bp):
TCAAGAGAGACAAAACTTTGTTTCAAAGGAAACTGTCTCAAGAGAGACAAAATTTGTT
Found at i:2518223 original size:36 final size:36
Alignment explanation
Indices: 2518183--2518451 Score: 313
Period size: 36 Copynumber: 7.6 Consensus size: 36
2518173 AAAATTTGTT
*
2518183 TCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
* * * *
2518219 TCAAGAGAGACAAAACTTAGTTCCAAAAGACACTGTC
1 TCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTGTC
* ** *
2518256 TCAAGGGAGATGAAATTTGTTTCAAG-GAACACATAT-
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAA-AC-TGTC
* *
2518292 TC-A-A-AG----ATTTTGTTTCAAGGGAAACTGTC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
* * *
2518321 TCAAGAGAGACAAAATTTGTTTAAAGGGAAATTGTC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
2518357 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
2518393 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
2518429 TCAAGAGAGACAAAACTTTGTTT
1 TCAAGAGAGACAAAA-TTTGTTT
2518452 TGAGTAAAGT
Statistics
Matches: 198, Mismatches: 22, Indels: 25
0.81 0.09 0.10
Matches are distributed among these distances:
28 2 0.01
29 16 0.08
30 4 0.02
31 1 0.01
32 2 0.01
33 2 0.01
35 3 0.02
36 131 0.66
37 37 0.19
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (36 bp):
TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
Found at i:2518272 original size:94 final size:96
Alignment explanation
Indices: 2518106--2518450 Score: 347
Period size: 94 Copynumber: 3.4 Consensus size: 96
2518096 CAAAGGTTGG
*
2518106 TGTTTCAAGAGAAACTGTCTCAATAGAGACAAAACTTTGTTTCAAAGGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTG-TTCAAAGGAAACTGTCTCAAGAGAG
2518171 ACAAAATTTGTTTCAAGAGAGA-CAAA-A-TT
65 ACAAAATTTGTTTCAAGAGAGATCAAAGATTT
* * * * *
2518200 TGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGACACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTT-CAAAGGAAACTGTCTCAAGAGAG
** * *
2518265 ATGAAATTTGTTTCAAGGAACACATATTCAAAGATTT
65 ACAAAATTTGTTTCAA-G---AGAGA-TCAAAGATTT
* * *
2518302 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTAAAGGGAAATTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTCAAA-GGAAACTGTCTCAAGAGAG
* *
2518366 ACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
65 ACAAAATTTGTTTCAAGAG--A--G-ATC-A-A-AG----ATTT
2518410 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTT
2518451 TTGAGTAAAG
Statistics
Matches: 203, Mismatches: 25, Indels: 31
0.78 0.10 0.12
Matches are distributed among these distances:
93 2 0.01
94 70 0.34
95 1 0.00
97 1 0.00
98 3 0.01
99 1 0.00
100 8 0.04
101 37 0.18
102 35 0.17
103 1 0.00
104 2 0.01
108 36 0.18
109 6 0.03
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (96 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTCAAAGGAAACTGTCTCAAGAGAGA
CAAAATTTGTTTCAAGAGAGATCAAAGATTT
Found at i:2518381 original size:21 final size:21
Alignment explanation
Indices: 2518321--2518421 Score: 82
Period size: 21 Copynumber: 5.4 Consensus size: 21
2518311 GGAAACTGTC
2518321 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
* *
2518342 T-AA-AG-G--GAAA-TTGTC
1 TCAAGAGAGACAAAATTTGTT
2518357 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
* *
2518378 TC-A-AGAG---AAA-CTGTC
1 TCAAGAGAGACAAAATTTGTT
2518393 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
2518414 TCAAGAGA
1 TCAAGAGA
2518422 AACTGTCTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 24
0.65 0.09 0.26
Matches are distributed among these distances:
15 10 0.17
16 9 0.15
17 6 0.10
18 2 0.03
19 6 0.10
20 9 0.15
21 18 0.30
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.26
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:2518853 original size:124 final size:124
Alignment explanation
Indices: 2518705--2518937 Score: 362
Period size: 124 Copynumber: 1.9 Consensus size: 124
2518695 TAATTGGACG
* * * *
2518705 TCATTCGTTGTGAAGTTAAAATCCACA-CTGAAGATGAATGTTGCTGGTGGGTACGATTCCCTTC
1 TCATTCGTCGTGAAGTTAAAATCCA-AGCTGAAGATGAATGTTACTGGTGAGCACGATTCCCTTC
2518769 GTCGTGAAATTGAAACCGTGGATGGCCTC-TTCGTTGTGAAGTTGAGCATTAACTTAAATA
65 GTCGTGAAATTGAAACCGTGGATGGCC-CATTCGTTGTGAAGTTGAGCATTAACTTAAATA
* * *
2518829 TCATTCGTCGTGAAGTTGAAATCCAAGTTGAAGATTAATGTTACTGGTGAGCACGATTCCCTTCG
1 TCATTCGTCGTGAAGTTAAAATCCAAGCTGAAGATGAATGTTACTGGTGAGCACGATTCCCTTCG
*
2518894 TCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGA
66 TCGTGAAATTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGA
2518938 AACTAGGAAG
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
123 2 0.02
124 97 0.98
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (124 bp):
TCATTCGTCGTGAAGTTAAAATCCAAGCTGAAGATGAATGTTACTGGTGAGCACGATTCCCTTCG
TCGTGAAATTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCATTAACTTAAATA
Found at i:2527548 original size:100 final size:99
Alignment explanation
Indices: 2527375--2527634 Score: 348
Period size: 100 Copynumber: 2.6 Consensus size: 99
2527365 ATATTACATA
* * *
2527375 TATACAATAAAGCTTGAGCTATCCCTCTAAAGCAATTAGG-TAAACGCCCCAGCTTTATGGATAA
1 TATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATT-GGTTAAACGCCCCGGCTTTATGGATAA
2527439 GATTCAGCTAAGCCTGATAAAGGTGATTATAATATC
65 GATTCAGCT-AGCCTGATAAAGGTGATTATAATATC
* *
2527475 TATACAATAAAGCTTGAGTTTTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAT
1 TATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
*
2527540 ATTCAGCTAGCCTGATAAATGTGATTATAATATC
66 ATTCAGCTAGCCTGATAAAGGTGATTATAATATC
* * * * * *
2527574 TATACAATTATA--TT-AATATGTCCCTCTAGATCAATTGGTTAAACGCCCTGGATTTATGGAT
1 TATACAA-TAAAGCTTGAGT-TATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGAT
2527635 TCAGCTAGCC
Statistics
Matches: 145, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
97 2 0.01
98 41 0.28
99 34 0.23
100 68 0.47
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (99 bp):
TATACAATAAAGCTTGAGTTATCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAG
ATTCAGCTAGCCTGATAAAGGTGATTATAATATC
Found at i:2528631 original size:84 final size:83
Alignment explanation
Indices: 2528482--2529417 Score: 973
Period size: 84 Copynumber: 11.2 Consensus size: 83
2528472 AAACTATCGA
* *
2528482 CAGCATAACTCAAGGTTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
1 CAGCATAGCTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAG
*
2528547 CTTCAAGGCATATCATTTG
65 CTTCAAGGCACATCATTTG
* * * *
2528566 CAGTATAGCTCAAGGCTAGAAGGGGTATCTGCCACCAAAAGACCTTCGAGTTTGACTATGCTCAG
1 CAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACGCTCAG
* * *
2528631 CTCCAAGGCATATCATTTA
65 CTTCAAGGCACATCATTTG
*
2528650 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
1 CAGCATAGCTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAG
* * *
2528715 CTACAAGGCATATTATTTG
65 CTTCAAGGCACATCATTTG
* * *
2528734 CAGCATAGATCAAGGCTAGAAGGGTTATCTGCCACCAAAATACCTTCGAGTTTGACTACGCTCAG
1 CAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTACGCTCAG
2528799 C-TCAAAGGCACATCATTTG
65 CTTC-AAGGCACATCATTTG
* * * * * *
2528818 TAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGGCCTTCGAGTTCGACTACGCTCAG
1 CAGCATAGCTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAG
*
2528883 CTCCAAGGCACATCATTTG
65 CTTCAAGGCACATCATTTG
* * * * *
2528902 CAGCATAGCTCAAGGCTAGGAGGGTTATCTGCCACCCAAAAGACCTTCGAGTTTGATTAGGTTCA
1 CAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCA-CC-AAAGACCTTCGAGTTCGACTACGCTCA
*
2528967 GCTCCAAGGCACATCATTTG
64 GCTTCAAGGCACATCATTTG
* * *
2528987 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTTAG
1 CAGCATAGCTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAG
*
2529052 C-TCAACGGCATATCATTTG
65 CTTCAA-GGCACATCATTTG
* * * * * * * *
2529071 TAGCATAGCTTAAAG-TAAGAAGGGATATCTG---CCAAAGACCCTCGAGTTCAATTACACTCAG
1 CAGCATAGCTCAAGGCT-AGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAG
*
2529132 CTTCGAGGGCACATCATTTG
65 CTTC-AAGGCACATCATTTG
* ** * * *
2529152 CAGCATAACTCAAGAG-TA-AGAGGGTTATCTATCAACAAAGACCTTTGAGTTCGACTACGCTCT
1 CAGCATAGCTCAAG-GCTAGA-AGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCA
*
2529215 GC-TCAATGACACATCATTTG
64 GCTTCAA-GGCACATCATTTG
* * * * * * *
2529235 TAGCATAGCTTAAGGCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTAAGACTCAG
1 CAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACG-CTCAG
2529297 C-TCAAAGGCACATCATTTG
65 CTTC-AAGGCACATCATTTG
* * * * * * ** *
2529316 CAGCATAGCTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGGCCTTCGAGTTCGATTACATTCAA
1 CAGCATAGCTCAAGGCTAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTACGCTCAG
* *
2529381 C-TCATAGGCAAATCAAATTTA
65 CTTCA-AGGCACATC--ATTTG
2529402 CAGCATAGCTCAAGGC
1 CAGCATAGCTCAAGGC
2529418 AAAAAGGGCT
Statistics
Matches: 713, Mismatches: 109, Indels: 58
0.81 0.12 0.07
Matches are distributed among these distances:
80 46 0.06
81 80 0.11
82 7 0.01
83 48 0.07
84 411 0.58
85 102 0.14
86 19 0.03
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (83 bp):
CAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACGCTCAGC
TTCAAGGCACATCATTTG
Found at i:2528765 original size:168 final size:167
Alignment explanation
Indices: 2528482--2529417 Score: 1113
Period size: 168 Copynumber: 5.6 Consensus size: 167
2528472 AAACTATCGA
*
2528482 CAGCATAACTCAAGGTTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* *
2528547 CTTCAAGGCATATCATTTGCAGTATAGCTCAAGGCTAGAAGGGGTATCTGCCACCAAAAGACCTT
66 C-TCAAGGCATATCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTT
* * * * *
2528612 CGAGTTTGACTATGCTCAGCTCCAAGGCATATCATTTA
130 CGAGTTTGATTACGCTCAGCTCAAAGGCACATCATTTG
2528650 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* * *
2528715 CTACAAGGCATATTATTTGCAGCATAGATCAAGGCTAGAAGGGTTATCTGCCACCAAAATACCTT
66 CT-CAAGGCATATCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTT
*
2528780 CGAGTTTGACTACGCTCAGCTCAAAGGCACATCATTTG
130 CGAGTTTGATTACGCTCAGCTCAAAGGCACATCATTTG
* * * * * * *
2528818 TAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGGCCTTCGAGTTCGACTACGCTCAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* *
2528883 CTCCAAGGCACATCATTTGCAGCATAGCTCAAGGCTAGGAGGGTTATCTGCCACCCAAAAGACCT
66 CT-CAAGGCATATCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCA-CCAAAAGACCT
* * *
2528948 TCGAGTTTGATTAGGTTCAGCTCCAAGGCACATCATTTG
129 TCGAGTTTGATTACGCTCAGCTCAAAGGCACATCATTTG
* *
2528987 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTTAG
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* * * * *
2529052 CTCAACGGCATATCATTTGTAGCATAGCTTAAAG-TAAGAAGGGATATCTG---CC-AAAGACCC
66 CTCAA-GGCATATCATTTGCAGCATAGCTCAAGGCT-AGAAGGGTTATCTGCCACCAAAAGACCT
** * * *
2529112 TCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTTG
129 TCGAGTTTGATTACGCTCAGC-TCAAAGGCACATCATTTG
** *
2529152 CAGCATAACTCAAGAG-TA-AGAGGGTTATCTATCAA-CAAAGACCTTTGAGTTCGACTACGCTC
1 CAGCATAACTCAAG-GCTAGA-AGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTC
* * * * * * *
2529214 TGCTCAATGACACATCATTTGTAGCATAGCTTAAGGCGAGAAGGGCTATCTG---CC-AAAGACC
64 AGCTCAA-GGCATATCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACC
* * *
2529275 CTCGAGTTCGATTAAGACTCAGCTCAAAGGCACATCATTTG
128 TTCGAGTTTGATTACG-CTCAGCTCAAAGGCACATCATTTG
* * * * * * * ** *
2529316 CAGCATAGCTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGGCCTTCGAGTTCGATTACATTCAA
1 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
* *
2529381 CTCATAGGCAAATCAAATTTACAGCATAGCTCAAGGC
66 CTCA-AGGCATATC--ATTTGCAGCATAGCTCAAGGC
2529418 AAAAAGGGCT
Statistics
Matches: 670, Mismatches: 83, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
164 158 0.24
165 86 0.13
166 2 0.00
167 19 0.03
168 266 0.40
169 139 0.21
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (167 bp):
CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAG
CTCAAGGCATATCATTTGCAGCATAGCTCAAGGCTAGAAGGGTTATCTGCCACCAAAAGACCTTC
GAGTTTGATTACGCTCAGCTCAAAGGCACATCATTTG
Found at i:2529982 original size:2 final size:2
Alignment explanation
Indices: 2529977--2530024 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
2529967 TTTTTTTTTT
2529977 TA TA TA TA TA 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 TA TA TA TA TA
2530019 TA TA TA
1 TA TA TA
2530025 GTTTGCAATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2530278 original size:38 final size:37
Alignment explanation
Indices: 2530008--2530280 Score: 290
Period size: 38 Copynumber: 7.2 Consensus size: 37
2529998 ATATATATAT
** *
2530008 ATATATATATATATATAG-TTTGCAATCAGTTTTTGAAA
1 ATATATATA-ATATATAGTTTTTAAAACA-TTTTTGAAA
2530046 ATACGTATATAATATATAGTTTTTAAAAACA-TTTTGAAA
1 ATA--TATATAATATATAGTTTTT-AAAACATTTTTGAAA
* * *
2530085 ATGTATATAATATATTGTTTTTAAAACACTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
* *
2530122 A-CTATATAATATATAGTTTTTAAAATC-CTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAA-CATTTTTGAAA
2530158 ACTA-ATATAATATATAGTTTTTTAAAACATTTTTGAAA
1 A-TATATATAATATATAG-TTTTTAAAACATTTTTGAAA
*
2530196 ACT-TATATAATATATAGCTTTTGAAAACATTTTTGAAA
1 A-TATATATAATATATAG-TTTTTAAAACATTTTTGAAA
* *
2530234 ACTTATATATAATATATAATTTTTAAAACATTTTTCAAA
1 A--TATATATAATATATAGTTTTTAAAACATTTTTGAAA
2530273 AT-TATATA
1 ATATATATA
2530281 GTTTTAAAAA
Statistics
Matches: 207, Mismatches: 15, Indels: 28
0.83 0.06 0.11
Matches are distributed among these distances:
36 44 0.21
37 43 0.21
38 56 0.27
39 38 0.18
40 22 0.11
41 4 0.02
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
Found at i:2530306 original size:32 final size:32
Alignment explanation
Indices: 2530258--2530325 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
2530248 TATAATTTTT
*
2530258 AAAACATTTTTCAAAATTATAT-AGTTTTAAA
1 AAAACATTTTTAAAAATTATATGAGTTTTAAA
*
2530289 AAAAGCATTTTTAAAAATTATATGTGTTTTAAA
1 AAAA-CATTTTTAAAAATTATATGAGTTTTAAA
2530322 AAAA
1 AAAA
2530326 ACAATTTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 4 0.12
32 17 0.52
33 12 0.36
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (32 bp):
AAAACATTTTTAAAAATTATATGAGTTTTAAA
Found at i:2530345 original size:34 final size:33
Alignment explanation
Indices: 2530258--2530337 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 33
2530248 TATAATTTTT
** *
2530258 AAAACATTTTTCAAAATTATAT-AGTTTTAAAA
1 AAAACATTTTGAAAAATTATATGTGTTTTAAAA
* *
2530290 AAAGCATTTTTAAAAATTATATGTGTTTTAAAA
1 AAAACATTTTGAAAAATTATATGTGTTTTAAAA
2530323 AAAACAATTTTGAAA
1 AAAAC-ATTTTGAAA
2530338 TTTTATATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
32 20 0.49
33 13 0.32
34 8 0.20
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (33 bp):
AAAACATTTTGAAAAATTATATGTGTTTTAAAA
Found at i:2530371 original size:38 final size:36
Alignment explanation
Indices: 2530320--2530400 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 36
2530310 ATGTGTTTTA
* *
2530320 AAAAAAACAATTTTGAAATTTTATATATAATATATATTT
1 AAAAAAACAATTTTAAAAGTTTATAT-T-ATATA-ATTT
*
2530359 AAAAAAAC-ATTTTAAAAGTTTATATTATATAGTTT
1 AAAAAAACAATTTTAAAAGTTTATATTATATAATTT
2530394 AAAAAAA
1 AAAAAAA
2530401 ATACTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
35 10 0.26
36 5 0.13
37 1 0.03
38 15 0.38
39 8 0.21
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (36 bp):
AAAAAAACAATTTTAAAAGTTTATATTATATAATTT
Found at i:2531733 original size:12 final size:11
Alignment explanation
Indices: 2531718--2531746 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
2531708 ATTTTATTTC
2531718 TTTTTTCCTTA
1 TTTTTTCCTTA
2531729 TTTTTTCCTTA
1 TTTTTTCCTTA
2531740 TTTTTTC
1 TTTTTTC
2531747 TTTTTTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTCCTTA
Found at i:2531743 original size:20 final size:20
Alignment explanation
Indices: 2531705--2531743 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2531695 TTTACTTTAT
*
2531705 CTTATTTTATTTCTTTTTTC
1 CTTATTTTATTCCTTTTTTC
2531725 CTTATTTT-TTCCTTATTTT
1 CTTATTTTATTCCTT-TTTT
2531744 TTCTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTATTTTATTCCTTTTTTC
Found at i:2533092 original size:3 final size:3
Alignment explanation
Indices: 2533079--2533149 Score: 97
Period size: 3 Copynumber: 23.7 Consensus size: 3
2533069 TTTTTATCCA
* * * *
2533079 TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT TTT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2533127 TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
2533150 ATAAATATAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:2533164 original size:14 final size:14
Alignment explanation
Indices: 2533145--2533185 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
2533135 TTATTATTAT
2533145 TATTAATAAATATA
1 TATTAATAAATATA
2533159 TATTAAATAAATATA
1 TATT-AATAAATATA
*
2533174 TATAAATAAATA
1 TATTAATAAATA
2533186 ATTACAGACC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TATTAATAAATATA
Found at i:2533169 original size:15 final size:15
Alignment explanation
Indices: 2533145--2533185 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
2533135 TTATTATTAT
2533145 TATT-AATAAATATA
1 TATTAAATAAATATA
2533159 TATTAAATAAATATA
1 TATTAAATAAATATA
2533174 TA-TAAATAAATA
1 TATTAAATAAATA
2533186 ATTACAGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATTAAATAAATATA
Found at i:2533619 original size:19 final size:19
Alignment explanation
Indices: 2533593--2533634 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
2533583 ACCCCAACCT
2533593 GAAAAAAAAGAACG-GAGACA
1 GAAAAAAAA-AA-GAGAGACA
2533613 GAAAAAAAAAAGAGAGACA
1 GAAAAAAAAAAGAGAGACA
2533632 GAA
1 GAA
2533635 CCGGAGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.05
19 11 0.52
20 9 0.43
ACGTcount: A:0.69, C:0.07, G:0.24, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAAAGAGAGACA
Found at i:2547172 original size:82 final size:83
Alignment explanation
Indices: 2547067--2547616 Score: 891
Period size: 82 Copynumber: 6.7 Consensus size: 83
2547057 AATTAAATGA
*
2547067 AAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
2547131 AA-CAATCATTGAGTTTAG
65 AACCAATCATTGAGTTTAG
*
2547149 AAGATGAATTTGTCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
2547214 A-CAATCATTGAGTTTAG
66 ACCAATCATTGAGTTTAG
2547231 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
2547296 A-CAATCATTGAGTTTAG
66 ACCAATCATTGAGTTTAG
2547313 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
* **
2547378 ACCAATCATTGAATTCGG
66 ACCAATCATTGAGTTTAG
* *
2547396 AAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGG-CA
1 AAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACA
2547459 GAACCAATCATTGAGTTTAG
64 GAACCAATCATTGAGTTTAG
*
2547479 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG
1 AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
* **
2547543 AACCAATCATTGAATTCGG
65 AACCAATCATTGAGTTTAG
*
2547562 AAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
2547617 ATTCAGTAGG
Statistics
Matches: 443, Mismatches: 19, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
81 2 0.00
82 225 0.51
83 209 0.47
84 7 0.02
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (83 bp):
AAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACCAATCATTGAGTTTAG
Found at i:2547525 original size:166 final size:165
Alignment explanation
Indices: 2547067--2547616 Score: 973
Period size: 166 Copynumber: 3.3 Consensus size: 165
2547057 AATTAAATGA
2547067 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
*
2547132 ACAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAATGTTCTTTGAGTTATC
66 ACAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
* **
2547197 TGATCTGGTTGGACAGAA-CAATCATTGAGTTTAG
131 TGATCTGGTTGGACAGAACCAATCATTGAATTCGG
*
2547231 AAGATGAATTTG-TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 AAGATGAATGTGTTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
2547295 AACAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
65 AACAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
2547360 CTGATCTGGTTGGACAGAACCAATCATTGAATTCGG
130 CTGATCTGGTTGGACAGAACCAATCATTGAATTCGG
*
2547396 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGGTTTGG-CAG
1 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
*
2547460 AACCAATCATTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
65 AA-CAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
2547525 TCTGATCTGGTTTGG-CAGAACCAATCATTGAATTCGG
129 TCTGATCTGG-TTGGACAGAACCAATCATTGAATTCGG
2547562 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
2547617 ATTCAGTAGG
Statistics
Matches: 371, Mismatches: 9, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
163 2 0.01
164 143 0.39
165 69 0.19
166 153 0.41
167 4 0.01
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (165 bp):
AAGATGAATGTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACAATCATTGAGTTTAGAAGATGAATTTGTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
TGATCTGGTTGGACAGAACCAATCATTGAATTCGG
Found at i:2548560 original size:113 final size:112
Alignment explanation
Indices: 2548376--2549017 Score: 495
Period size: 113 Copynumber: 5.8 Consensus size: 112
2548366 TGTATTGACA
*
2548376 TTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
2548441 AGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATT
66 AGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATCATT
2548488 TTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
1 TTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
* * * * *
2548553 AAGAATTTGCTCAACCTTTT-ACTTGAATCCATCATTTGATGGATCAGCT
65 AAGAATTTGTTCAACCTTTTGTC-TGAATTCATCACTTGATGGATCA-TT
* ***
2548602 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTAAAGAAGGAAGAATTTGTTCA-AACCTTT
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA----T
* * * *** * ** * * ** * *
2548666 TACATGAATCCATT--A-CTTGATG-GAGCA-TCATCCCCAG-CGGA-AAGTT
62 GAGAAGAATTTGTTCAACCTT-TTGTCTGAATTCATCACTTGATGGATCA-TT
** * **
2548712 CAT-AATGAGAAGAACTCAT-AT--GAA-AA---A---G-A-AA-GAAGAAGAAGTTCATAATGA
1 TTTCCA-GAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* ** * * **
2548763 GAAGAACTTGTTCAATTTTTTGGTTTGAATTCATCATTTGATGGATCAACA
64 GAAGAATTTGTTCAACCTTTT-GTCTGAATTCATCACTTGATGGATC-ATT
*
2548814 TTACCAG-GAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 TTTCCAGAGAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * *
2548878 GAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCACTGGATGGATTATT
62 GAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATCATT
* *
2548929 TCTTCCAGAGAAAGTTCATAATGAGAAGAACTCCTCATATGAAGAAGAAAGAAGAAGTTCATAAT
1 T-TTCCAGAGAAAGTTCATAATGAGAAGAA---CTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * *
2548994 AAGAATAACTTGTTCAACTTTTTG
62 GAGAAGAATTTGTTCAACCTTTTG
2549018 CATAATTCTA
Statistics
Matches: 404, Mismatches: 85, Indels: 78
0.71 0.15 0.14
Matches are distributed among these distances:
95 8 0.02
97 2 0.00
98 14 0.03
99 6 0.01
100 7 0.02
101 12 0.03
102 3 0.01
103 2 0.00
104 4 0.01
105 2 0.00
107 2 0.00
108 3 0.01
109 1 0.00
110 11 0.03
111 9 0.02
112 11 0.03
113 154 0.38
114 7 0.02
115 3 0.01
116 101 0.25
117 42 0.10
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (112 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATCATT
Found at i:2548675 original size:94 final size:94
Alignment explanation
Indices: 2548552--2548730 Score: 252
Period size: 94 Copynumber: 1.9 Consensus size: 94
2548542 TTCATAATGA
* * * * **
2548552 GAAGAATTTGCTCAACCTTTTACTTGAATCCATCATTTGATGGATCAGCTTTTCCAG-AGAAAGT
1 GAAGAATTTGCTCAACCTTTTACATGAATCCATCACTTGATGGAGCAGCATCCCCAGCAGAAAGT
2548616 TCATAATGAGAAGAACTCATCTAAAGAAG
66 TCATAATGAGAAGAACTCATCTAAAGAAG
* * * *
2548645 GAAGAATTTGTTCAAACCTTTTACATGAATCCATTACTTGATGGAGCATCATCCCCAGCGGAAAG
1 GAAGAATTTGCTC-AACCTTTTACATGAATCCATCACTTGATGGAGCAGCATCCCCAGCAGAAAG
2548710 TTCATAATGAGAAGAACTCAT
65 TTCATAATGAGAAGAACTCAT
2548731 ATGAAAAAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 12 0.16
94 36 0.49
95 26 0.35
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.29
Consensus pattern (94 bp):
GAAGAATTTGCTCAACCTTTTACATGAATCCATCACTTGATGGAGCAGCATCCCCAGCAGAAAGT
TCATAATGAGAAGAACTCATCTAAAGAAG
Found at i:2548972 original size:116 final size:116
Alignment explanation
Indices: 2548704--2549017 Score: 393
Period size: 116 Copynumber: 2.7 Consensus size: 116
2548694 CATCCCCAGC
** *
2548704 GGAAAGTTCATAATGAGAAGAACTCAT-ATGAAAAAGAAAGAAGAAGAAGTTCATAATGAGAAGA
1 GGAAAGTTCATAATGAGAAGAACTCATCAT-ATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
* * * * *
2548768 ACTTGTTCAATTTTTTGGTTTGAATTCATCATTTGATGGATCAACATTACCA
65 ACTTGTTCAACTTTTTGATCTGAATTCATCACTGGATGGATCAACATTACCA
* *
2548820 GGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 GGAA-AGTTCATAATGAGAAGAACTCATCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
* * * *
2548885 ATTTGTTCAACCTTTT-ATCTGAATTCATCACTGGATGGATTATTTC-TT-CCA
65 ACTTGTTCAACTTTTTGATCTGAATTCATCACTGGATGGATCA--ACATTACCA
* * * *
2548936 GAGAAAGTTCATAATGAGAAGAACTCCTCATATGAAGAAGAAAGAAGAAGTTCATAATAAGAATA
1 G-GAAAGTTCATAATGAGAAGAACTCATCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
2549001 ACTTGTTCAACTTTTTG
65 ACTTGTTCAACTTTTTG
2549018 CATAATTCTA
Statistics
Matches: 171, Mismatches: 21, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
116 98 0.57
117 70 0.41
118 3 0.02
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (116 bp):
GGAAAGTTCATAATGAGAAGAACTCATCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
CTTGTTCAACTTTTTGATCTGAATTCATCACTGGATGGATCAACATTACCA
Found at i:2549249 original size:3 final size:3
Alignment explanation
Indices: 2549241--2549323 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
2549231 TTTTTATCCA
2549241 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2549288 TAT T-T TAT T-T TAT TAT TAT TAT CAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2549324 ATAAAATATA
Statistics
Matches: 75, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
2 6 0.08
3 69 0.92
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2549346 original size:14 final size:14
Alignment explanation
Indices: 2549319--2549355 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
2549309 TCATTATTAT
2549319 TATT-AATAAAATA
1 TATTAAATAAAATA
*
2549332 TATTAAATAATATA
1 TATTAAATAAAATA
2549346 TA-TAAATAAA
1 TATTAAATAAA
2549356 TAATTACAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TATTAAATAAAATA
Found at i:2549791 original size:19 final size:19
Alignment explanation
Indices: 2549765--2549806 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
2549755 ACCCCAACCT
2549765 GAAAAAAAAGAACG-GAGACA
1 GAAAAAAAA-AA-GAGAGACA
2549785 GAAAAAAAAAAGAGAGACA
1 GAAAAAAAAAAGAGAGACA
2549804 GAA
1 GAA
2549807 CCGGAGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.05
19 11 0.52
20 9 0.43
ACGTcount: A:0.69, C:0.07, G:0.24, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAAAGAGAGACA
Found at i:2556954 original size:3 final size:3
Alignment explanation
Indices: 2556946--2556982 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2556936 TATCATTTTA
2556946 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2556983 AAAATTACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2558639 original size:31 final size:29
Alignment explanation
Indices: 2558524--2558654 Score: 154
Period size: 29 Copynumber: 4.4 Consensus size: 29
2558514 TTTATGATTC
*
2558524 AGTCCTTTAAGTTTCTATTTTTGCCATTTT
1 AGTCCTTTAAGTTTCT-TTTTTACCATTTT
* * * *
2558554 ATTCCTTTAAATTTCTGTTTTGCCATTTT
1 AGTCCTTTAAGTTTCTTTTTTACCATTTT
*
2558583 AGTCCTTTAAGTTTCTTTTTTACTATTTT
1 AGTCCTTTAAGTTTCTTTTTTACCATTTT
* *
2558612 AGTCCCTTAAGTTTCTATTATTTACTATTTT
1 AGTCCTTTAAGTTTCT-TT-TTTACCATTTT
*
2558643 AGTCCCTTAAGT
1 AGTCCTTTAAGT
2558655 GATTTTTTTG
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
29 51 0.57
30 16 0.18
31 23 0.26
ACGTcount: A:0.19, C:0.17, G:0.08, T:0.56
Consensus pattern (29 bp):
AGTCCTTTAAGTTTCTTTTTTACCATTTT
Found at i:2564685 original size:36 final size:36
Alignment explanation
Indices: 2564617--2564686 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
2564607 GTTTCCCTTG
*
2564617 AAACAAATTTTGTCTCACTATAGACAGTTTTCTTAA
1 AAACAAATTTTGTCTCACTATAGACAGATTTCTTAA
*
2564653 AAACAAAGTTTTGTCTCTCT-TCAGACA-ATTTCTT
1 AAACAAA-TTTTGTCTCACTAT-AGACAGATTTCTT
2564687 TTGAGAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 14 0.47
37 16 0.53
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.40
Consensus pattern (36 bp):
AAACAAATTTTGTCTCACTATAGACAGATTTCTTAA
Found at i:2564761 original size:67 final size:67
Alignment explanation
Indices: 2564653--2564848 Score: 306
Period size: 67 Copynumber: 2.9 Consensus size: 67
2564643 GTTTTCTTAA
*
2564653 AAACAAAGTTTTGTCTCTCTTCAGACAATTTCTTTTGAGAAAAAAATCTTTGAGTCTGTTTCTTT
1 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTTTTGAGAAAAAAATCTTTGAGTCTGTTTCTTT
2564718 GG
66 GG
2564720 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTTTTGAGAAAAAAAATCTTTGAGTCTGTTTCTT
1 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTTTTGAG-AAAAAAATCTTTGAGTCTGTTTCTT
2564785 TGG
65 TGG
* * * ** *
2564788 AAACAAAATTTTGTTTC-CTTGAGACAATTTATTTTGA-AGGAAAATCTTTGAGTTTGTTTCT
1 AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTTTTGAGAAAAAAATCTTTGAGTCTGTTTCT
2564849 CTTAAAACAA
Statistics
Matches: 121, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
65 21 0.17
67 57 0.47
68 43 0.36
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (67 bp):
AAACAAAGTTTTGTCTCTCTTGAGACAATTTCTTTTGAGAAAAAAATCTTTGAGTCTGTTTCTTT
GG
Found at i:2564868 original size:30 final size:29
Alignment explanation
Indices: 2564828--2564905 Score: 93
Period size: 30 Copynumber: 2.7 Consensus size: 29
2564818 ATTTTGAAGG
* *
2564828 AAAATCTTTGAGTTTGTTTCTCTTAAAAC
1 AAAATCTTTGAGTCTGTTTATCTTAAAAC
*
2564857 AAAAGTCTTTGAGTCTGTTTATCTTGAAAC
1 AAAA-TCTTTGAGTCTGTTTATCTTAAAAC
** *
2564887 ATCATCTTTGAGTCGGTTT
1 AAAATCTTTGAGTCTGTTT
2564906 CCCTTGGAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 18 0.43
30 24 0.57
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (29 bp):
AAAATCTTTGAGTCTGTTTATCTTAAAAC
Found at i:2565994 original size:13 final size:13
Alignment explanation
Indices: 2565976--2566009 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
2565966 GCAAGGGATA
2565976 AGAAAGAAGAAAC
1 AGAAAGAAGAAAC
2565989 AGAAAGAAGAAAC
1 AGAAAGAAGAAAC
2566002 AGAAAGAA
1 AGAAAGAA
2566010 AAGAGGAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.71, C:0.06, G:0.24, T:0.00
Consensus pattern (13 bp):
AGAAAGAAGAAAC
Found at i:2567103 original size:59 final size:61
Alignment explanation
Indices: 2567038--2567172 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 61
2567028 GTATTTATGA
* * * *
2567038 TTTAGTCCTTTAAGTTTCTGTTT-TTATTATTTTATTCCTTTAAATTTTTGTT-TTT-CCAT
1 TTTAGTCCTTTAAGTTTCT-TTTGTTATTATTTTAGTCCCTTAAATTTCTATTATTTACCAT
* *
2567097 TTTAGTCCTTTAAGTTTCTTTTGTTATTATTTTAGTCCCTTAAGTTTCTATTATTTACTAT
1 TTTAGTCCTTTAAGTTTCTTTTGTTATTATTTTAGTCCCTTAAATTTCTATTATTTACCAT
*
2567158 TTTAGTCCCTTAAGT
1 TTTAGTCCTTTAAGT
2567173 GATTTTTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
58 3 0.05
59 43 0.65
60 3 0.05
61 17 0.26
ACGTcount: A:0.19, C:0.13, G:0.08, T:0.60
Consensus pattern (61 bp):
TTTAGTCCTTTAAGTTTCTTTTGTTATTATTTTAGTCCCTTAAATTTCTATTATTTACCAT
Found at i:2567162 original size:31 final size:30
Alignment explanation
Indices: 2567038--2567172 Score: 157
Period size: 30 Copynumber: 4.5 Consensus size: 30
2567028 GTATTTATGA
*
2567038 TTTAGTCCTTTAAGTTTCTGTTTTTATTAT
1 TTTAGTCCTTTAAGTTTCTGTTTTTACTAT
* * * *
2567068 TTTATTCCTTTAAATTTTTGTTTTT-CCAT
1 TTTAGTCCTTTAAGTTTCTGTTTTTACTAT
*
2567097 TTTAGTCCTTTAAGTTTCT-TTTGTTATTAT
1 TTTAGTCCTTTAAGTTTCTGTTT-TTACTAT
* *
2567127 TTTAGTCCCTTAAGTTTCTATTATTTACTAT
1 TTTAGTCCTTTAAGTTTCTGTT-TTTACTAT
*
2567158 TTTAGTCCCTTAAGT
1 TTTAGTCCTTTAAGT
2567173 GATTTTTTTT
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
28 3 0.03
29 20 0.22
30 42 0.47
31 23 0.26
32 1 0.01
ACGTcount: A:0.19, C:0.13, G:0.08, T:0.60
Consensus pattern (30 bp):
TTTAGTCCTTTAAGTTTCTGTTTTTACTAT
Found at i:2567191 original size:30 final size:28
Alignment explanation
Indices: 2567038--2567192 Score: 125
Period size: 30 Copynumber: 5.2 Consensus size: 28
2567028 GTATTTATGA
*
2567038 TTTAGTCCTTTAAGTTTCTGTTTTTATTAT
1 TTTAGTCCCTTAAGTTTCT-TTTTT-TTAT
* * * *
2567068 TTTATTCCTTTAAATTT-TTGTTTTTCCAT
1 TTTAGTCCCTTAAGTTTCTT-TTTTT-TAT
*
2567097 TTTAGTCCTTTAAGTTTCTTTTGTTATTAT
1 TTTAGTCCCTTAAGTTTCTTTT-TT-TTAT
*
2567127 TTTAGTCCCTTAAGTTTCTATTATTTACTAT
1 TTTAGTCCCTTAAGTTTCT-TT-TTT-TTAT
2567158 TTTAGTCCCTTAAGTGATT-TTTTTTTGTAT
1 TTTAGTCCCTTAAGT--TTCTTTTTTT-TAT
2567188 TTTAG
1 TTTAG
2567193 CTTGGTTTGT
Statistics
Matches: 106, Mismatches: 9, Indels: 20
0.79 0.07 0.15
Matches are distributed among these distances:
28 2 0.02
29 24 0.23
30 50 0.47
31 26 0.25
32 2 0.02
33 2 0.02
ACGTcount: A:0.18, C:0.12, G:0.09, T:0.61
Consensus pattern (28 bp):
TTTAGTCCCTTAAGTTTCTTTTTTTTAT
Found at i:2570015 original size:25 final size:25
Alignment explanation
Indices: 2569977--2570042 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
2569967 GATTTTGAAA
* *
2569977 ATAT-GTTTTTAAAAGACATATATT
1 ATATAGTTTTGAAAACACATATATT
* *
2570001 TTATAGTTTTGAAAACATATATATT
1 ATATAGTTTTGAAAACACATATATT
*
2570026 ATATAATTTTGAAAACA
1 ATATAGTTTTGAAAACA
2570043 TTCTTTGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
24 3 0.09
25 32 0.91
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (25 bp):
ATATAGTTTTGAAAACACATATATT
Found at i:2570043 original size:25 final size:25
Alignment explanation
Indices: 2569994--2570043 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
2569984 TTTAAAAGAC
* *
2569994 ATATATTTTATAGTTTTGAAAACAT
1 ATATATTATATAATTTTGAAAACAT
2570019 ATATATTATATAATTTTGAAAACAT
1 ATATATTATATAATTTTGAAAACAT
2570044 TCTTTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (25 bp):
ATATATTATATAATTTTGAAAACAT
Found at i:2570050 original size:38 final size:38
Alignment explanation
Indices: 2570007--2570282 Score: 264
Period size: 37 Copynumber: 7.4 Consensus size: 38
2569997 TATTTTATAG
*
2570007 TTTTGAAAACATATATATTATATAATTTTGAAAACATT
1 TTTTGAAAACATATATAATATATAATTTTGAAAACATT
*
2570045 CTTTGAAAACATATATAATATATAATTTTGAAAACA-T
1 TTTTGAAAACATATATAATATATAATTTTGAAAACATT
* * * **
2570082 TTTTGAAAGCGTATATAATATATAGTTTTGAAAATGTTT
1 TTTTGAAAACATATATAATATATAATTTTGAAAA-CATT
* *
2570121 TTTTG-GAA-ATATATAATATATAATTTCGAAAACATT
1 TTTTGAAAACATATATAATATATAATTTTGAAAACATT
* * **
2570157 TTTTGAAAATATATATAATATATAGTTTTGAAAATGTTT
1 TTTTGAAAACATATATAATATATAATTTTGAAAA-CATT
* * ** **
2570196 TTTTGAAAA-A-GTATAATATGTGGTTTTG--AACACG
1 TTTTGAAAACATATATAATATATAATTTTGAAAACATT
* *
2570230 TTTTGAAAAC-T-TATAATATATAATTTTAAAAACATA
1 TTTTGAAAACATATATAATATATAATTTTGAAAACATT
* *
2570266 TTTTGAAAGCATGTATA
1 TTTTGAAAACATATATA
2570283 TGTGTTTTTA
Statistics
Matches: 193, Mismatches: 34, Indels: 22
0.78 0.14 0.09
Matches are distributed among these distances:
34 22 0.11
35 2 0.01
36 20 0.10
37 70 0.36
38 62 0.32
39 17 0.09
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (38 bp):
TTTTGAAAACATATATAATATATAATTTTGAAAACATT
Found at i:2570097 original size:75 final size:75
Alignment explanation
Indices: 2570007--2570214 Score: 251
Period size: 75 Copynumber: 2.8 Consensus size: 75
2569997 TATTTTATAG
* *
2570007 TTTTGAAAACATATATATTATATAATTTTGAAAA-CATTCTTTGAAAACATATATAATATATAAT
1 TTTTGAAAACATATATAATATATAGTTTTGAAAATCATTCTTTG-AAA-ATATATAATATATAAT
*
2570071 TTTGAAAACA-T
64 TTCGAAAACATT
* * ** * *
2570082 TTTTGAAAGCGTATATAATATATAGTTTTGAAAATGTTTTTTTGGAAATATATAATATATAATTT
1 TTTTGAAAACATATATAATATATAGTTTTGAAAATCATTCTTTGAAAATATATAATATATAATTT
2570147 CGAAAACATT
66 CGAAAACATT
* ** *
2570157 TTTTGAAAATATATATAATATATAGTTTTGAAAATGTTTTTTTGAAAA-AGTATAATAT
1 TTTTGAAAACATATATAATATATAGTTTTGAAAATCATTCTTTGAAAATA-TATAATAT
2570215 GTGGTTTTGA
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
74 26 0.22
75 85 0.73
76 6 0.05
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (75 bp):
TTTTGAAAACATATATAATATATAGTTTTGAAAATCATTCTTTGAAAATATATAATATATAATTT
CGAAAACATT
Found at i:2570211 original size:112 final size:108
Alignment explanation
Indices: 2570006--2570282 Score: 297
Period size: 112 Copynumber: 2.5 Consensus size: 108
2569996 ATATTTTATA
* *
2570006 GTTTTGAAAACATATATATTATATAATTTTGAAAACATTCTTTGAAAACATATATAATATATAAT
1 GTTTTG-AAA-ATATATAATATATAATTTTGAAAACATTTTTTGAAAACATATATAATATATAAT
** *
2570071 TTTGAAAACATTTTTGAAAGCGTATATAATATATAGTTTTGAAAAT
64 TTTGAAAACATTTTTGAAAAAG-ATATAATATATAGTTTTGAAAAC
* * * *
2570117 GTTTTTTTGGAAATATATAATATATAATTTCGAAAACATTTTTTGAAAATATATATAATATATAG
1 G---TTTTGAAAATATATAATATATAATTTTGAAAACATTTTTTGAAAACATATATAATATATAA
** * * *
2570182 TTTTGAAAATGTTTTTTTGAAAAAG-TATAATATGTGGTTTTGAACAC
63 TTTTGAAAA--CATTTTTGAAAAAGATATAATATATAGTTTTGAAAAC
* * * *
2570229 GTTTTGAAAACT-TATAATATATAATTTTAAAAACATATTTTGAAAGCATGTATA
1 GTTTTGAAAA-TATATAATATATAATTTTGAAAACATTTTTTGAAAACATATATA
2570283 TGTGTTTTTA
Statistics
Matches: 139, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
109 44 0.32
110 1 0.01
111 1 0.01
112 76 0.55
113 2 0.01
114 15 0.11
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (108 bp):
GTTTTGAAAATATATAATATATAATTTTGAAAACATTTTTTGAAAACATATATAATATATAATTT
TGAAAACATTTTTGAAAAAGATATAATATATAGTTTTGAAAAC
Found at i:2570338 original size:15 final size:15
Alignment explanation
Indices: 2570314--2570358 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
2570304 TTTTGGAAAC
2570314 ATAA-TATATATTAT
1 ATAATTATATATTAT
*
2570328 ATAATTATATACTTAC
1 ATAATTATATA-TTAT
2570344 AT-ATTATATA-TAT
1 ATAATTATATATTAT
2570357 AT
1 AT
2570359 TAATATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 4 0.15
14 4 0.15
15 14 0.52
16 5 0.19
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAATTATATATTAT
Found at i:2570403 original size:24 final size:23
Alignment explanation
Indices: 2570345--2570418 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 23
2570335 TATACTTACA
2570345 TATTATATATATATTAATATTATTTT
1 TATTATAT-T-TATT-ATATTATTTT
*
2570371 TATTTTATTTATTATATT-TTTT
1 TATTATATTTATTATATTATTTT
2570393 TACATTATATTTATT-TATTAATTTT
1 T--ATTATATTTATTATATT-ATTTT
2570418 T
1 T
2570419 TTTCAAGTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
22 5 0.12
23 9 0.21
24 15 0.36
25 6 0.14
26 7 0.17
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (23 bp):
TATTATATTTATTATATTATTTT
Found at i:2576059 original size:11 final size:12
Alignment explanation
Indices: 2576039--2576068 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
2576029 TTTAATCACA
2576039 TAATTATCAATT
1 TAATTATCAATT
2576051 TAATT-TCAATT
1 TAATTATCAATT
2576062 TAATTAT
1 TAATTAT
2576069 TTAATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (12 bp):
TAATTATCAATT
Found at i:2577018 original size:11 final size:11
Alignment explanation
Indices: 2577004--2577039 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
2576994 TATTAAGGTT
2577004 TTTTTTTTAAA
1 TTTTTTTTAAA
2577015 TTTTTTTT-AA
1 TTTTTTTTAAA
*
2577025 TTTTTTTAAAA
1 TTTTTTTTAAA
2577036 TTTT
1 TTTT
2577040 AAGTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTTTTAAA
Found at i:2577020 original size:10 final size:10
Alignment explanation
Indices: 2577005--2577039 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
2576995 ATTAAGGTTT
2577005 TTTTTTTAAA
1 TTTTTTTAAA
*
2577015 TTTTTTTTAA
1 TTTTTTTAAA
2577025 TTTTTTTAAAA
1 TTTTTTT-AAA
2577036 TTTT
1 TTTT
2577040 AAGTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 16 0.73
11 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:2581162 original size:23 final size:24
Alignment explanation
Indices: 2581131--2581177 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
2581121 TTTAAATTTT
*
2581131 AAATATAAAATTTAAATAATAAAA
1 AAATATAAAAATTAAATAATAAAA
*
2581155 AAAT-TAAAAATTAAATATTAAAA
1 AAATATAAAAATTAAATAATAAAA
2581178 GTTAACTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (24 bp):
AAATATAAAAATTAAATAATAAAA
Found at i:2581162 original size:36 final size:38
Alignment explanation
Indices: 2581103--2581182 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 38
2581093 ATTATTAATT
**
2581103 TTTAAAAATAAAAAATATTTTAAATTTTAAATA-TAAAA
1 TTTAAAAATAAAAAATA-TTTAAAAATTAAATATTAAAA
2581141 TTTAAATAATAAAAAA-A-TTAAAAATTAAATATTAAAA
1 TTTAAA-AATAAAAAATATTTAAAAATTAAATATTAAAA
*
2581178 GTTAA
1 TTTAA
2581183 CTATATATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 12 0.32
37 9 0.24
38 7 0.19
39 9 0.24
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (38 bp):
TTTAAAAATAAAAAATATTTAAAAATTAAATATTAAAA
Found at i:2581424 original size:25 final size:25
Alignment explanation
Indices: 2581358--2581425 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 25
2581348 TTATTCTTAC
* *
2581358 TTGAA-TATTTGAGACTTAAAAATT
1 TTGAATTAATTGAAACTTAAAAATT
* * *
2581382 TTGAATTAATCGATACTTACAAATT
1 TTGAATTAATTGAAACTTAAAAATT
* *
2581407 TTGGATTGATTGAAACTTA
1 TTGAATTAATTGAAACTTA
2581426 TAATGCTTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 5 0.14
25 30 0.86
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.41
Consensus pattern (25 bp):
TTGAATTAATTGAAACTTAAAAATT
Found at i:2581644 original size:2 final size:2
Alignment explanation
Indices: 2581637--2581692 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
2581627 TAGTATTTTA
2581637 AT AT AT AT AT AT AT AT AT AT AT A- 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
2581678 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
2581693 GTAATTAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2585836 original size:21 final size:21
Alignment explanation
Indices: 2585782--2585841 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
2585772 AAGTGATGAT
* *
2585782 GAATCGAGCGAACATCATCGC
1 GAATCGAGCGAACGTCATCGA
*
2585803 GAATCAAGCGAACGTCATCGA
1 GAATCGAGCGAACGTCATCGA
*
2585824 GAATCGAGAGAACGTCAT
1 GAATCGAGCGAACGTCAT
2585842 TTTTGAGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.15
Consensus pattern (21 bp):
GAATCGAGCGAACGTCATCGA
Found at i:2590353 original size:18 final size:18
Alignment explanation
Indices: 2590297--2590365 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
2590287 TTGAGAAGGG
2590297 ATGCATCGATGCACTCACC
1 ATGCATCGATGCACT-ACC
***
2590316 AT--ATCGAATGCA-TTTT
1 ATGCATCG-ATGCACTACC
2590332 ATGCATCGATGCACTACC
1 ATGCATCGATGCACTACC
2590350 ATGCATCGATGCACTA
1 ATGCATCGATGCACTA
2590366 AGGTTTTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
16 2 0.05
17 10 0.25
18 26 0.65
19 2 0.05
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (18 bp):
ATGCATCGATGCACTACC
Found at i:2590395 original size:63 final size:63
Alignment explanation
Indices: 2590318--2590496 Score: 220
Period size: 64 Copynumber: 2.8 Consensus size: 63
2590308 CACTCACCAT
2590318 ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTAAGG-TT-TTATGAAAAC
1 ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTAAGGCTTGTT-T-AAAAC
* * **
2590381 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATACACTCTGGCTTGTTTAAAAC
1 ATCGAATGCATTTTATGCATCGATGCAC-TACCATGCATCGATGCACTAAGGCTTGTTTAAAAC
* * * *
2590445 ATCGAATGCATTTTATGTATCGTTGCACT-CTTAGTGCACCGATGCACTAAGG
1 ATCGAATGCATTTTATGCATCGATGCACTAC-CA-TGCATCGATGCACTAAGG
2590497 GTCCAACGGT
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
62 1 0.01
63 29 0.29
64 64 0.65
65 3 0.03
66 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (63 bp):
ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTAAGGCTTGTTTAAAAC
Found at i:2595996 original size:45 final size:44
Alignment explanation
Indices: 2595921--2596018 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 44
2595911 TTGTTTATAA
* * **
2595921 TGCATCGATACACTATGAAAGTGGATCGATGCATTCCTTTGAATG
1 TGCATCGATACACTATGAAAGTGCACCGATGCACGCC-TTGAATG
2595966 TGCATCGATACA-TCATG-AAGATGCACCGATGCACGCCTTGAATG
1 TGCATCGATACACT-ATGAAAG-TGCACCGATGCACGCCTTGAATG
2596010 TGCATCGAT
1 TGCATCGAT
2596019 GCACAAGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
44 20 0.43
45 27 0.57
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGCACCGATGCACGCCTTGAATG
Found at i:2598717 original size:20 final size:20
Alignment explanation
Indices: 2598692--2598729 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2598682 ATTGAGAAGG
2598692 GATGCACCGATGCACTCATT
1 GATGCACCGATGCACTCATT
*
2598712 GATGCATCGATGCACTCA
1 GATGCACCGATGCACTCA
2598730 CCATATCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (20 bp):
GATGCACCGATGCACTCATT
Found at i:2598769 original size:18 final size:18
Alignment explanation
Indices: 2598713--2598781 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
2598703 GCACTCATTG
2598713 ATGCATCGATGCACTCACC
1 ATGCATCGATGCACT-ACC
***
2598732 AT--ATCGAATGCA-TTTT
1 ATGCATCG-ATGCACTACC
2598748 ATGCATCGATGCACTACC
1 ATGCATCGATGCACTACC
2598766 ATGCATCGATGCACTA
1 ATGCATCGATGCACTA
2598782 AGGTTTTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
16 2 0.05
17 10 0.25
18 26 0.65
19 2 0.05
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (18 bp):
ATGCATCGATGCACTACC
Found at i:2598864 original size:64 final size:63
Alignment explanation
Indices: 2598734--2598888 Score: 242
Period size: 64 Copynumber: 2.4 Consensus size: 63
2598724 CACTCACCAT
*
2598734 ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTAAGGTTTTATGAAAAC
1 ATCGAATGCATTTTATGCATCGATGCACGACCATGCATCGATGCACTAAGGTTTTATGAAAAC
**
2598797 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCTGGCTTGTT-T-AAAA
1 ATCGAATGCATTTTATGCATCGATGCAC-GACCATGCATCGATGCACTAAGG-TT-TTATGAAAA
2598860 C
63 C
2598861 ATCGAATGCATTTTATGCATCGATGCAC
1 ATCGAATGCATTTTATGCATCGATGCAC
2598889 TCTTAGTGCA
Statistics
Matches: 86, Mismatches: 3, Indels: 5
0.91 0.03 0.05
Matches are distributed among these distances:
63 28 0.33
64 53 0.62
65 3 0.03
66 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (63 bp):
ATCGAATGCATTTTATGCATCGATGCACGACCATGCATCGATGCACTAAGGTTTTATGAAAAC
Found at i:2598904 original size:64 final size:62
Alignment explanation
Indices: 2598734--2598911 Score: 234
Period size: 64 Copynumber: 2.8 Consensus size: 62
2598724 CACTCACCAT
2598734 ATCGAATGCATTTTATGCATCGATGCACTACCATGCATCGATGCACTAAGGTTTTATGAAAAC
1 ATCGAATGCATTTTATGCATCGATGCACT-CCATGCATCGATGCACTAAGGTTTTATGAAAAC
* **
2598797 ATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCTGGCTTGTT-T-AAAA
1 ATCGAATGCATTTTATGCATCGATGCAC--TCCATGCATCGATGCACTAAGG-TT-TTATGAAAA
2598860 C
62 C
* *
2598861 ATCGAATGCATTTTATGCATCGATGCACTCTTAGTGCACCGATGCACTAAG
1 ATCGAATGCATTTTATGCATCGATGCACTC-CA-TGCATCGATGCACTAAG
2598912 AGTCCAACGG
Statistics
Matches: 101, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
62 1 0.01
63 29 0.29
64 66 0.65
65 3 0.03
66 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (62 bp):
ATCGAATGCATTTTATGCATCGATGCACTCCATGCATCGATGCACTAAGGTTTTATGAAAAC
Found at i:2600729 original size:12 final size:13
Alignment explanation
Indices: 2600712--2600745 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2600702 TGCATATGTA
2600712 ATTTAAGT-ATTT
1 ATTTAAGTGATTT
2600724 ATTTAAGTGATTT
1 ATTTAAGTGATTT
*
2600737 AATTAAGTG
1 ATTTAAGTG
2600746 CATATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (13 bp):
ATTTAAGTGATTT
Found at i:2601282 original size:15 final size:15
Alignment explanation
Indices: 2601257--2601293 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
2601247 TGTCTCAACT
2601257 CTATT-TTCCTGCTA
1 CTATTGTTCCTGCTA
2601271 CTATTGTTCCTGCTA
1 CTATTGTTCCTGCTA
2601286 CTATTGTT
1 CTATTGTT
2601294 TACTGTCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.14, C:0.24, G:0.11, T:0.51
Consensus pattern (15 bp):
CTATTGTTCCTGCTA
Found at i:2604560 original size:7 final size:7
Alignment explanation
Indices: 2604548--2604574 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2604538 AGTTGTAACC
2604548 TAAATAA
1 TAAATAA
2604555 TAAATAA
1 TAAATAA
2604562 TAAATAA
1 TAAATAA
2604569 TAAATA
1 TAAATA
2604575 TATTTAATGA
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAATAA
Found at i:2605595 original size:22 final size:22
Alignment explanation
Indices: 2605565--2605613 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2605555 CTGTTGACCG
*
2605565 TTGATCGGTCTGACCT-TTGAAT
1 TTGACCGGTCTGA-CTATTGAAT
*
2605587 TTGACCGGTCTGACTATTGACT
1 TTGACCGGTCTGACTATTGAAT
2605609 TTGAC
1 TTGAC
2605614 AAAAAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.39
Consensus pattern (22 bp):
TTGACCGGTCTGACTATTGAAT
Found at i:2606003 original size:20 final size:19
Alignment explanation
Indices: 2605971--2606011 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
2605961 TTAAAATTTC
2605971 TAAGCTCAAACTACCTGCA
1 TAAGCTCAAACTACCTGCA
*
2605990 TAAGACTCAGACTACCTGCA
1 TAAG-CTCAAACTACCTGCA
2606010 TA
1 TA
2606012 GACACATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (19 bp):
TAAGCTCAAACTACCTGCA
Found at i:2606166 original size:27 final size:28
Alignment explanation
Indices: 2606117--2606170 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
2606107 AAACTTTAAT
2606117 ACCAAAATTACCCCTGAACTGTAAAATG
1 ACCAAAATTACCCCTGAACTGTAAAATG
* * *
2606145 ACCAAAA-TATCCTTGAAGTGTAAAAT
1 ACCAAAATTACCCCTGAACTGTAAAAT
2606171 TACTATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.24
Consensus pattern (28 bp):
ACCAAAATTACCCCTGAACTGTAAAATG
Found at i:2622731 original size:21 final size:21
Alignment explanation
Indices: 2622707--2622788 Score: 62
Period size: 21 Copynumber: 3.9 Consensus size: 21
2622697 ACTCCAAGCT
*
2622707 TTAAA-CTCTAAATTCTAAATC
1 TTAAATCT-TAAATCCTAAATC
2622728 TTAAATCTTAAATCCTAAATC
1 TTAAATCTTAAATCCTAAATC
* * * *
2622749 CTAAAACTTGAATCTTACACA-C
1 TTAAATCTTAAATCCTA-A-ATC
*
2622771 -TAAATCTTAAACCCTAAA
1 TTAAATCTTAAATCCTAAA
2622789 AATATAATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 42 0.86
22 4 0.08
23 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.33
Consensus pattern (21 bp):
TTAAATCTTAAATCCTAAATC
Found at i:2622738 original size:28 final size:28
Alignment explanation
Indices: 2622707--2622781 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
2622697 ACTCCAAGCT
* *
2622707 TTAAACTCTAAATTCTAAATCTTAAATC
1 TTAAACTCTAAATCCTAAAACTTAAATC
*
2622735 TTAAA-TCCTAAATCCTAAAACTTGAATC
1 TTAAACT-CTAAATCCTAAAACTTAAATC
* * *
2622763 TTACACACTAAATCTTAAA
1 TTAAACTCTAAATCCTAAA
2622782 CCCTAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.44, C:0.20, G:0.01, T:0.35
Consensus pattern (28 bp):
TTAAACTCTAAATCCTAAAACTTAAATC
Found at i:2622787 original size:14 final size:14
Alignment explanation
Indices: 2622707--2622788 Score: 58
Period size: 14 Copynumber: 5.9 Consensus size: 14
2622697 ACTCCAAGCT
*
2622707 TTAAACTCTAAAT-
1 TTAAACCCTAAATC
* *
2622720 TCTAAATCTTAAATC
1 T-TAAACCCTAAATC
*
2622735 TTAAATCCTAAATC
1 TTAAACCCTAAATC
* * * *
2622749 CTAAAACTTGAATC
1 TTAAACCCTAAATC
* *
2622763 TTACACACTAAATC
1 TTAAACCCTAAATC
2622777 TTAAACCCTAAA
1 TTAAACCCTAAA
2622789 AATATAATTT
Statistics
Matches: 51, Mismatches: 16, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
13 1 0.02
14 49 0.96
15 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.01, T:0.33
Consensus pattern (14 bp):
TTAAACCCTAAATC
Found at i:2622921 original size:2 final size:2
Alignment explanation
Indices: 2622914--2622942 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2622904 TTCTACATAG
2622914 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2622943 GTTCTCATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2624871 original size:18 final size:18
Alignment explanation
Indices: 2624837--2624871 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2624827 AGATTAATAA
*
2624837 AAAATATTATTTTTAATG
1 AAAATATTATTTATAATG
*
2624855 AAAATATTGTTTATAAT
1 AAAATATTATTTATAAT
2624872 TTATTGGTTA
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:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
AAAATATTATTTATAATG
Found at i:2629194 original size:21 final size:21
Alignment explanation
Indices: 2629169--2629331 Score: 146
Period size: 21 Copynumber: 7.6 Consensus size: 21
2629159 ACATAAAATT
*
2629169 TCCCGAAGGACTACATATATG
1 TCCCGAAGGACCACATATATG
* *
2629190 TCCCGAAGGACCGCATAGAATTG
1 TCCCGAAGGACCACATA-TA-TG
* *
2629213 TCCCGAAGGACCACGTAGAATTG
1 TCCCGAAGGACCACATA-TA-TG
* * *
2629236 TCTCGTAGGACCACATATATA
1 TCCCGAAGGACCACATATATG
* * *
2629257 TTCCAAAGGACCAAATATATG
1 TCCCGAAGGACCACATATATG
* *
2629278 TCCCAAAGGACCGCATATATG
1 TCCCGAAGGACCACATATATG
* * *
2629299 TTCCAAAGGACCACATACATG
1 TCCCGAAGGACCACATATATG
2629320 TCCCGAAGGACC
1 TCCCGAAGGACC
2629332 GCGTAGAACC
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
21 77 0.66
22 2 0.02
23 37 0.32
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (21 bp):
TCCCGAAGGACCACATATATG
Found at i:2629218 original size:23 final size:23
Alignment explanation
Indices: 2629157--2629252 Score: 108
Period size: 23 Copynumber: 4.3 Consensus size: 23
2629147 CACCAAAGTG
*
2629157 CCACATAAAATT-TCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
* *
2629179 CTACATA-TA-TGTCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
*
2629200 CCGCATAGAATTGTCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
* * *
2629223 CCACGTAGAATTGTCTCGTAGGA
1 CCACATAGAATTGTCCCGAAGGA
2629246 CCACATA
1 CCACATA
2629253 TATATTCCAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.02
21 16 0.26
22 7 0.11
23 37 0.61
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
CCACATAGAATTGTCCCGAAGGA
Found at i:2635463 original size:36 final size:35
Alignment explanation
Indices: 2635365--2635470 Score: 114
Period size: 36 Copynumber: 3.1 Consensus size: 35
2635355 GAGAAAAATA
2635365 AAACTTTTAGAGAAAGATGAAATTTTCCAAAAATGG
1 AAAC-TTTAGAGAAAGATGAAATTTTCCAAAAATGG
* * * *
2635401 AAAGTTCT--TG-AA-AT-AAAATTACCAAAAATGG
1 AAACTT-TAGAGAAAGATGAAATTTTCCAAAAATGG
2635432 AAACTTTGAGAGAAAGATGAAATTTTCCAAAAATGG
1 AAACTTT-AGAGAAAGATGAAATTTTCCAAAAATGG
2635468 AAA
1 AAA
2635471 GTTCTAGATT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
30 1 0.02
31 20 0.36
32 2 0.04
33 3 0.05
34 3 0.05
35 4 0.07
36 22 0.40
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.25
Consensus pattern (35 bp):
AAACTTTAGAGAAAGATGAAATTTTCCAAAAATGG
Found at i:2638239 original size:20 final size:20
Alignment explanation
Indices: 2638216--2638259 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
2638206 AGTAGTATCT
* *
2638216 ATACCCATAGGTTAGTACCA
1 ATACCCAGAGGCTAGTACCA
*
2638236 ATACCCAGAGGCTAGTACTA
1 ATACCCAGAGGCTAGTACCA
2638256 ATAC
1 ATAC
2638260 TGAAGGTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (20 bp):
ATACCCAGAGGCTAGTACCA
Found at i:2647325 original size:14 final size:14
Alignment explanation
Indices: 2647306--2647334 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2647296 TAATTCTTCA
2647306 TCTAAACTTAAAAC
1 TCTAAACTTAAAAC
2647320 TCTAAACTTAAAAC
1 TCTAAACTTAAAAC
2647334 T
1 T
2647335 AAACCCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (14 bp):
TCTAAACTTAAAAC
Found at i:2650847 original size:20 final size:20
Alignment explanation
Indices: 2650822--2650859 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2650812 ATTGATAAAG
2650822 GATGCACCGAGGCACTCATT
1 GATGCACCGAGGCACTCATT
* *
2650842 GATGCATCGATGCACTCA
1 GATGCACCGAGGCACTCA
2650860 CCATATCGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (20 bp):
GATGCACCGAGGCACTCATT
Found at i:2650949 original size:46 final size:45
Alignment explanation
Indices: 2650899--2650996 Score: 110
Period size: 45 Copynumber: 2.2 Consensus size: 45
2650889 CACTACCATA
2650899 CATCGATACACTAAGG-TT-TTATAAAAAACATCAAATGCATTTTATG
1 CATCGATACACTAAGGCTTGTT-T--AAAACATCAAATGCATTTTATG
* * * **
2650945 CATCGATGCACTCAGGCTTGTTTAAAATATTTAATGCATTTTATG
1 CATCGATACACTAAGGCTTGTTTAAAACATCAAATGCATTTTATG
2650990 CATCGAT
1 CATCGAT
2650997 GTACTCTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
45 26 0.58
46 14 0.31
47 3 0.07
48 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (45 bp):
CATCGATACACTAAGGCTTGTTTAAAACATCAAATGCATTTTATG
Found at i:2656785 original size:21 final size:21
Alignment explanation
Indices: 2656759--2656815 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 21
2656749 TTGTGCATAA
2656759 TGCATCGATACACTATGAAAG
1 TGCATCGATACACTATGAAAG
* * *
2656780 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGAT--A-CACTATGAAAG
2656804 TGCATCGATACA
1 TGCATCGATACA
2656816 TCATGAAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
21 10 0.34
22 1 0.03
23 1 0.03
24 17 0.59
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (21 bp):
TGCATCGATACACTATGAAAG
Found at i:2656835 original size:45 final size:44
Alignment explanation
Indices: 2656759--2656856 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 44
2656749 TTGTGCATAA
2656759 TGCATCGATACACTATGAAAGTGCATCGATGCA-TCCCTTTGAATG
1 TGCATCGATACACTATGAAAGTGCATCGATGCACT-CC-TTGAATG
*
2656804 TGCATCGATACA-TCATG-AAGATGCA-CTGATGCACTCCTTGAATT
1 TGCATCGATACACT-ATGAAAG-TGCATC-GATGCACTCCTTGAATG
2656848 TGCATCGAT
1 TGCATCGAT
2656857 GCACAAGGCC
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
44 20 0.42
45 27 0.56
46 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGCATCGATGCACTCCTTGAATG
Done.