Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008558.1 Hibiscus syriacus cultivar Beakdansim tig00111463_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: 2950132
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 14
Found at i:2021610 original size:18 final size:16
Alignment explanation
Indices: 2021587--2021667 Score: 90
Period size: 16 Copynumber: 4.8 Consensus size: 16
2021577 ATAGATAAAC
*
2021587 TATATAAACTATACTTTA
1 TATATAAA-TATA-TATA
2021605 TATATAAATTATATACTA
1 TATATAAA-TATATA-TA
*
2021623 TATATATATATATATA
1 TATATAAATATATATA
*
2021639 TATATATATATATATA
1 TATATAAATATATATA
2021655 TATATATAATATA
1 TATATA-AATATA
2021668 AGTATACATT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
16 24 0.42
17 12 0.21
18 21 0.37
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATAAATATATATA
Found at i:2022434 original size:117 final size:118
Alignment explanation
Indices: 2022280--2022494 Score: 353
Period size: 116 Copynumber: 1.8 Consensus size: 118
2022270 CATCAAAAAA
*
2022280 GTTCCTTTCTTATTTATTTTAGATCTAACCCAAAAAATAAGCATTGTTCATCCGGAAAAAAAACT
1 GTTCATTTCTTATTTATTTTAGATCTAACCCAAAAAATAAGCATTGTTCATCC-GAAAAAAAACT
*
2022345 ATGGAATCATCCACCTTCTCGACTCTTCATCTTCGAAAAAAAAATCAAAAGATC
65 ATGGAATCATCCACCTTCTCGACTCCTCATCTTCGAAAAAAAAATCAAAAGATC
* * *
2022399 GTTCATTTCTT-TTT-TTTTAGATCTAACCCAGAAAATAAGCATTGTTCATCCGAAAAAAATCTC
1 GTTCATTTCTTATTTATTTTAGATCTAACCCAAAAAATAAGCATTGTTCATCCGAAAAAAAACTA
*
2022462 TGGAATCCTCCACCTTCTCGACTCCTCATCTTC
66 TGGAATCATCCACCTTCTCGACTCCTCATCTTC
2022495 TATAGTTCTA
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
116 41 0.46
117 36 0.40
118 3 0.03
119 10 0.11
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (118 bp):
GTTCATTTCTTATTTATTTTAGATCTAACCCAAAAAATAAGCATTGTTCATCCGAAAAAAAACTA
TGGAATCATCCACCTTCTCGACTCCTCATCTTCGAAAAAAAAATCAAAAGATC
Found at i:2022832 original size:14 final size:13
Alignment explanation
Indices: 2022815--2022894 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 13
2022805 TTTATTTGGC
2022815 TTTTATTTTCTGTT
1 TTTTATTTT-TGTT
*
2022829 TTTTATGTGTTTAATTT
1 TTTTAT-T-TTT--GTT
2022846 TTTTATATTTT-TT
1 TTTTAT-TTTTGTT
* *
2022859 GTTTTGTATTTGTT
1 -TTTTATTTTTGTT
2022873 TTTTATTATTTGTT
1 TTTTATT-TTTGTT
2022887 TTTTATTT
1 TTTTATTT
2022895 CTTTTCGTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 11 0.21
14 26 0.49
15 2 0.04
16 5 0.09
17 9 0.17
ACGTcount: A:0.12, C:0.01, G:0.09, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTGTT
Found at i:2022874 original size:25 final size:24
Alignment explanation
Indices: 2022842--2022899 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
2022832 TATGTGTTTA
*
2022842 ATTTTTTTATATTTTTTGTTTTGT
1 ATTTTTTTATATTATTTGTTTTGT
* *
2022866 ATTTGTTTTTTATTATTTGTTTTTT
1 ATTT-TTTTATATTATTTGTTTTGT
2022891 ATTTCTTTT
1 ATTT-TTTT
2022900 CGTTTTATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (24 bp):
ATTTTTTTATATTATTTGTTTTGT
Found at i:2023562 original size:25 final size:25
Alignment explanation
Indices: 2023516--2023563 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2023506 AAATTTAATC
* *
2023516 TTTTTTATTTACTTTTTGTTTTTCA
1 TTTTTTATATACTTTTTATTTTTCA
2023541 TTTTTTATATA-TTTTTAATTTTT
1 TTTTTTATATACTTTTT-ATTTTT
2023564 AACAAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTTTATATACTTTTTATTTTTCA
Found at i:2023781 original size:24 final size:25
Alignment explanation
Indices: 2023745--2023824 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 25
2023735 TTATTATTTG
* *
2023745 TTTTTGATTTGTTAATTT-TTTTC-C
1 TTTTTTATATGTT-ATTTATTTTCTC
* *
2023769 TTTTTTATATGTTTTTTATTTTCTTT
1 TTTTTTATATGTTATTTATTTTC-TC
* *
2023795 TTTTTATATATGTTTTTTATTTTCTA
1 TTTTT-TATATGTTATTTATTTTCTC
2023821 TTTT
1 TTTT
2023825 ATTTTTATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
23 3 0.06
24 16 0.34
26 10 0.21
27 18 0.38
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (25 bp):
TTTTTTATATGTTATTTATTTTCTC
Found at i:2023790 original size:7 final size:7
Alignment explanation
Indices: 2023780--2023937 Score: 64
Period size: 7 Copynumber: 22.9 Consensus size: 7
2023770 TTTTTATATG
2023780 TTTTTTA
1 TTTTTTA
2023787 TTTTCTT-
1 TTTT-TTA
2023794 TTTTTTA
1 TTTTTTA
* * *
2023801 -TATATG
1 TTTTTTA
2023807 TTTTTTA
1 TTTTTTA
*
2023814 TTTTCTA
1 TTTTTTA
2023821 --TTTTA
1 TTTTTTA
2023826 -TTTTTA
1 TTTTTTA
*
2023832 TTTTCTA
1 TTTTTTA
2023839 TTTTTTA
1 TTTTTTA
2023846 TTTGTTT-
1 TTT-TTTA
* *
2023853 TTGTATA
1 TTTTTTA
** *
2023860 CATTATA
1 TTTTTTA
2023867 TGTTTTTA
1 T-TTTTTA
* *
2023875 TTTTCTG
1 TTTTTTA
2023882 TTTTTATA
1 TTTTT-TA
2023890 TTTTATT-
1 TTTT-TTA
2023897 TGTTTTT-
1 T-TTTTTA
2023904 TTATTTTA
1 TT-TTTTA
*
2023912 TGTTTTA
1 TTTTTTA
*
2023919 -TATTTA
1 TTTTTTA
2023925 TTTTTTA
1 TTTTTTA
2023932 TTTTTT
1 TTTTTT
2023938 CTGTTTTTTA
Statistics
Matches: 111, Mismatches: 26, Indels: 28
0.67 0.16 0.17
Matches are distributed among these distances:
5 4 0.04
6 17 0.15
7 69 0.62
8 20 0.18
9 1 0.01
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:2023796 original size:13 final size:12
Alignment explanation
Indices: 2023780--2023937 Score: 57
Period size: 13 Copynumber: 12.1 Consensus size: 12
2023770 TTTTTATATG
2023780 TTTTTTATTTTCTT
1 TTTTTTA-TTT-TT
* *
2023794 TTTTTTATATATG
1 TTTTTTAT-TTTT
*
2023807 TTTTTTATTTTC
1 TTTTTTATTTTT
*
2023819 TATTTTATTTTT
1 TTTTTTATTTTT
*
2023831 ATTTTCTATTTTT
1 -TTTTTTATTTTT
2023844 TATTTGTT-TTTGTAT
1 T-TTT-TTATTT-T-T
** *
2023859 ACATTATATGTTTT
1 -TTTTTTAT-TTTT
*
2023873 TATTTTCTGTTTTT
1 T-TTTT-TATTTTT
* *
2023887 ATATTTTATTTGT
1 -TTTTTTATTTTT
*
2023900 TTTTTTATTTTA
1 TTTTTTATTTTT
* *
2023912 TGTTTTATATTTA
1 TTTTTTAT-TTTT
2023925 TTTTTTATTTTT
1 TTTTTTATTTTT
2023937 T
1 T
2023938 CTGTTTTTTA
Statistics
Matches: 106, Mismatches: 25, Indels: 28
0.67 0.16 0.18
Matches are distributed among these distances:
12 33 0.31
13 42 0.40
14 21 0.20
15 8 0.08
16 2 0.02
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.77
Consensus pattern (12 bp):
TTTTTTATTTTT
Found at i:2023799 original size:27 final size:28
Alignment explanation
Indices: 2023769--2023832 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
2023759 ATTTTTTTCC
2023769 TTTTTTATATGTTTTTTATTTTCT-TTT
1 TTTTTTATATGTTTTTTATTTTCTATTT
*
2023796 TTTTATATATGTTTTTTATTTTCTATTT
1 TTTTTTATATGTTTTTTATTTTCTATTT
2023824 TATTTTTAT
1 T-TTTTTAT
2023833 TTTCTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 23 0.70
28 4 0.12
29 6 0.18
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (28 bp):
TTTTTTATATGTTTTTTATTTTCTATTT
Found at i:2023824 original size:25 final size:26
Alignment explanation
Indices: 2023769--2023848 Score: 83
Period size: 25 Copynumber: 3.1 Consensus size: 26
2023759 ATTTTTTTCC
* *
2023769 TTTTTTATATGTTTTTTATTTTCTTTT
1 TTTTATATATGTTTTTTATTTTC-TTA
2023796 TTTTATATATGTTTTTTATTTTC-TA
1 TTTTATATATGTTTTTTATTTTCTTA
* * * *
2023821 TTTTATTTTTATTTTCTATTTT-TTA
1 TTTTATATATGTTTTTTATTTTCTTA
2023846 TTT
1 TTT
2023849 GTTTTTGTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 24 0.52
27 22 0.48
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.79
Consensus pattern (26 bp):
TTTTATATATGTTTTTTATTTTCTTA
Found at i:2023829 original size:18 final size:18
Alignment explanation
Indices: 2023808--2023842 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2023798 TTATATATGT
2023808 TTTTTATTTTCTATTTTA
1 TTTTTATTTTCTATTTTA
2023826 TTTTTATTTTCTATTTT
1 TTTTTATTTTCTATTTT
2023843 TTATTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTATTTTCTATTTTA
Found at i:2023843 original size:32 final size:32
Alignment explanation
Indices: 2023771--2023937 Score: 104
Period size: 32 Copynumber: 5.4 Consensus size: 32
2023761 TTTTTTCCTT
2023771 TTTTATATGTTTTTTATTTTC---TTT-TTTTTA
1 TTTTATA--TTTTTTATTTTCTGTTTTATTTTTA
* * *
2023801 -TATATGTTTTTTATTTTCTATTTTATTTTTA
1 TTTTATATTTTTTATTTTCTGTTTTATTTTTA
* * *
2023832 TTTTCTATTTTTTA--TT-TGTTTT-TGTATA
1 TTTTATATTTTTTATTTTCTGTTTTATTTTTA
**
2023860 CATTATATGTTTTTATTTTCTGTTTTTATATTTTA
1 TTTTATAT-TTTTTATTTTCTG-TTTTAT-TTTTA
* * *
2023895 -TTTGT-TTTTTTATTTTATGTTTTATATTTA
1 TTTTATATTTTTTATTTTCTGTTTTATTTTTA
*
2023925 TTTTTTATTTTTT
1 TTTTATATTTTTT
2023938 CTGTTTTTTA
Statistics
Matches: 105, Mismatches: 18, Indels: 26
0.70 0.12 0.17
Matches are distributed among these distances:
27 12 0.11
28 9 0.09
29 15 0.14
30 9 0.09
31 18 0.17
32 30 0.29
33 5 0.05
34 4 0.04
35 3 0.03
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (32 bp):
TTTTATATTTTTTATTTTCTGTTTTATTTTTA
Found at i:2023853 original size:11 final size:11
Alignment explanation
Indices: 2023731--2023854 Score: 58
Period size: 11 Copynumber: 10.7 Consensus size: 11
2023721 AAAAAACCCA
*
2023731 TTGTTTATTAT
1 TTGTTTTTTAT
*
2023742 TTGTTTTTGAT
1 TTGTTTTTTAT
2023753 TTGTTAATTTT-T
1 TTGTT--TTTTAT
*
2023765 TTCCTTTTTTAT
1 TT-GTTTTTTAT
*
2023777 ATGTTTTTTATTT
1 TTGTTTTTTA--T
*
2023790 TCTTTTTTTTAT
1 T-TGTTTTTTAT
2023802 ATATGTTTTTTAT
1 -T-TGTTTTTTAT
2023815 TT-TCTATTTTAT
1 TTGT-T-TTTTAT
*
2023827 TT-TTATTT-T
1 TTGTTTTTTAT
* *
2023836 CTATTTTTTAT
1 TTGTTTTTTAT
2023847 TTGTTTTT
1 TTGTTTTT
2023855 GTATACATTA
Statistics
Matches: 86, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
9 2 0.02
10 9 0.10
11 35 0.41
12 16 0.19
13 16 0.19
14 8 0.09
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.77
Consensus pattern (11 bp):
TTGTTTTTTAT
Found at i:2023853 original size:18 final size:18
Alignment explanation
Indices: 2023738--2023853 Score: 66
Period size: 18 Copynumber: 6.6 Consensus size: 18
2023728 CCATTGTTTA
2023738 TTATTTGTTTT-TGATTTGT
1 TTATTTGTTTTCT-ATTT-T
* *
2023757 TAATTT-TTTTC-CTTTT
1 TTATTTGTTTTCTATTTT
* *
2023773 TTATATGTTTTTTATTTT
1 TTATTTGTTTTCTATTTT
* * *
2023791 CT-TTT-TTTTATATATGT
1 TTATTTGTTTTCTAT-TTT
*
2023808 TT-TTTATTTTCTATTTT
1 TTATTTGTTTTCTATTTT
*
2023825 ATT-TTTATTTTCTATTTT
1 -TTATTTGTTTTCTATTTT
2023843 TTATTTGTTTT
1 TTATTTGTTTT
2023854 TGTATACATT
Statistics
Matches: 76, Mismatches: 14, Indels: 15
0.72 0.13 0.14
Matches are distributed among these distances:
16 12 0.16
17 19 0.25
18 40 0.53
19 5 0.07
ACGTcount: A:0.14, C:0.04, G:0.05, T:0.77
Consensus pattern (18 bp):
TTATTTGTTTTCTATTTT
Found at i:2023873 original size:43 final size:44
Alignment explanation
Indices: 2023773--2023934 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 44
2023763 TTTTCCTTTT
* *
2023773 TTATATGTTTTTTATTTTCTTTTTTTTATATATGTTTTTTATTTTCTA
1 TTATATG-TTTTTATTTTCTATTTTTTAT-T-TGTTTTTTA-TTACTA
*
2023821 TT-T-TATTTTTATTTTCTATTTTTTATTTGTTTTTGTA-TAC-A
1 TTATATGTTTTTATTTTCTATTTTTTATTTGTTTTT-TATTACTA
* **
2023862 TTATATGTTTTTATTTTCTGTTTTTATATTT-TATTTGTT-TTTTTA
1 TTATATGTTTTTATTTTCTATTTTT-TATTTGT-TTT-TTATTACTA
* *
2023907 TTTTATG-TTTTATATT-TATTTTTTATTT
1 TTATATGTTTTTATTTTCTATTTTTTATTT
2023935 TTTCTGTTTT
Statistics
Matches: 96, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
41 3 0.03
42 8 0.08
43 32 0.33
44 21 0.22
45 28 0.29
46 1 0.01
47 1 0.01
48 2 0.02
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (44 bp):
TTATATGTTTTTATTTTCTATTTTTTATTTGTTTTTTATTACTA
Found at i:2023928 original size:24 final size:25
Alignment explanation
Indices: 2023889--2023935 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2023879 CTGTTTTTAT
2023889 ATTTTATTTGT-TTTTTTATTTTAT
1 ATTTTATTTGTATTTTTTATTTTAT
*
2023913 GTTTTATATT-TATTTTTTATTTT
1 ATTTTAT-TTGTATTTTTTATTTT
2023936 TTCTGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (25 bp):
ATTTTATTTGTATTTTTTATTTTAT
Found at i:2024018 original size:22 final size:23
Alignment explanation
Indices: 2023962--2024018 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
2023952 TTCAATCTTT
2023962 TTTTCT-TTTTTTATTTTGTTTG
1 TTTTCTATTTTTTATTTTGTTTG
2023984 TTTTCTATTTTTTATTTT-TTTG
1 TTTTCTATTTTTTATTTTGTTTG
2024006 TTTT-TAGTTTTTT
1 TTTTCTA-TTTTTT
2024019 TATTAGTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 2 0.06
22 20 0.61
23 11 0.33
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.82
Consensus pattern (23 bp):
TTTTCTATTTTTTATTTTGTTTG
Found at i:2024019 original size:23 final size:24
Alignment explanation
Indices: 2023967--2024022 Score: 82
Period size: 23 Copynumber: 2.4 Consensus size: 24
2023957 TCTTTTTTTC
2023967 TTTTTTTATTTTGTTTGTTTTCTA
1 TTTTTTTATTTTGTTTGTTTTCTA
2023991 -TTTTTTATTTT-TTTGTTTT-TA
1 TTTTTTTATTTTGTTTGTTTTCTA
2024012 GTTTTTTTATT
1 -TTTTTTTATT
2024023 AGTTGATTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 20 0.67
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.82
Consensus pattern (24 bp):
TTTTTTTATTTTGTTTGTTTTCTA
Found at i:2024103 original size:18 final size:17
Alignment explanation
Indices: 2024068--2024142 Score: 69
Period size: 18 Copynumber: 4.1 Consensus size: 17
2024058 TAGTTGTTGC
2024068 TTATATTGTTTTCTATTT
1 TTAT-TTGTTTTCTATTT
2024086 TTATTTGTTTTCTGATTT
1 TTATTTGTTTTCT-ATTT
* * *
2024104 TTGTTTTTTTTTTAATTTT
1 TTATTTGTTTTCT-A-TTT
*
2024123 ATTATTTATTTTCTATTT
1 -TTATTTGTTTTCTATTT
2024141 TT
1 TT
2024143 TCTTTATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
17 11 0.23
18 22 0.47
19 4 0.09
20 10 0.21
ACGTcount: A:0.15, C:0.04, G:0.05, T:0.76
Consensus pattern (17 bp):
TTATTTGTTTTCTATTT
Found at i:2024135 original size:38 final size:38
Alignment explanation
Indices: 2024086--2024162 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 38
2024076 TTTTCTATTT
*
2024086 TTATTTGTTTTCTGATTTTTGT-TTT-TTTTTTAATTTTA
1 TTATTTATTTTCT-ATTTTT-TCTTTATTTTTTAATTTTA
*
2024124 TTATTTATTTTCTATTTTTTCTTTATTTTTTTATTTTA
1 TTATTTATTTTCTATTTTTTCTTTATTTTTTAATTTTA
2024162 T
1 T
2024163 GTTTTTTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 1 0.03
37 9 0.26
38 25 0.71
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (38 bp):
TTATTTATTTTCTATTTTTTCTTTATTTTTTAATTTTA
Found at i:2024148 original size:18 final size:19
Alignment explanation
Indices: 2024083--2024152 Score: 65
Period size: 18 Copynumber: 3.7 Consensus size: 19
2024073 TTGTTTTCTA
* *
2024083 TTTTTATTTGTTTTCTGAT
1 TTTTTATTTATTTTCTAAT
*
2024102 TTTTGT-TTT-TTTTTTAAT
1 TTTT-TATTTATTTTCTAAT
2024120 TTTATTATTTATTTTCT-AT
1 TTT-TTATTTATTTTCTAAT
*
2024139 TTTTTCTTTATTTT
1 TTTTTATTTATTTT
2024153 TTTATTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
18 21 0.49
19 16 0.37
20 6 0.14
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (19 bp):
TTTTTATTTATTTTCTAAT
Found at i:2024148 original size:25 final size:25
Alignment explanation
Indices: 2024119--2024183 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
2024109 TTTTTTTTAA
*
2024119 TTTTA-TTATTTATTTTCTATTTTT
1 TTTTATTTATTTATTTTATATTTTT
* *
2024143 TCTTTATTTTTTTATTTTATGTTTTT
1 T-TTTATTTATTTATTTTATATTTTT
*
2024169 TGTTATTTATTTATT
1 TTTTATTTATTTATT
2024184 GTTTTTGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.03
25 16 0.47
26 17 0.50
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.78
Consensus pattern (25 bp):
TTTTATTTATTTATTTTATATTTTT
Found at i:2024160 original size:18 final size:18
Alignment explanation
Indices: 2024071--2024202 Score: 69
Period size: 19 Copynumber: 7.2 Consensus size: 18
2024061 TTGTTGCTTA
2024071 TATTGTTTTCTATTTTTATT
1 TATT-TTTT-TATTTTTATT
* * * *
2024091 TGTTTTCTGATTTTTGTT
1 TATTTTTTTATTTTTATT
2024109 T-TTTTTTTAATTTTATTATT
1 TATTTTTTT-A-TTT-TTATT
* *
2024129 TA-TTTTCTATTTTTTCTT
1 TATTTTTTTA-TTTTTATT
2024147 TATTTTTTTA-TTTTATGT
1 TATTTTTTTATTTTTAT-T
*
2024165 T-TTTTGTTA--TTTATT
1 TATTTTTTTATTTTTATT
* *
2024180 TATTGTTTTTGTTTATATT
1 TATT-TTTTTATTTTTATT
2024199 TATT
1 TATT
2024203 GTTCTAACAA
Statistics
Matches: 87, Mismatches: 15, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
15 2 0.02
16 7 0.08
17 21 0.24
18 18 0.21
19 26 0.30
20 13 0.15
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (18 bp):
TATTTTTTTATTTTTATT
Found at i:2027334 original size:19 final size:19
Alignment explanation
Indices: 2027310--2027346 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2027300 GATAAACATA
*
2027310 TAAAGTCAATTTAATAATT
1 TAAAGTAAATTTAATAATT
2027329 TAAAGTAAATTTAATAAT
1 TAAAGTAAATTTAATAAT
2027347 ATAATGATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (19 bp):
TAAAGTAAATTTAATAATT
Found at i:2033572 original size:30 final size:31
Alignment explanation
Indices: 2033517--2033576 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
2033507 AATTTAAGGT
*
2033517 AAAATAGTTTTTGGACTTGAATTGAATTTAC
1 AAAATAGTTTTTAGACTTGAATTGAATTTAC
2033548 AAAATAGTTTTTAGACTT-AATTGAATTTA
1 AAAATAGTTTTTAGACTTGAATTGAATTTA
2033577 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.43
Consensus pattern (31 bp):
AAAATAGTTTTTAGACTTGAATTGAATTTAC
Found at i:2033885 original size:30 final size:31
Alignment explanation
Indices: 2033829--2033889 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
2033819 CAATTTAAGG
2033829 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
2033860 CAAAATGGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
2033890 TTCAAAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:2034118 original size:20 final size:20
Alignment explanation
Indices: 2034067--2034119 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
2034057 AATGCACTTA
*
2034067 GTGCATCGATACATCCTGCT
1 GTGCATCGATGCATCCTGCT
*
2034087 GTGCATCGATGCATCCTGTT
1 GTGCATCGATGCATCCTGCT
*
2034107 GTGCATCCATGCA
1 GTGCATCGATGCA
2034120 CCAAGGCTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.28, G:0.23, T:0.30
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGCT
Found at i:2037081 original size:31 final size:30
Alignment explanation
Indices: 2037045--2037128 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 30
2037035 ATTTTTTTGG
*
2037045 TTTCAATTTGATACTTGAATTTGATTTTAA
1 TTTCAATTTGATACTTGAATTTCATTTTAA
*
2037075 TGTTCAATGTGATACTT-AATTTTCATTTTAA
1 T-TTCAATTTGATACTTGAA-TTTCATTTTAA
* *
2037106 TCTCTAATTAGATACTTGAATTT
1 TTTC-AATTTGATACTTGAATTT
2037129 AACCTTTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
30 5 0.11
31 38 0.84
32 2 0.04
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.51
Consensus pattern (30 bp):
TTTCAATTTGATACTTGAATTTCATTTTAA
Found at i:2038233 original size:18 final size:18
Alignment explanation
Indices: 2038193--2038229 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
2038183 TAATAGTGAG
2038193 TTATTATAAAATATATTT
1 TTATTATAAAATATATTT
*
2038211 TTATTAT-AATTATATTT
1 TTATTATAAAATATATTT
2038228 TT
1 TT
2038230 TATTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATAAAATATATTT
Found at i:2038948 original size:21 final size:22
Alignment explanation
Indices: 2038923--2038982 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
2038913 TAACAAACAA
*
2038923 TATTATTTATTAT-ACATAGTT
1 TATTATTTATTATCAAATAGTT
*
2038944 TATTA-TTATTTTCAAATAGTT
1 TATTATTTATTATCAAATAGTT
*
2038965 TATTA-TTATTTTCAAATA
1 TATTATTTATTATCAAATA
2038983 TTAGAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.17
21 30 0.83
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (22 bp):
TATTATTTATTATCAAATAGTT
Found at i:2038953 original size:24 final size:21
Alignment explanation
Indices: 2038938--2038982 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
2038928 TTTATTATAC
2038938 ATAGTTTATTATTATTTTCAA
1 ATAGTTTATTATTATTTTCAA
2038959 ATAGTTTATTATTATTTTCAA
1 ATAGTTTATTATTATTTTCAA
2038980 ATA
1 ATA
2038983 TTAGAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
ATAGTTTATTATTATTTTCAA
Found at i:2039665 original size:20 final size:19
Alignment explanation
Indices: 2039615--2039667 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
2039605 ACTTCAGGGA
2039615 AAGTTTCGAAACTCTTGAG
1 AAGTTTCGAAACTCTTGAG
* *
2039634 ATAATTTCGAAACTGTTGCAG
1 A-AGTTTCGAAACTCTTG-AG
*
2039655 AAGTTTTGAAACT
1 AAGTTTCGAAACT
2039668 TCTGGTCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 24 0.86
21 3 0.11
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (19 bp):
AAGTTTCGAAACTCTTGAG
Found at i:2040214 original size:151 final size:152
Alignment explanation
Indices: 2039937--2040264 Score: 606
Period size: 151 Copynumber: 2.2 Consensus size: 152
2039927 AGTTCTACGA
2039937 TCTCCCCCTTTTTGATATAACAAAACCTTTGAAAAATCGTTTTTGGCAAAAGCTCTCCCTTAATA
1 TCTCCCCCTTTTTGATATAACAAAACCTTTGAAAAATCGTTTTTGGCAAAAGCTCTCCCTTAATA
*
2040002 AAACATTTAATGAAAAGAGGAATATTTTAGAGAATATTAAAGGTCCCCTTTTTCATCTCTTGAAA
66 AAACATTTAATGAAAAGAGGAATATTTTAGAGAATATTAAAGGTACCCTTTTTCATCTCTTGAAA
2040067 TTGAA-TTTTTAAACCTATACT
131 TTGAATTTTTTAAACCTATACT
2040088 TCTCCCCCTTTTTGATATAACAAAACCTTTGAAAAATCGTTTTTGGCAAAAGCTCTCCCTTAATA
1 TCTCCCCCTTTTTGATATAACAAAACCTTTGAAAAATCGTTTTTGGCAAAAGCTCTCCCTTAATA
2040153 AAACATTTAATGAAAAGAGGAATATTTTAGAGAATATTAAAGGTAACCCTTTTTCAT-TCTTGAA
66 AAACATTTAATGAAAAGAGGAATATTTTAGAGAATATTAAAGGT-ACCCTTTTTCATCTCTTGAA
2040217 ATTGAATTTTTTAAACCTATACT
130 ATTGAATTTTTTAAACCTATACT
* *
2040240 TCTCCCCCTTTTTGTTATATCAAAA
1 TCTCCCCCTTTTTGATATAACAAAA
2040265 ATAATTCAAA
Statistics
Matches: 172, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
151 122 0.71
152 50 0.29
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (152 bp):
TCTCCCCCTTTTTGATATAACAAAACCTTTGAAAAATCGTTTTTGGCAAAAGCTCTCCCTTAATA
AAACATTTAATGAAAAGAGGAATATTTTAGAGAATATTAAAGGTACCCTTTTTCATCTCTTGAAA
TTGAATTTTTTAAACCTATACT
Found at i:2042448 original size:19 final size:19
Alignment explanation
Indices: 2042400--2042454 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
2042390 CGTTAGAGCC
*
2042400 AAAGTATCGAAACTTTAGGG
1 AAAGTATCGAAACTTTA-GA
*
2042420 AAAGTTTCGAAACTCTT-GA
1 AAAGTATCGAAACT-TTAGA
2042439 AAAGTATCGAAACTTT
1 AAAGTATCGAAACTTT
2042455 TTGGACTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 2 0.06
19 14 0.45
20 13 0.42
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGAAACTTTAGA
Found at i:2043134 original size:22 final size:22
Alignment explanation
Indices: 2043104--2043155 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
2043094 TATGGTTGAG
*
2043104 TATATTATTATAATATTAAAAA
1 TATAATATTATAATATTAAAAA
* *
2043126 TATAATATTATATTATTAAAAT
1 TATAATATTATAATATTAAAAA
2043148 TATTAATA
1 TA-TAATA
2043156 AATATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATAATATTATAATATTAAAAA
Found at i:2043165 original size:14 final size:14
Alignment explanation
Indices: 2043124--2043170 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
2043114 TAATATTAAA
2043124 AATATAATATTATATT
1 AATA-AATA-TATATT
*
2043140 ATTAAA-AT-TATT
1 AATAAATATATATT
2043152 AATAAATATATATT
1 AATAAATATATATT
2043166 AATAA
1 AATAA
2043171 TTCATATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 9 0.33
13 3 0.11
14 10 0.37
15 2 0.07
16 3 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATAAATATATATT
Found at i:2043706 original size:59 final size:59
Alignment explanation
Indices: 2043587--2043749 Score: 179
Period size: 59 Copynumber: 2.7 Consensus size: 59
2043577 ACACTAATTT
* *
2043587 TAAATTAGTCCTTAAACTTTTGAATATTCAATTTCATCCCCAAAACATGACTATCATTC
1 TAAATTAGTCCTTAAACTTTTGAACATTCAATTTCATCCCCAAAACATGACTACCATTC
* * * * *
2043646 TACATTAGTCCTTAAACTTTTGAGCATTCTAATTTCAT-CCCTAAACTATGAC-CCCTTTC
1 TAAATTAGTCCTTAAACTTTTGAACATTC-AATTTCATCCCCAAAAC-ATGACTACCATTC
* * *
2043705 TAAATTAGT-CTCTAAACTTTTGAATATACCAGTTTCATCCCCAAA
1 TAAATTAGTCCT-TAAACTTTTGAACAT-TCAATTTCATCCCCAAA
2043750 TTCATCCAAA
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.02
59 65 0.76
60 19 0.22
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (59 bp):
TAAATTAGTCCTTAAACTTTTGAACATTCAATTTCATCCCCAAAACATGACTACCATTC
Found at i:2045812 original size:60 final size:60
Alignment explanation
Indices: 2045688--2045812 Score: 137
Period size: 60 Copynumber: 2.1 Consensus size: 60
2045678 AGATTGAAGG
* * * * * * *
2045688 TCATAGTTTGGGGATGAAATCAAAATATTTAAAAGTTTTAGGACCTACTTAGAATGATAG
1 TCATAGTCTAGGGATGAAATCAAAATATTTAAAAGTTTTAGGACCTAATTAAAATAAGAA
* *
2045748 TCATAGTCTAGGGATGAAATTAGAATATTTAAAAGTTTATA-GA-CTAAATTAAAATAAGAA
1 TCATAGTCTAGGGATGAAATCAAAATATTTAAAAGTTT-TAGGACCT-AATTAAAATAAGAA
2045808 TCATA
1 TCATA
2045813 CTTTGAGGAC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 2 0.04
60 50 0.93
61 2 0.04
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (60 bp):
TCATAGTCTAGGGATGAAATCAAAATATTTAAAAGTTTTAGGACCTAATTAAAATAAGAA
Found at i:2047967 original size:15 final size:16
Alignment explanation
Indices: 2047949--2047981 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2047939 TAAATTTCTT
*
2047949 TAAAATAAAGA-AAAA
1 TAAAAGAAAGATAAAA
2047964 TAAAAGAAAGATAAAA
1 TAAAAGAAAGATAAAA
2047980 TA
1 TA
2047982 CTCTTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
TAAAAGAAAGATAAAA
Found at i:2051172 original size:559 final size:559
Alignment explanation
Indices: 2050115--2051237 Score: 2228
Period size: 559 Copynumber: 2.0 Consensus size: 559
2050105 GGTACCATAT
2050115 GAATTGTAATGGTACTGTTCATGAGGTATCGATACTTTAAAAACAATATCAGTACTACTTGTCCA
1 GAATTGTAATGGTACTGTTCATGAGGTATCGATACTTTAAAAACAATATCAGTACTACTTGTCCA
2050180 GAAAATTGTTTTGTGCTCAATTACAAGCTTTAAGGACTTTGAATTATTTTTGAAAACTTTGAACA
66 GAAAATTGTTTTGTGCTCAATTACAAGCTTTAAGGACTTTGAATTATTTTTGAAAACTTTGAACA
2050245 AATTCAATTCAAGTCCAAAAACATTTTGCCTTAAATTGTTATATCAAAATATAGTTCAATAATCT
131 AATTCAATTCAAGTCCAAAAACATTTTGCCTTAAATTGTTATATCAAAATATAGTTCAATAATCT
2050310 CCCCCTTTTTGATATAACAAAACATTAAAAATTATTTTTGGCACAGCTCCCCTTAATAAAATATT
196 CCCCCTTTTTGATATAACAAAACATTAAAAATTATTTTTGGCACAGCTCCCCTTAATAAAATATT
2050375 TAATGAAAAAGATACCAATTGTTGGAAAAAGTAGGAAAAAGTTCAACTCCCCCTTTTTCATTAAG
261 TAATGAAAAAGATACCAATTGTTGGAAAAAGTAGGAAAAAGTTCAACTCCCCCTTTTTCATTAAG
2050440 AAATTGAGTTTTTCAAACCAATACTTCTCTCTCTTTTTGTTATATCAAATAGAATTCAACTTTAA
326 AAATTGAGTTTTTCAAACCAATACTTCTCTCTCTTTTTGTTATATCAAATAGAATTCAACTTTAA
2050505 AGTTCAAAAATAACTTAGGAGAGTAAGTGGTAATTTTTACATTAAAAACCATTTAAGAAAAAGCT
391 AGTTCAAAAATAACTTAGGAGAGTAAGTGGTAATTTTTACATTAAAAACCATTTAAGAAAAAGCT
2050570 CCCCCTCAAAAAGTGCATTCCAAACAAAAATTGACTTTAAAAACTTGACACTTAAACAAAATTGA
456 CCCCCTCAAAAAGTGCATTCCAAACAAAAATTGACTTTAAAAACTTGACACTTAAACAAAATTGA
2050635 ATATCAACAAAGAGTAACAAAAAAATGTTAGTAATACAA
521 ATATCAACAAAGAGTAACAAAAAAATGTTAGTAATACAA
2050674 GAATTGTAATGGTACTGTTCATGAGGTATCGATACTTTAAAAACAATATCAGTACTACTTGTCCA
1 GAATTGTAATGGTACTGTTCATGAGGTATCGATACTTTAAAAACAATATCAGTACTACTTGTCCA
*
2050739 GAAAATTGTTTTGTGCTCAATTACAAGCTTTAAGGACTTTGAATTATTTTTGAAGACTTTGAACA
66 GAAAATTGTTTTGTGCTCAATTACAAGCTTTAAGGACTTTGAATTATTTTTGAAAACTTTGAACA
2050804 AATTCAATTCAAGTCCAAAAACATTTTGCCTTAAATTGTTATATCAAAATATAGTTCAATAATCT
131 AATTCAATTCAAGTCCAAAAACATTTTGCCTTAAATTGTTATATCAAAATATAGTTCAATAATCT
2050869 CCCCCTTTTTGATATAACAAAACATTAAAAATTATTTTTGGCACAGCTCCCCTTAATAAAATATT
196 CCCCCTTTTTGATATAACAAAACATTAAAAATTATTTTTGGCACAGCTCCCCTTAATAAAATATT
2050934 TAATGAAAAAGATACCAATTGTTGGAAAAAGTAGGAAAAAGTTCAACTCCCCCTTTTTCATTAAG
261 TAATGAAAAAGATACCAATTGTTGGAAAAAGTAGGAAAAAGTTCAACTCCCCCTTTTTCATTAAG
2050999 AAATTGAGTTTTTCAAACCAATACTTCTCTCTCTTTTTGTTATATCAAATAGAATTCAACTTTAA
326 AAATTGAGTTTTTCAAACCAATACTTCTCTCTCTTTTTGTTATATCAAATAGAATTCAACTTTAA
2051064 AGTTCAAAAATAACTTAGGAGAGTAAGTGGTAATTTTTACATTAAAAACCATTTAAGAAAAAGCT
391 AGTTCAAAAATAACTTAGGAGAGTAAGTGGTAATTTTTACATTAAAAACCATTTAAGAAAAAGCT
2051129 CCCCCTCAAAAAGTGCATTCCAAACAAAAATTGACTTTAAAAACTTGACACTTAAACAAAATTGA
456 CCCCCTCAAAAAGTGCATTCCAAACAAAAATTGACTTTAAAAACTTGACACTTAAACAAAATTGA
*
2051194 ATATCAACAAAGAGTAACAAAAAAATGTTAGTAATACAT
521 ATATCAACAAAGAGTAACAAAAAAATGTTAGTAATACAA
2051233 GAATT
1 GAATT
2051238 TCAATATATC
Statistics
Matches: 562, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
559 562 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (559 bp):
GAATTGTAATGGTACTGTTCATGAGGTATCGATACTTTAAAAACAATATCAGTACTACTTGTCCA
GAAAATTGTTTTGTGCTCAATTACAAGCTTTAAGGACTTTGAATTATTTTTGAAAACTTTGAACA
AATTCAATTCAAGTCCAAAAACATTTTGCCTTAAATTGTTATATCAAAATATAGTTCAATAATCT
CCCCCTTTTTGATATAACAAAACATTAAAAATTATTTTTGGCACAGCTCCCCTTAATAAAATATT
TAATGAAAAAGATACCAATTGTTGGAAAAAGTAGGAAAAAGTTCAACTCCCCCTTTTTCATTAAG
AAATTGAGTTTTTCAAACCAATACTTCTCTCTCTTTTTGTTATATCAAATAGAATTCAACTTTAA
AGTTCAAAAATAACTTAGGAGAGTAAGTGGTAATTTTTACATTAAAAACCATTTAAGAAAAAGCT
CCCCCTCAAAAAGTGCATTCCAAACAAAAATTGACTTTAAAAACTTGACACTTAAACAAAATTGA
ATATCAACAAAGAGTAACAAAAAAATGTTAGTAATACAA
Found at i:2059195 original size:21 final size:21
Alignment explanation
Indices: 2059171--2059221 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
2059161 CTAGAGTACT
2059171 GATATTGCCAAGGGGAGTATC
1 GATATTGCCAAGGGGAGTATC
*
2059192 GATATTTCCAAGGGGAGTATC
1 GATATTGCCAAGGGGAGTATC
*
2059213 GATACTGCC
1 GATATTGCC
2059222 CCTGCAGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (21 bp):
GATATTGCCAAGGGGAGTATC
Found at i:2060611 original size:3 final size:3
Alignment explanation
Indices: 2060605--2060655 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
2060595 TTTACTCATT
* *
2060605 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2060653 TTA
1 TTA
2060656 AAAAAATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:2066004 original size:15 final size:15
Alignment explanation
Indices: 2065986--2066017 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2065976 ATCAATACTT
2065986 TTTTGCATACATACA
1 TTTTGCATACATACA
*
2066001 TTTTGCATACATTCA
1 TTTTGCATACATACA
2066016 TT
1 TT
2066018 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATACA
Found at i:2073336 original size:1 final size:1
Alignment explanation
Indices: 2073330--2073414 Score: 53
Period size: 1 Copynumber: 85.0 Consensus size: 1
2073320 ATGCTTGAAG
* * * ** * * * *
2073330 AAAAAAAAAGAAGAAAGAAAAGGAAAAAAAAAAAAAAAAAAAAAAGAGAAAAAAGAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
2073395 GAGAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAA
2073415 GGGGGGTCAA
Statistics
Matches: 60, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (1 bp):
A
Found at i:2073344 original size:13 final size:12
Alignment explanation
Indices: 2073330--2073415 Score: 93
Period size: 13 Copynumber: 6.8 Consensus size: 12
2073320 ATGCTTGAAG
2073330 AAAAAAAAAGAA
1 AAAAAAAAAGAA
* *
2073342 GAAAGAAAAGGAA
1 -AAAAAAAAAGAA
2073355 AAAAAAAAA-AA
1 AAAAAAAAAGAA
2073366 AAAAAAAAAGAGA
1 AAAAAAAAAGA-A
*
2073379 AAAAAGAAAGAA
1 AAAAAAAAAGAA
2073391 AAAAGAGAAAAGAA
1 AAAA-A-AAAAGAA
2073405 AAAAGAAAAAG
1 AAAA-AAAAAG
2073416 GGGGGTCAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
11 11 0.17
12 13 0.21
13 27 0.43
14 12 0.19
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:2073348 original size:7 final size:6
Alignment explanation
Indices: 2073330--2073415 Score: 70
Period size: 6 Copynumber: 13.8 Consensus size: 6
2073320 ATGCTTGAAG
* * *
2073330 AAAA-A AAAAGA AGAAAGA AAAGGA AAAA-A AAAAAA AAAAAA AAAAGA
1 AAAAGA AAAAGA A-AAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
2073377 GAAAA-A AGAAAGAA AAAAGA GAAAAGAA AAAAGA AAAAG
1 -AAAAGA A-AAAG-A AAAAGA -AAAAG-A AAAAGA AAAAG
2073416 GGGGGTCAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
5 10 0.14
6 32 0.46
7 24 0.35
8 3 0.04
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:2073380 original size:25 final size:25
Alignment explanation
Indices: 2073330--2073414 Score: 84
Period size: 24 Copynumber: 3.4 Consensus size: 25
2073320 ATGCTTGAAG
* * *
2073330 AAAAAAAAAGAAGAAAGAAAAG-GA
1 AAAAAAAAAAAAAAAAAAAAAGAGA
2073354 AAAAAAAAAAAAAAAAAAAAAGAGA
1 AAAAAAAAAAAAAAAAAAAAAGAGA
* * *
2073379 AAAAAGAAAGAAAAAAGAGAAA-AGA
1 AAAAA-AAAAAAAAAAAAAAAAGAGA
*
2073404 AAAAAGAAAAA
1 AAAAAAAAAAA
2073415 GGGGGGTCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 23 0.45
25 15 0.29
26 13 0.25
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAAAAAAAAAAAAAGAGA
Found at i:2075213 original size:92 final size:92
Alignment explanation
Indices: 2074672--2075206 Score: 982
Period size: 92 Copynumber: 5.8 Consensus size: 92
2074662 AGAAGACCCA
*
2074672 ATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
2074737 CATTGAATTTGGAAGATAAATGTGCTC
66 CATTGAATTTGGAAGATAAATGTGCTC
*
2074764 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGTACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
2074829 CATTGAATTTGGAAGATAAATGTGCTC
66 CATTGAATTTGGAAGATAAATGTGCTC
*
2074856 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGAATGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
2074921 CATTGAATTTGGAAGATAAATGTGCTC
66 CATTGAATTTGGAAGATAAATGTGCTC
*
2074948 ATAGCATCTTCTGGAAGTGGTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
2075013 CATTGAATTTGGAAGATAAATGTGCTC
66 CATTGAATTTGGAAGATAAATGTGCTC
2075040 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
2075105 CATTGAATTTGGAAGATAAATGTGCTC
66 CATTGAATTTGGAAGATAAATGTGCTC
* * *
2075132 ATAGCATCTTCTGGAAGTGTTCTTT-ATATTATCTGATCTGGTTCGGTAGGAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGA-GTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
2075196 TCATTGGAATT
65 TCATT-GAATT
2075207 AAAAGATGAA
Statistics
Matches: 431, Mismatches: 10, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
91 1 0.00
92 425 0.99
93 5 0.01
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (92 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
CATTGAATTTGGAAGATAAATGTGCTC
Found at i:2076095 original size:113 final size:113
Alignment explanation
Indices: 2075897--2077027 Score: 1696
Period size: 113 Copynumber: 10.0 Consensus size: 113
2075887 TAGCAAAGAT
* * *
2075897 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAATAATTCATCTGA
1 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
*
2075962 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCATTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
*
2076010 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
*
2076075 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
*
2076123 TCAAATTCATCACTTGATGGATCAGTTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
2076188 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
2076236 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
2076301 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
*
2076349 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
* * *
2076414 AAAAGAAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
*
2076462 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTAA
1 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
2076527 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
*
2076575 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
* *
2076640 AGAAGGAAGAAAAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
*
2076688 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCAAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
* **
2076753 AGAAGGAAGAA-AAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTAT
66 AGAAGGAAGAAGAAA-TTCATAATGAGAAGAATTTGTTTAACCTTTTGC
* * * **** *
2076801 TCATATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTT-ATCTG
1 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAA-TTCATCTG
* * * *** * *
2076865 AAG-AGAAAGAAGAAGTTCACAATGAGAAGAGCCTGTTCAACCTTTTAC
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
* * * * **** *
2076913 AT-AATTTTATCACATAT-ATGTTAGCATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACT
1 -TCAAATTCATCAC-T-TGATG---G-ATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATT
* * * * * *
2076976 CATCTGAAAAAGAAAGAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTT
59 CATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTT
2077028 GGAATGACTC
Statistics
Matches: 956, Mismatches: 50, Indels: 19
0.93 0.05 0.02
Matches are distributed among these distances:
112 46 0.05
113 826 0.86
114 3 0.00
116 2 0.00
117 41 0.04
118 38 0.04
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (113 bp):
TCAAATTCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
Found at i:2076102 original size:24 final size:23
Alignment explanation
Indices: 2076059--2076103 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
2076049 GTTCATAATG
*
2076059 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
2076082 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
2076104 AATTTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:2076215 original size:24 final size:23
Alignment explanation
Indices: 2076172--2076216 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
2076162 GTTCATAATG
*
2076172 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
2076195 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
2076217 AATTTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:2076328 original size:24 final size:23
Alignment explanation
Indices: 2076285--2076329 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
2076275 GTTCATAATG
*
2076285 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
2076308 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
2076330 AATTTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:2077265 original size:3 final size:3
Alignment explanation
Indices: 2077259--2077309 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
2077249 TTTACTCATT
*
2077259 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2077307 TTA
1 TTA
2077310 AAAAATAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2081074 original size:27 final size:27
Alignment explanation
Indices: 2081021--2081074 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
2081011 AAATCGAGTG
*
2081021 GAGTTAAACATTTTTATTTATTTATTT
1 GAGTTAAACATTTTTATTTATTAATTT
2081048 GAGTTGAAA-ATTTTTATTT-TATAATTT
1 GAGTT-AAACATTTTTATTTAT-TAATTT
2081075 AAATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 1 0.04
27 20 0.83
28 3 0.12
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.57
Consensus pattern (27 bp):
GAGTTAAACATTTTTATTTATTAATTT
Found at i:2082217 original size:49 final size:49
Alignment explanation
Indices: 2082145--2082255 Score: 204
Period size: 49 Copynumber: 2.3 Consensus size: 49
2082135 GTCATATAAA
2082145 GAAAGGCGCAGATGGCGATATGCACTTTCGCAGGGTTTCTGACACGTAC
1 GAAAGGCGCAGATGGCGATATGCACTTTCGCAGGGTTTCTGACACGTAC
*
2082194 GAAAGGCGCAGATGGCTATATGCACTTTCGCAGGGTTTCTGACACGTAC
1 GAAAGGCGCAGATGGCGATATGCACTTTCGCAGGGTTTCTGACACGTAC
*
2082243 GGAAGGCGCAGAT
1 GAAAGGCGCAGAT
2082256 AATGATCCGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.22
Consensus pattern (49 bp):
GAAAGGCGCAGATGGCGATATGCACTTTCGCAGGGTTTCTGACACGTAC
Found at i:2085782 original size:17 final size:18
Alignment explanation
Indices: 2085749--2085797 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
2085739 AGAAAACAAT
2085749 ACAACTCAAACAATAAAA
1 ACAACTCAAACAATAAAA
*
2085767 ACAACT-AAATAATAAAA
1 ACAACTCAAACAATAAAA
* *
2085784 ACAATTCGAACAAT
1 ACAACTCAAACAAT
2085798 TAAATAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.63, C:0.18, G:0.02, T:0.16
Consensus pattern (18 bp):
ACAACTCAAACAATAAAA
Found at i:2085785 original size:26 final size:26
Alignment explanation
Indices: 2085756--2085832 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
2085746 AATACAACTC
*
2085756 AAACAATAAAAACAACTAAATAATAA
1 AAACAATAAAAACAAATAAATAATAA
*** *
2085782 AAACAATTCGAACAATTAAATAATAA
1 AAACAATAAAAACAAATAAATAATAA
*
2085808 AAACATTAACAAACCAAATAAATAA
1 AAACAATAA-AAA-CAAATAAATAA
2085833 AAAGTTCATA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 28 0.70
27 2 0.05
28 10 0.25
ACGTcount: A:0.68, C:0.13, G:0.01, T:0.18
Consensus pattern (26 bp):
AAACAATAAAAACAAATAAATAATAA
Found at i:2086724 original size:77 final size:77
Alignment explanation
Indices: 2086597--2086757 Score: 313
Period size: 77 Copynumber: 2.1 Consensus size: 77
2086587 TTGAACCACT
*
2086597 CATAATAATAATCCACAACCTAGTAATGATCCACATAAATAGGCTTTGTACGGGGAATACACCCA
1 CATAACAATAATCCACAACCTAGTAATGATCCACATAAATAGGCTTTGTACGGGGAATACACCCA
2086662 TGTCGATCCTCC
66 TGTCGATCCTCC
2086674 CATAACAATAATCCACAACCTAGTAATGATCCACATAAATAGGCTTTGTACGGGGAATACACCCA
1 CATAACAATAATCCACAACCTAGTAATGATCCACATAAATAGGCTTTGTACGGGGAATACACCCA
2086739 TGTCGATCCTCC
66 TGTCGATCCTCC
2086751 CATAACA
1 CATAACA
2086758 TTACCCACTC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 83 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.24
Consensus pattern (77 bp):
CATAACAATAATCCACAACCTAGTAATGATCCACATAAATAGGCTTTGTACGGGGAATACACCCA
TGTCGATCCTCC
Found at i:2087089 original size:2 final size:2
Alignment explanation
Indices: 2087027--2087077 Score: 93
Period size: 2 Copynumber: 25.0 Consensus size: 2
2087017 ACTAAAACAA
2087027 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
2087070 AT AT AT AT
1 AT AT AT AT
2087078 TCTAATTATA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 46 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2090488 original size:65 final size:65
Alignment explanation
Indices: 2090416--2090575 Score: 236
Period size: 65 Copynumber: 2.5 Consensus size: 65
2090406 GAATAAATTG
* *
2090416 AACATCGAATGCATTTTATGCATCGATGCACAAACCATGCATCAATGCACTCA-G-TTTTTTATG
1 AACATCGAATGCATTTTATGCATCGATGCACAAACCATGCATCAATACACTCAGGCTATTTTA--
2090479 AA
64 AA
* *
2090481 AACATCGAATGCATTTTATGCATCGATGCACAAGCCATGCATCGATACACTCAGGCTATTTTAAA
1 AACATCGAATGCATTTTATGCATCGATGCACAAACCATGCATCAATACACTCAGGCTATTTTAAA
*
2090546 AA-ATCGAATGCATTTTATGCATCAATGCAC
1 AACATCGAATGCATTTTATGCATCGATGCAC
2090576 TCTTAGTGCA
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
64 27 0.31
65 54 0.61
66 1 0.01
67 6 0.07
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (65 bp):
AACATCGAATGCATTTTATGCATCGATGCACAAACCATGCATCAATACACTCAGGCTATTTTAAA
Found at i:2100158 original size:15 final size:15
Alignment explanation
Indices: 2100138--2100207 Score: 77
Period size: 15 Copynumber: 4.7 Consensus size: 15
2100128 TTGCACTCAC
*
2100138 AGTATTGATAGTCGT
1 AGTATTGATACTCGT
**
2100153 AGTATTGATACTCCC
1 AGTATTGATACTCGT
* * *
2100168 AATATTGGTACTCAT
1 AGTATTGATACTCGT
*
2100183 AGTATTGGTACTCGT
1 AGTATTGATACTCGT
2100198 AGTATTGATA
1 AGTATTGATA
2100208 TTGCATGGGC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.39
Consensus pattern (15 bp):
AGTATTGATACTCGT
Found at i:2100805 original size:11 final size:12
Alignment explanation
Indices: 2100778--2100822 Score: 56
Period size: 11 Copynumber: 3.6 Consensus size: 12
2100768 GGTTACTTAG
2100778 AGAAGATGAAGGA
1 AGAAGATGAA-GA
2100791 AGAAGAAATGAAGA
1 AGAAG--ATGAAGA
2100805 AGAAGATGAAG-
1 AGAAGATGAAGA
2100816 AGAAGAT
1 AGAAGAT
2100823 AAATGGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 7 0.23
12 6 0.20
13 5 0.17
14 7 0.23
15 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (12 bp):
AGAAGATGAAGA
Found at i:2103481 original size:161 final size:161
Alignment explanation
Indices: 2103177--2103491 Score: 431
Period size: 161 Copynumber: 2.0 Consensus size: 161
2103167 TAAATTTTAC
** *
2103177 CAAATTTGAACCACATGCTTTTAAACCATAGTAGAATACACTGTGCACTTTCAATTCCTTTCTTT
1 CAAATTTGAACCACATGCTCCTAAACCATAGTAGAATACACTGTGCACTTTCAATTCCTTTCTAT
* * **
2103242 GATAACAACTTTTTATTTTTCAATTTAGTCTTTCAATTTTTCATAATCTCCTTATTTGTTCAATT
66 GATAACAACTTTTTATTTTTCAATTTAGTCCTTCAATTTTTCATAATCTCATTATTCCTTCAATT
*
2103307 CGTCATTTATTTTAAGTCCATTTTTTTATAT
131 CATCATTTATTTTAAGTCCATTTTTTTATAT
* * * *
2103338 CAAATTTGAGCCTCATGCTCCTAAACTATAGTAGAATACA-TGTGTACTTTCAATTCCTCTT-TA
1 CAAATTTGAACCACATGCTCCTAAACCATAGTAGAATACACTGTGCACTTTCAATTCCT-TTCTA
*
2103401 TGATAACAAATTTTTTATTTTT-AATTTAGTCCTTCAATTTTTCATAATCTCATTATTCCTTCAA
65 TGATAAC-AACTTTTTATTTTTCAATTTAGTCCTTCAATTTTTCATAATCTCATTATTCCTTC--
* *
2103465 AATT-ATGATTTATTTTAAGTCTATTTT
127 AATTCATCATTTATTTTAAGTCCATTTT
2103492 ACCAAATTTA
Statistics
Matches: 135, Mismatches: 15, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
160 61 0.45
161 70 0.52
162 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.07, T:0.47
Consensus pattern (161 bp):
CAAATTTGAACCACATGCTCCTAAACCATAGTAGAATACACTGTGCACTTTCAATTCCTTTCTAT
GATAACAACTTTTTATTTTTCAATTTAGTCCTTCAATTTTTCATAATCTCATTATTCCTTCAATT
CATCATTTATTTTAAGTCCATTTTTTTATAT
Found at i:2103799 original size:2 final size:2
Alignment explanation
Indices: 2103792--2103817 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2103782 ATATGAAAGA
2103792 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2103818 TATGGTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2104728 original size:19 final size:18
Alignment explanation
Indices: 2104706--2104763 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 18
2104696 AAATAATACA
2104706 ACATTCCTATAATAATGAT
1 ACATTCC-ATAATAATGAT
2104725 ACATT-C-TAATAAT-AT
1 ACATTCCATAATAATGAT
* *
2104740 -TATTCCCATAATAATGTT
1 ACATT-CCATAATAATGAT
2104758 ACATTC
1 ACATTC
2104764 TAATATCGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 11
0.69 0.07 0.24
Matches are distributed among these distances:
14 3 0.10
15 2 0.06
16 8 0.26
17 7 0.23
18 3 0.10
19 8 0.26
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (18 bp):
ACATTCCATAATAATGAT
Found at i:2104768 original size:30 final size:31
Alignment explanation
Indices: 2104708--2104769 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
2104698 ATAATACAAC
*
2104708 ATTCCTATAATAATGATACATTCTAATAATATT
1 ATTCCCATAATAATGATACATTC--ATAATATT
*
2104741 ATTCCCATAATAATGTTACATTC-TAATAT
1 ATTCCCATAATAATGATACATTCATAATAT
2104770 CGTTATTCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 6 0.22
33 21 0.78
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.42
Consensus pattern (31 bp):
ATTCCCATAATAATGATACATTCATAATATT
Found at i:2105004 original size:2 final size:2
Alignment explanation
Indices: 2104997--2105027 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2104987 AGACAATCAG
2104997 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2105028 TTGTTTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2114424 original size:16 final size:17
Alignment explanation
Indices: 2114386--2114454 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 17
2114376 AAGATAAATG
2114386 ATTAT-TTTAAATATAAT
1 ATTATATTT-AATATAAT
2114403 ATTATAATTTAATA-AAT
1 ATTAT-ATTTAATATAAT
2114420 A-TATATTTAA-ATAAT
1 ATTATATTTAATATAAT
*
2114435 ATT-TATTT--TTTAAT
1 ATTATATTTAATATAAT
2114449 ATTATA
1 ATTATA
2114455 ATATATAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
14 8 0.18
15 17 0.38
16 4 0.09
17 9 0.20
18 4 0.09
19 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTATATTTAATATAAT
Found at i:2117444 original size:16 final size:16
Alignment explanation
Indices: 2117423--2117454 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2117413 AACTCCTATA
2117423 GGGATTGCCTCGACAT
1 GGGATTGCCTCGACAT
2117439 GGGATTGCCTCGACAT
1 GGGATTGCCTCGACAT
2117455 CTGAGGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (16 bp):
GGGATTGCCTCGACAT
Found at i:2118437 original size:22 final size:22
Alignment explanation
Indices: 2118409--2118450 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2118399 TGACCATTGG
*
2118409 CCGGTGAGACCGTTGACTTTAA
1 CCGGTGAGACCGTTAACTTTAA
2118431 CCGGTGAGACCGTTAACTTT
1 CCGGTGAGACCGTTAACTTT
2118451 GTCTTTGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (22 bp):
CCGGTGAGACCGTTAACTTTAA
Found at i:2120297 original size:97 final size:97
Alignment explanation
Indices: 2120127--2120321 Score: 270
Period size: 97 Copynumber: 2.0 Consensus size: 97
2120117 AATTTTTTGG
* * *
2120127 TTTATGAAATATGGTTACCTGAAATGTGTTATCGTGTTTCTTGTTTTCACTAGAAATTATGATCG
1 TTTATGAAATATGGTTACCTGAAATATGTTATCGTGTTTCCTGTTTTCACTAGAAAATATGATCG
*
2120192 TTCATGATTTATAGATCATGGAACCTACTGGT
66 TTCATGATTTATAGATCATGAAACCTACTGGT
* *
2120224 TTTAT-AAACTATGGTTACCTGAAATATGTTATCG-GCTTTCCTGTTTTCACTGGAAAATATTAT
1 TTTATGAAA-TATGGTTACCTGAAATATGTTATCGTG-TTTCCTGTTTTCACTAGAAAATATGAT
* *
2120287 CGTT-ATTGATTTATGGATCATGAAATCTACTGGT
64 CGTTCA-TGATTTATAGATCATGAAACCTACTGGT
2120321 T
1 T
2120322 AATACTTGAA
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
96 5 0.06
97 82 0.94
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (97 bp):
TTTATGAAATATGGTTACCTGAAATATGTTATCGTGTTTCCTGTTTTCACTAGAAAATATGATCG
TTCATGATTTATAGATCATGAAACCTACTGGT
Found at i:2120876 original size:2 final size:2
Alignment explanation
Indices: 2120869--2120900 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2120859 TTTTAAAAAG
2120869 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2120901 CTTTTCATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2131915 original size:31 final size:31
Alignment explanation
Indices: 2131880--2131988 Score: 146
Period size: 31 Copynumber: 3.5 Consensus size: 31
2131870 ACCTATGTCC
* *
2131880 TTCGGGACATATGGATAATTTAACTATGTTA
1 TTCGGGACATATGGACAGTTTAACTATGTTA
*
2131911 TTCGGGACATATGGACAGTTTAACTATGTCA
1 TTCGGGACATATGGACAGTTTAACTATGTTA
* *
2131942 TTCGGGACATATGGACAGTGTTACCTATGTTC
1 TTCGGGACATATGGACAGT-TTAACTATGTTA
**
2131974 TTCGAAACATATGGA
1 TTCGGGACATATGGA
2131989 TAGGTCCTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
31 47 0.68
32 22 0.32
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (31 bp):
TTCGGGACATATGGACAGTTTAACTATGTTA
Found at i:2141588 original size:23 final size:22
Alignment explanation
Indices: 2141558--2141672 Score: 94
Period size: 23 Copynumber: 5.2 Consensus size: 22
2141548 TCATTCGGGA
*
2141558 CAAA-TATGTGGCACTTTGGTG
1 CAAACTATGTGGCACTTCGGTG
2141579 CAAACCTATGTGGCACTTCGGTG
1 CAAA-CTATGTGGCACTTCGGTG
* * *
2141602 CAAATCTACGTGGTAGTTCGGTG
1 CAAA-CTATGTGGCACTTCGGTG
*
2141625 TAAAACTATGTGGTC-CTTCAGG-G
1 -CAAACTATGTGG-CACTTC-GGTG
* *
2141648 C-AATTATGTGGCACTTTGGTG
1 CAAACTATGTGGCACTTCGGTG
2141669 CAAA
1 CAAA
2141673 TTACAAGATG
Statistics
Matches: 74, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
20 3 0.04
21 18 0.24
22 2 0.03
23 46 0.62
24 5 0.07
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (22 bp):
CAAACTATGTGGCACTTCGGTG
Found at i:2142178 original size:20 final size:20
Alignment explanation
Indices: 2142153--2142195 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
2142143 GAAATGATTA
2142153 TCTTATTTAAATTAAGGTTT
1 TCTTATTTAAATTAAGGTTT
2142173 TCTTATTTAAATTAAGGTTT
1 TCTTATTTAAATTAAGGTTT
2142193 TCT
1 TCT
2142196 ATCTTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (20 bp):
TCTTATTTAAATTAAGGTTT
Found at i:2147123 original size:21 final size:20
Alignment explanation
Indices: 2147098--2147136 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2147088 AGAATATAAA
*
2147098 AAATTAATTGAATTGAGATTT
1 AAATTAAATGAATT-AGATTT
2147119 AAATTAAATGAATTAGAT
1 AAATTAAATGAATTAGAT
2147137 AAGGACCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
AAATTAAATGAATTAGATTT
Found at i:2149125 original size:41 final size:41
Alignment explanation
Indices: 2148993--2149358 Score: 216
Period size: 41 Copynumber: 9.0 Consensus size: 41
2148983 TATTATATTC
* * * *
2148993 TACCTTGATTGAATTGAATCGAATGTTGAATTATTGCATGC
1 TACCATGATTGAATTGAATTGAATGATGAATTATTGCATGT
** ** ** * * **
2149034 TACCATGATCAAATCAAATTGAGGGATAAACTATTATAT-T
1 TACCATGATTGAATTGAATTGAATGATGAATTATTGCATGT
* * **
2149074 CTACCTTGATTGAATTGAATTGAATGTTGAATTATTTTATGT
1 -TACCATGATTGAATTGAATTGAATGATGAATTATTGCATGT
* *
2149116 TACCATGATTGAA-TCAAGTTGATTGATG-ATCTATTGCATGT
1 TACCATGATTGAATTGAA-TTGAATGATGAAT-TATTGCATGT
* * ** *
2149157 TATCATGATGGAATCAAATTGAATGATGAA-CA-T--ATGT
1 TACCATGATTGAATTGAATTGAATGATGAATTATTGCATGT
* * * * *
2149194 TATCTTGATTGAATTGAATCGAATGGTGAATTATTGCATGC
1 TACCATGATTGAATTGAATTGAATGATGAATTATTGCATGT
* * *
2149235 TACCATGATCGAA-TCAATTTGAATGAT-AATCTATTGCATGC
1 TACCATGATTGAATTGAA-TTGAATGATGAAT-TATTGCATGT
* * *
2149276 TACCATGA-TCAAATCAAGTTGAATGATG-ATATATTGCATGT
1 TACCATGATTGAATTGAA-TTGAATGATGAAT-TATTGCATGT
* * * *
2149317 TACCATGATCGAA-TCAAGTTGAATGATGAACTATTACATGT
1 TACCATGATTGAATTGAA-TTGAATGATGAATTATTGCATGT
2149358 T
1 T
2149359 GCCAAGATCA
Statistics
Matches: 249, Mismatches: 60, Indels: 32
0.73 0.18 0.09
Matches are distributed among these distances:
37 28 0.11
38 1 0.00
39 2 0.01
40 14 0.06
41 197 0.79
42 7 0.03
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (41 bp):
TACCATGATTGAATTGAATTGAATGATGAATTATTGCATGT
Found at i:2149150 original size:82 final size:82
Alignment explanation
Indices: 2148859--2149124 Score: 279
Period size: 82 Copynumber: 3.2 Consensus size: 82
2148849 GATAAATTGG
* ** * * * ** *
2148859 TTATTGCATGCTAGCATGATTGAATCCAATTG-GATGATGAACTATTATATGATACATTGATTGA
1 TTATTGCATGCTACCATGATCAAATCAAATTGAG-GGATAAACTATTATATTCTACCTTGATTGA
* ** **
2148923 ATTAAATAAAATGACG-A
65 ATTGAATCGAATGTTGAA
* * *
2148940 TCTTTTGCATGCTACCATGAT-AGAATCAAATAT-AAGGATAAAATATTATATTCTACCTTGATT
1 T-TATTGCATGCTACCATGATCA-AATCAAAT-TGAGGGATAAACTATTATATTCTACCTTGATT
2149003 GAATTGAATCGAATGTTGAA
63 GAATTGAATCGAATGTTGAA
2149023 TTATTGCATGCTACCATGATCAAATCAAATTGAGGGATAAACTATTATATTCTACCTTGATTGAA
1 TTATTGCATGCTACCATGATCAAATCAAATTGAGGGATAAACTATTATATTCTACCTTGATTGAA
*
2149088 TTGAATTGAATGTTGAA
66 TTGAATCGAATGTTGAA
** *
2149105 TTATTTTATGTTACCATGAT
1 TTATTGCATGCTACCATGAT
2149125 TGAATCAAGT
Statistics
Matches: 155, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
81 2 0.01
82 149 0.96
83 4 0.03
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (82 bp):
TTATTGCATGCTACCATGATCAAATCAAATTGAGGGATAAACTATTATATTCTACCTTGATTGAA
TTGAATCGAATGTTGAA
Found at i:2149194 original size:37 final size:39
Alignment explanation
Indices: 2148873--2149352 Score: 169
Period size: 41 Copynumber: 11.8 Consensus size: 39
2148863 TGCATGCTAG
* * * *
2148873 CATGATTGAATCCAATTGGATGATGAACTATTATATGAT
1 CATGATTGAATCAAATTGAATGATGAACTATTATGTTAT
* ** * * * * *
2148912 ACATTGATTGAATTAAATAAAATGACGATCTTTTGCATGCTAC
1 -CA-TGATTGAATCAAATTGAATGATGAACTATT--ATGTTAT
* * * * * *
2148955 CATGATAGAATCAAATAT-AAGGATAAAATATTATATTCTAC
1 CATGATTGAATCAAAT-TGAATGATGAACTATTAT-GT-TAT
* ** * * * * *
2148996 CTTGATTGAATTGAATCGAATGTTGAATTATTGCATGCTAC
1 CATGATTGAATCAAATTGAATGATGAACTATT--ATGTTAT
** ** * * *
2149037 CATGATCAAATCAAATTGAGGGATAAACTATTATATTCTAC
1 CATGATTGAATCAAATTGAATGATGAACTATTAT-GT-TAT
* ** * * *
2149078 CTTGATTGAATTGAATTGAATGTTGAATTATTTTATGTTAC
1 CATGATTGAATCAAATTGAATGATGAACTA--TTATGTTAT
* * *
2149119 CATGATTGAATCAAGTTGATTGATGATCTATTGCATGTTAT
1 CATGATTGAATCAAATTGAATGATGAACTATT--ATGTTAT
*
2149160 CATGATGGAATCAAATTGAATGATGAAC-A-TATGTTAT
1 CATGATTGAATCAAATTGAATGATGAACTATTATGTTAT
* ** * * * * *
2149197 CTTGATTGAATTGAATCGAATGGTGAATTATTGCATGCTAC
1 CATGATTGAATCAAATTGAATGATGAACTATT--ATGTTAT
* * * *
2149238 CATGATCGAATCAATTTGAATGAT-AATCTATTGCATGCTAC
1 CATGATTGAATCAAATTGAATGATGAA-CTATT--ATGTTAT
** * *
2149279 CATGATCAAATCAAGTTGAATGATGATA-TATTGCATGTTAC
1 CATGATTGAATCAAATTGAATGATGA-ACTATT--ATGTTAT
* *
2149320 CATGATCGAATCAAGTTGAATGATGAACTATTA
1 CATGATTGAATCAAATTGAATGATGAACTATTA
2149353 CATGTTGCCA
Statistics
Matches: 325, Mismatches: 92, Indels: 47
0.70 0.20 0.10
Matches are distributed among these distances:
37 28 0.09
38 1 0.00
39 9 0.03
40 6 0.02
41 267 0.82
42 4 0.01
43 10 0.03
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (39 bp):
CATGATTGAATCAAATTGAATGATGAACTATTATGTTAT
Found at i:2149231 original size:201 final size:201
Alignment explanation
Indices: 2148996--2149358 Score: 514
Period size: 201 Copynumber: 1.8 Consensus size: 201
2148986 TATATTCTAC
* *
2148996 CTTGATTGAATTGAATCGAATGTTGAATTATTGCATGCTACCATGATCAAATCAAATTGAGGGAT
1 CTTGATTGAATTGAATCGAATGGTGAATTATTGCATGCTACCATGATCAAATCAAATTGAAGGAT
* * * * * * * **
2149061 AAACTATTATATTCTACCTTGATTGAATTGAA-TTGAATGTTGA-ATTATTTTATGTTACCATGA
66 AAACTATTACATGCTACCATGA-TCAAATCAAGTTGAATGATGATA-TATTGCATGTTACCATGA
* * * *
2149124 TTGAATCAAGTTGATTGATGATCTATTGCATGTTATCATGATGGAATCAAATTGAATGATGAACA
129 TCGAATCAAGTTGAATGATGAACTATTACATGTTATCATGATGGAATCAAATTGAATGATGAACA
2149189 TATGTTAT
194 TATGTTAT
* * *
2149197 CTTGATTGAATTGAATCGAATGGTGAATTATTGCATGCTACCATGATCGAATCAATTTGAATGAT
1 CTTGATTGAATTGAATCGAATGGTGAATTATTGCATGCTACCATGATCAAATCAAATTGAAGGAT
* *
2149262 AATCTATTGCATGCTACCATGATCAAATCAAGTTGAATGATGATATATTGCATGTTACCATGATC
66 AAACTATTACATGCTACCATGATCAAATCAAGTTGAATGATGATATATTGCATGTTACCATGATC
2149327 GAATCAAGTTGAATGATGAACTATTACATGTT
131 GAATCAAGTTGAATGATGAACTATTACATGTT
2149359 GCCAAGATCA
Statistics
Matches: 140, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
200 6 0.04
201 133 0.95
202 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (201 bp):
CTTGATTGAATTGAATCGAATGGTGAATTATTGCATGCTACCATGATCAAATCAAATTGAAGGAT
AAACTATTACATGCTACCATGATCAAATCAAGTTGAATGATGATATATTGCATGTTACCATGATC
GAATCAAGTTGAATGATGAACTATTACATGTTATCATGATGGAATCAAATTGAATGATGAACATA
TGTTAT
Found at i:2149239 original size:119 final size:119
Alignment explanation
Indices: 2149024--2149304 Score: 355
Period size: 119 Copynumber: 2.3 Consensus size: 119
2149014 AATGTTGAAT
** * * *
2149024 TATTGCATGCTACCATGATCAAATCAAATTGAGGGATAAACTATTATATTCTACCTTGATTGAAT
1 TATTGCATGCTACCATGATCAAATCAAATTGAATGATGAAC-A-TAT-GT-TATCTTGATTGAAT
* * ** * * * *
2149089 TGAATTGAATGTTGAATTATTTTATGTTACCATGATTGAATCAAGTTGATTGATGATC
62 TGAATCGAATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATAATC
* * **
2149147 TATTGCATGTTATCATGATGGAATCAAATTGAATGATGAACATATGTTATCTTGATTGAATTGAA
1 TATTGCATGCTACCATGATCAAATCAAATTGAATGATGAACATATGTTATCTTGATTGAATTGAA
*
2149212 TCGAATGGTGAATTATTGCATGCTACCATGATCGAATCAATTTGAATGATAATC
66 TCGAATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATAATC
*
2149266 TATTGCATGCTACCATGATCAAATCAAGTTGAATGATGA
1 TATTGCATGCTACCATGATCAAATCAAATTGAATGATGA
2149305 TATATTGCAT
Statistics
Matches: 135, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
119 96 0.71
120 1 0.01
121 3 0.02
122 1 0.01
123 34 0.25
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (119 bp):
TATTGCATGCTACCATGATCAAATCAAATTGAATGATGAACATATGTTATCTTGATTGAATTGAA
TCGAATGGTGAATTATTGCATGCTACCATGATCGAATCAAGTTGAATGATAATC
Found at i:2149368 original size:82 final size:81
Alignment explanation
Indices: 2149091--2149370 Score: 266
Period size: 82 Copynumber: 3.5 Consensus size: 81
2149081 GATTGAATTG
* * * ** * *
2149091 AATTGAATGTTGAATTATTTTATGTTACCATGATTGAATCAAGTTGATTGATGATCTATTGCATG
1 AATTGAATGATGAACTA-TTCATGTTACCATGATCAAATCAAGTTGAATGATGATATATTGCATG
* *
2149156 TTATCATGATGGAATCA
65 TTACCATGATCGAATCA
* * * * * * *
2149173 AATTGAATGATGAAC-A-T-ATGTTATCTTGATTGAATTGAA-TCGAATGGTGA-ATTATTGCAT
1 AATTGAATGATGAACTATTCATGTTACCATGA-TCAAATCAAGTTGAATGATGATA-TATTGCAT
*
2149233 GCTACCATGATCGAATCA
64 GTTACCATGATCGAATCA
* *
2149251 ATTTGAATGAT-AATCTATTGCATGCTACCATGATCAAATCAAGTTGAATGATGATATATTGCAT
1 AATTGAATGATGAA-CTATT-CATGTTACCATGATCAAATCAAGTTGAATGATGATATATTGCAT
2149315 GTTACCATGATCGAATCA
64 GTTACCATGATCGAATCA
* * *
2149333 AGTTGAATGATGAACTATTACATGTTGCCAAGATCAAA
1 AATTGAATGATGAACTATT-CATGTTACCATGATCAAA
2149371 CTCGATTGAT
Statistics
Matches: 158, Mismatches: 30, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
77 2 0.01
78 52 0.33
79 7 0.04
80 1 0.01
81 7 0.04
82 86 0.54
83 3 0.02
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (81 bp):
AATTGAATGATGAACTATTCATGTTACCATGATCAAATCAAGTTGAATGATGATATATTGCATGT
TACCATGATCGAATCA
Found at i:2154826 original size:23 final size:24
Alignment explanation
Indices: 2154795--2154844 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
2154785 CCTTTGGGAC
* *
2154795 ATTTCTACGTGGCACTTTGGTGCA
1 ATTTCTACGCGGCACTTCGGTGCA
*
2154819 ATTT-TACGCGGTACTTCGGTGCA
1 ATTTCTACGCGGCACTTCGGTGCA
2154842 ATT
1 ATT
2154845 CTATGTGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (24 bp):
ATTTCTACGCGGCACTTCGGTGCA
Found at i:2155780 original size:41 final size:41
Alignment explanation
Indices: 2155710--2156080 Score: 219
Period size: 41 Copynumber: 9.1 Consensus size: 41
2155700 TGGTTATTGC
* * *
2155710 ATGCTAGCATGATTGAA-TCAATTGGATGATGAACTATTAT
1 ATGCTACCATGATTGAATTGAATTGAATGATGAACTATTAT
* * * * *
2155750 ATGATGCCTTGATTGAATTGAATTGAATGATTATCTATT-T
1 ATGCTACCATGATTGAATTGAATTGAATGATGAACTATTAT
** *** * * * *
2155790 CATGCTACCATGATCAAAACAAATCGAAGGATAAAATATTAT
1 -ATGCTACCATGATTGAATTGAATTGAATGATGAACTATTAT
* * * * **
2155832 ATGCTACCTTGATTGAATTGAACTGAATGTTGAATTATTGC
1 ATGCTACCATGATTGAATTGAATTGAATGATGAACTATTAT
* * * ** * *
2155873 ACGATACCATGATCGAATCAAATTGAAAGATAAACTATTAT
1 ATGCTACCATGATTGAATTGAATTGAATGATGAACTATTAT
* * *
2155914 ATGCTACCTTGATTGAATTGAATTGAATGTTGAATTATT-T
1 ATGCTACCATGATTGAATTGAATTGAATGATGAACTATTAT
* * * * * * **
2155954 CACGTTACCATGATCGAA-TCAAGTTAAATGATGATCTATTGC
1 -ATGCTACCATGATTGAATTGAA-TTGAATGATGAACTATTAT
* *
2155996 ATGCTACCATGATCGAATCGAATTGAATGATGAACTATTAT
1 ATGCTACCATGATTGAATTGAATTGAATGATGAACTATTAT
* ** * * ** * *
2156037 ATGATGTCTTGATTTAATTGAATCAAATGGTGAATTATTAT
1 ATGCTACCATGATTGAATTGAATTGAATGATGAACTATTAT
2156078 ATG
1 ATG
2156081 TTGTCTTGTT
Statistics
Matches: 237, Mismatches: 87, Indels: 13
0.70 0.26 0.04
Matches are distributed among these distances:
40 18 0.08
41 216 0.91
42 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (41 bp):
ATGCTACCATGATTGAATTGAATTGAATGATGAACTATTAT
Found at i:2155969 original size:82 final size:82
Alignment explanation
Indices: 2155717--2156034 Score: 347
Period size: 82 Copynumber: 3.9 Consensus size: 82
2155707 TGCATGCTAG
* * * * * *
2155717 CATGATTGAATC-AATTGGATGATGAACTATTATATGATGCCTTGATTGAATTGAATTGAATGAT
1 CATGATCGAATCAAATTGAAAGATAAACTATTATATGCTACCTTGATTGAATTGAATTGAATG-T
* *
2155781 T--ATCTATTTCATGCTAC
65 TGAAT-TATTTCACGATAC
* * * * * *
2155798 CATGATCAAAACAAATCGAAGGATAAAATATTATATGCTACCTTGATTGAATTGAACTGAATGTT
1 CATGATCGAATCAAATTGAAAGATAAACTATTATATGCTACCTTGATTGAATTGAATTGAATGTT
*
2155863 GAATTATTGCACGATAC
66 GAATTATTTCACGATAC
2155880 CATGATCGAATCAAATTGAAAGATAAACTATTATATGCTACCTTGATTGAATTGAATTGAATGTT
1 CATGATCGAATCAAATTGAAAGATAAACTATTATATGCTACCTTGATTGAATTGAATTGAATGTT
*
2155945 GAATTATTTCACGTTAC
66 GAATTATTTCACGATAC
* * * ** * * * *
2155962 CATGATCGAATCAAGTT-AAATGATGATCTATTGCATGCTACCATGATCGAATCGAATTGAATGA
1 CATGATCGAATCAAATTGAAA-GATAAACTATTATATGCTACCTTGATTGAATTGAATTGAATGT
*
2156026 TGAACTATT
65 TGAATTATT
2156035 ATATGATGTC
Statistics
Matches: 201, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
81 14 0.07
82 185 0.92
83 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (82 bp):
CATGATCGAATCAAATTGAAAGATAAACTATTATATGCTACCTTGATTGAATTGAATTGAATGTT
GAATTATTTCACGATAC
Found at i:2158749 original size:23 final size:23
Alignment explanation
Indices: 2158717--2158817 Score: 105
Period size: 23 Copynumber: 4.4 Consensus size: 23
2158707 GAGTTGAGGG
*
2158717 TTCTACGTGGTCATTCGGGACAA
1 TTCTATGTGGTCATTCGGGACAA
* *
2158740 TTCTATGTGGTCATTCGAGACAT
1 TTCTATGTGGTCATTCGGGACAA
** * *
2158763 TTCTACATGGTCCTTCAGGACAA
1 TTCTATGTGGTCATTCGGGACAA
* *
2158786 TACTATGTGGTCCTTCGGGA-AA
1 TTCTATGTGGTCATTCGGGACAA
2158808 TTTCTATGTG
1 -TTCTATGTG
2158818 ACACTTCAAT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
22 2 0.03
23 61 0.97
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (23 bp):
TTCTATGTGGTCATTCGGGACAA
Found at i:2158784 original size:46 final size:46
Alignment explanation
Indices: 2158717--2158813 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
2158707 GAGTTGAGGG
* * * *
2158717 TTCTACGTGGTCATTCGGGACAATTCTATGTGGTCATTCGAGACAT
1 TTCTACATGGTCATTCAGGACAATACTATGTGGTCATTCGAGAAAT
* * *
2158763 TTCTACATGGTCCTTCAGGACAATACTATGTGGTCCTTCGGGAAAT
1 TTCTACATGGTCATTCAGGACAATACTATGTGGTCATTCGAGAAAT
2158809 TTCTA
1 TTCTA
2158814 TGTGACACTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (46 bp):
TTCTACATGGTCATTCAGGACAATACTATGTGGTCATTCGAGAAAT
Found at i:2158990 original size:2 final size:2
Alignment explanation
Indices: 2158983--2159010 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2158973 GATAATGATG
2158983 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2159011 GCATGAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2163124 original size:26 final size:26
Alignment explanation
Indices: 2163088--2163144 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
2163078 GGGAAAGAGG
* *
2163088 TTCATGAGTATCAAGCGCATGAACTA
1 TTCACGAGTATCAAGCGCACGAACTA
2163114 TTCACGAGTATCAAGCGCACGAACTA
1 TTCACGAGTATCAAGCGCACGAACTA
2163140 TTCAC
1 TTCAC
2163145 ACGATCACGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (26 bp):
TTCACGAGTATCAAGCGCACGAACTA
Found at i:2168900 original size:49 final size:51
Alignment explanation
Indices: 2168843--2168941 Score: 184
Period size: 49 Copynumber: 2.0 Consensus size: 51
2168833 ATATGTGTGT
2168843 GTGTACATACATCATACATATATAC-T-TATATATAGTTATGTATATATTA
1 GTGTACATACATCATACATATATACTTATATATATAGTTATGTATATATTA
2168892 GTGTACATACATCATACATATATACTTATATATATAGTTATGTATATATT
1 GTGTACATACATCATACATATATACTTATATATATAGTTATGTATATATT
2168942 TATATATACA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 25 0.52
50 1 0.02
51 22 0.46
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.43
Consensus pattern (51 bp):
GTGTACATACATCATACATATATACTTATATATATAGTTATGTATATATTA
Found at i:2168923 original size:2 final size:2
Alignment explanation
Indices: 2168909--2169011 Score: 83
Period size: 2 Copynumber: 52.5 Consensus size: 2
2168899 TACATCATAC
* * *
2168909 AT AT AT ACT -T AT AT AT AT AGT -T AT GT AT AT AT TT AT AT AT AC
1 AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* *
2168951 AT AT -T CT -T AT AT AT -T AT AT ACT TT AT ACT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT
2168991 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
2169012 ATAGTGGGTT
Statistics
Matches: 83, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
1 6 0.07
2 73 0.88
3 4 0.05
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2170333 original size:18 final size:19
Alignment explanation
Indices: 2170300--2170336 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
2170290 CACCTACAGT
2170300 TAAAAATATTTTTTAAATTA
1 TAAAAATA-TTTTTAAATTA
2170320 TAAAAATA-TTTTAAATT
1 TAAAAATATTTTTAAATT
2170337 TTGAAAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAAAATATTTTTAAATTA
Found at i:2173363 original size:20 final size:21
Alignment explanation
Indices: 2173326--2173372 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
2173316 ATTTTCTATA
2173326 GAGTATCGATACCTAA-GGTT
1 GAGTATCGATACCTAAGGGTT
*
2173346 GAGTATCGAT-GCTCAAGGGTT
1 GAGTATCGATACCT-AAGGGTT
2173367 -AGTATC
1 GAGTATC
2173373 AGTGCTGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.08
20 18 0.75
21 4 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (21 bp):
GAGTATCGATACCTAAGGGTT
Found at i:2177158 original size:2 final size:2
Alignment explanation
Indices: 2177140--2177182 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
2177130 ATAGAAGAAA
* *
2177140 AT AT AT GT AT AT GT AT AT AT AT AT AT A- 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
2177181 AT
1 AT
2177183 GATGGATGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2180628 original size:18 final size:18
Alignment explanation
Indices: 2180605--2180647 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2180595 AGTTTTTTAA
*
2180605 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
2180623 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
2180641 AAATAAA
1 AAATAAA
2180648 CAAATTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:2181328 original size:74 final size:76
Alignment explanation
Indices: 2181240--2181454 Score: 312
Period size: 76 Copynumber: 2.9 Consensus size: 76
2181230 TAAAACACCT
* * *
2181240 TAAATCCTAATTAAAACAATTAAAA-CTATTTAAACTAAAATACCTAAAA-AATA-ATAATAT-T
1 TAAATCCTAATTAAAA-TACTAAAACCTATTTAAACTAAAATACCTAAAACAA-AGATAAAATAT
* *
2181301 TAAAATAATATTC
64 AAAAATAATATCC
*
2181314 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATATCTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
2181379 AAATAATATCC
66 AAATAATATCC
* *
2181390 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
2181455 TGTTTAAAAT
Statistics
Matches: 128, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
73 6 0.05
74 40 0.31
75 8 0.06
76 74 0.58
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.29
Consensus pattern (76 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
AAATAATATCC
Found at i:2183138 original size:15 final size:15
Alignment explanation
Indices: 2183118--2183147 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2183108 ACCAAATCTA
*
2183118 TTTTTTTCTGCACTG
1 TTTTTTTCTACACTG
2183133 TTTTTTTCTACACTG
1 TTTTTTTCTACACTG
2183148 CATTGTTCGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.20, G:0.10, T:0.60
Consensus pattern (15 bp):
TTTTTTTCTACACTG
Found at i:2183318 original size:5 final size:5
Alignment explanation
Indices: 2183308--2183350 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
2183298 TGTTCAGAGA
* *
2183308 AAAAT AAAAT AAATT AAAAT AAAAT -AAAT AGAAT GAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
2183351 GTTTGCTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 4 0.12
5 24 0.75
6 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:2183328 original size:15 final size:14
Alignment explanation
Indices: 2183308--2183350 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
2183298 TGTTCAGAGA
2183308 AAAATAAAATAAATT
1 AAAATAAAATAAA-T
2183323 AAAATAAAATAAAT
1 AAAATAAAATAAAT
*
2183337 AGAATGAAAATAAA
1 AAAAT-AAAATAAA
2183351 GTTTGCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:2183333 original size:20 final size:20
Alignment explanation
Indices: 2183308--2183350 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
2183298 TGTTCAGAGA
*
2183308 AAAATAAAATA-AATTAAAAT
1 AAAAT-AAATAGAATGAAAAT
2183328 AAAATAAATAGAATGAAAAT
1 AAAATAAATAGAATGAAAAT
2183348 AAA
1 AAA
2183351 GTTTGCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAATAAATAGAATGAAAAT
Found at i:2183379 original size:17 final size:17
Alignment explanation
Indices: 2183360--2183391 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2183350 AGTTTGCTAA
2183360 AAAAT-AAAAAAAAATG
1 AAAATGAAAAAAAAATG
2183376 AAAATGAAAAAAAAAT
1 AAAATGAAAAAAAAAT
2183392 AGAACGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAATGAAAAAAAAATG
Found at i:2188854 original size:18 final size:18
Alignment explanation
Indices: 2188833--2188875 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
2188823 GTTGTTTTTA
2188833 AAATAAAAGATAAA-AATT
1 AAATAAAAGA-AAATAATT
2188851 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAATAATT
2188869 AAATAAA
1 AAATAAA
2188876 CAAATTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAATAATT
Found at i:2189554 original size:74 final size:74
Alignment explanation
Indices: 2189467--2189680 Score: 288
Period size: 76 Copynumber: 2.9 Consensus size: 74
2189457 TAAAACATCT
* ** * *
2189467 TAAATCCTAATTAAAACACTTAAAA-CTATTCAAACTAAAATACCTAAAAAATTATAATAT-TTA
1 TAAATCCTAATTAAAATAC-TAAAACCTATT-AAACTAAAATACCTAAAAAAAGATAAAATATAA
*
2189530 AAATAATATTC
64 AAATAATATCC
*
2189541 TAAATCCTAATTAAAATACTAAAACCTACTTAAACTAAAATATCTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTA-TTAAACTAAAATACCTAAAA-AAAGATAAAATATAA
2189606 AAATAATATCC
64 AAATAATATCC
* *
2189617 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAAAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTA-TTAAACTAAAATACCTAAAAAAAGATAAAATATAA
2189681 TGTTTAAAAT
Statistics
Matches: 125, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
73 5 0.04
74 38 0.30
75 25 0.20
76 57 0.46
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.29
Consensus pattern (74 bp):
TAAATCCTAATTAAAATACTAAAACCTATTAAACTAAAATACCTAAAAAAAGATAAAATATAAAA
ATAATATCC
Found at i:2191757 original size:14 final size:14
Alignment explanation
Indices: 2191737--2191779 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
2191727 ACCGATAAGT
2191737 CGTTGATCGTTGAC
1 CGTTGATCGTTGAC
* *
2191751 TGTTGATCATTGAC
1 CGTTGATCGTTGAC
*
2191765 CGTTAATCGTTGAC
1 CGTTGATCGTTGAC
2191779 C
1 C
2191780 AACTGTTGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (14 bp):
CGTTGATCGTTGAC
Found at i:2192679 original size:78 final size:78
Alignment explanation
Indices: 2192568--2192719 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 78
2192558 GGTTCTTCAG
* *
2192568 CTTTGTCCTCAGGGTAAGTCCTTAACGTGGGCTCCTCGGGTTTGTGATCAGGGTAAGTCCATATC
1 CTTTGTCCTCAGGGTAAATCCTTAACGTGGGCTCCTCGGCTTTGTGATCAGGGTAAGTCCATA-C
2192633 A-CAGGCTCCCTGT
65 AGCAGGCTCCCTGT
* * *
2192646 CTTTGTGCTCAGGGTAAATCCTT-AC-TGCAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTA
1 CTTTGTCCTCAGGGTAAATCCTTAACGTG--GGCTCCTCGGCTTTGTGATCAGGGTAAGTCCATA
2192709 CAGCAGGCTCC
64 CAGCAGGCTCC
2192720 TCTACTTTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
76 2 0.03
77 4 0.06
78 60 0.91
ACGTcount: A:0.16, C:0.27, G:0.26, T:0.30
Consensus pattern (78 bp):
CTTTGTCCTCAGGGTAAATCCTTAACGTGGGCTCCTCGGCTTTGTGATCAGGGTAAGTCCATACA
GCAGGCTCCCTGT
Found at i:2192709 original size:39 final size:39
Alignment explanation
Indices: 2192542--2192743 Score: 189
Period size: 39 Copynumber: 5.2 Consensus size: 39
2192532 TCTATGACTT
* * * * *
2192542 GTAAGTTCTTACTGCAGGTTCTTCAGCTTTGTCCTCAGG
1 GTAAGTCCTTACTGCAGGCTCCTCGGCTTTGTGCTCAGG
* *
2192581 GTAAGTCCTTAACGTG--GGCTCCTCGGGTTTGTGATCAGG
1 GTAAGTCCTT-AC-TGCAGGCTCCTCGGCTTTGTGCTCAGG
* * *
2192620 GTAAGTCCATA-TCACAGGCTCC-CTGTCTTTGTGCTCAGG
1 GTAAGTCCTTACT-GCAGGCTCCTC-GGCTTTGTGCTCAGG
*
2192659 GTAAATCCTTACTGCAGGCTCCTCGGCTTTGTGCTCAGG
1 GTAAGTCCTTACTGCAGGCTCCTCGGCTTTGTGCTCAGG
* ** *
2192698 GTAAGTCCTTACAGCAGGCTCCTCTACTTTGTACAT-AGG
1 GTAAGTCCTTACTGCAGGCTCCTCGGCTTTGTGC-TCAGG
2192737 GTAAGTC
1 GTAAGTC
2192744 TTTATGCTAT
Statistics
Matches: 133, Mismatches: 21, Indels: 18
0.77 0.12 0.10
Matches are distributed among these distances:
36 1 0.01
38 2 0.02
39 123 0.92
40 5 0.04
41 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (39 bp):
GTAAGTCCTTACTGCAGGCTCCTCGGCTTTGTGCTCAGG
Found at i:2193935 original size:3 final size:3
Alignment explanation
Indices: 2193927--2193958 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2193917 TAAATATGGG
2193927 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2193959 CAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2194462 original size:39 final size:39
Alignment explanation
Indices: 2194390--2194606 Score: 237
Period size: 39 Copynumber: 5.6 Consensus size: 39
2194380 TCTATGACTT
* ** * * *
2194390 GTAAGTCTTTACTGCAGTCTCCTCGGCTTTGTGCTCAGA
1 GTAAGTCCTTACCACAGGCTCCTCAGCTTTGTGCTCAGG
*
2194429 GTAAATCCTTACCACAGGCTCCTCAGCTTTGTGCTCAGG
1 GTAAGTCCTTACCACAGGCTCCTCAGCTTTGTGCTCAGG
* * *
2194468 GTAAGTCCTTACCGCAGACTCCTCGGCTTTGTGCTCAGG
1 GTAAGTCCTTACCACAGGCTCCTCAGCTTTGTGCTCAGG
* *
2194507 GTAAGTCTTTACCGCAGGCTCCTC-GACTTTGTGCTCAGG
1 GTAAGTCCTTACCACAGGCTCCTCAG-CTTTGTGCTCAGG
* *
2194546 GTAAGTCCTTACCGA-AAGCTCCTCTA-CTTTGTG-TACAAG
1 GTAAGTCCTTACC-ACAGGCTCCTC-AGCTTTGTGCT-CAGG
2194585 GTAAGTCCTTACCACAGG-TCCT
1 GTAAGTCCTTACCACAGGCTCCT
2194607 TATGCTGTGT
Statistics
Matches: 154, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
38 7 0.05
39 147 0.95
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.30
Consensus pattern (39 bp):
GTAAGTCCTTACCACAGGCTCCTCAGCTTTGTGCTCAGG
Found at i:2194519 original size:78 final size:78
Alignment explanation
Indices: 2194390--2194606 Score: 280
Period size: 78 Copynumber: 2.8 Consensus size: 78
2194380 TCTATGACTT
* * * * *
2194390 GTAAGTCTTTACTGCAGTCTCCTCGGCTTTGTGCTCAGAGTAAATCCTTACCACAGGCTCCTC-A
1 GTAAGTCCTTACCGCAGACTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACCACAGGCTCCTCGA
2194454 GCTTTGTGCTCAGG
66 -CTTTGTGCTCAGG
* *
2194468 GTAAGTCCTTACCGCAGACTCCTCGGCTTTGTGCTCAGGGTAAGTCTTTACCGCAGGCTCCTCGA
1 GTAAGTCCTTACCGCAGACTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACCACAGGCTCCTCGA
2194533 CTTTGTGCTCAGG
66 CTTTGTGCTCAGG
* ** *
2194546 GTAAGTCCTTACCG-AAAGCTCCTCTACTTTGTG-TACAAGGTAAGTCCTTACCACAGG-TCCT
1 GTAAGTCCTTACCGCAGA-CTCCTCGGCTTTGTGCT-CAGGGTAAGTCCTTACCACAGGCTCCT
2194607 TATGCTGTGT
Statistics
Matches: 123, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
77 7 0.06
78 115 0.93
79 1 0.01
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.30
Consensus pattern (78 bp):
GTAAGTCCTTACCGCAGACTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACCACAGGCTCCTCGA
CTTTGTGCTCAGG
Found at i:2195809 original size:39 final size:38
Alignment explanation
Indices: 2195649--2195820 Score: 143
Period size: 39 Copynumber: 4.4 Consensus size: 38
2195639 TTTACTGCAG
* *
2195649 GCTCCTC-AGCTTTGTTCTCAGAG-TAAATCCTTACC-ACA
1 GCTCCTCGA-CTTTGTGCTCAG-GCTAAGTCCTTACCGA-A
* *
2195687 GGCTCCTCGACTTTGTGCTCAGGGTAAGTCCTTACCGCA
1 -GCTCCTCGACTTTGTGCTCAGGCTAAGTCCTTACCGAA
* * * * * * *
2195726 GACTCTTCGGCTTTGTGCTCAGGGTTAGTCTTTACTGCAG
1 G-CTCCTCGACTTTGTGCTCAGGCTAAGTCCTTACCG-AA
*
2195766 GCTCCTCGACTTTGTGCTTAGGCTAAGTCCTTACCGAAA
1 GCTCCTCGACTTTGTGCTCAGGCTAAGTCCTTACCG-AA
*
2195805 GCTCCTCTACTTTGTG
1 GCTCCTCGACTTTGTG
2195821 TATAGGACAA
Statistics
Matches: 108, Mismatches: 20, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
38 2 0.02
39 104 0.96
40 2 0.02
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (38 bp):
GCTCCTCGACTTTGTGCTCAGGCTAAGTCCTTACCGAA
Found at i:2196943 original size:39 final size:39
Alignment explanation
Indices: 2196889--2197087 Score: 258
Period size: 39 Copynumber: 5.1 Consensus size: 39
2196879 GTCTTTACTG
* * *
2196889 CAGGCTCCTCGGCTTTGTGCTAAGAGTAAATCCTTACCA
1 CAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACCA
*
2196928 CAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACCG
1 CAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACCA
* * *
2196967 CAGACTCCTCGGCTTTGTGCTCAGGGTAAGTCTTTACCG
1 CAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACCA
*
2197006 CAGGCTCCTCGACTTTGTGCTCAGGGTAAGTCCTTACCGA
1 CAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACC-A
* ** *
2197046 -AAGCTCCTCTACTTTGTG-TATAGGGTAAGTCCTTACCA
1 CAGGCTCCTCGGCTTTGTGCT-CAGGGTAAGTCCTTACCA
2197084 CAGG
1 CAGG
2197088 TCTTTATGCT
Statistics
Matches: 143, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
38 2 0.01
39 141 0.99
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.29
Consensus pattern (39 bp):
CAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACCA
Found at i:2197010 original size:78 final size:78
Alignment explanation
Indices: 2196876--2197087 Score: 284
Period size: 78 Copynumber: 2.7 Consensus size: 78
2196866 CTATGACTTA
* * * * * *
2196876 TAAGTCTTTACTGCAGGCTCCTCGGCTTTGTGCTAAGAGTAAATCCTTACCACAGGCTCCTCGGC
1 TAAGTCCTTACCGCAGACTCCTCGGCTTTGTGCTAAGGGTAAGTCCTTACCACAGGCTCCTCGAC
2196941 TTTGTGCTCAGGG
66 TTTGTGCTCAGGG
* * *
2196954 TAAGTCCTTACCGCAGACTCCTCGGCTTTGTGCTCAGGGTAAGTCTTTACCGCAGGCTCCTCGAC
1 TAAGTCCTTACCGCAGACTCCTCGGCTTTGTGCTAAGGGTAAGTCCTTACCACAGGCTCCTCGAC
2197019 TTTGTGCTCAGGG
66 TTTGTGCTCAGGG
* **
2197032 TAAGTCCTTACCG-AAAGCTCCTCTACTTTGTG-TATAGGGTAAGTCCTTACCACAGG
1 TAAGTCCTTACCGCAGA-CTCCTCGGCTTTGTGCTA-AGGGTAAGTCCTTACCACAGG
2197088 TCTTTATGCT
Statistics
Matches: 117, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
77 3 0.03
78 114 0.97
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (78 bp):
TAAGTCCTTACCGCAGACTCCTCGGCTTTGTGCTAAGGGTAAGTCCTTACCACAGGCTCCTCGAC
TTTGTGCTCAGGG
Found at i:2198057 original size:25 final size:25
Alignment explanation
Indices: 2198029--2198085 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
2198019 CAACGATTGG
*
2198029 CCATTGACTATTGA-CAGTTGACCGA
1 CCATTGACTATTGACCA-TTAACCGA
* * *
2198054 CCATTAACTGTTGACCATTAACTGA
1 CCATTGACTATTGACCATTAACCGA
2198079 CCATTGA
1 CCATTGA
2198086 TCGACGTTGG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (25 bp):
CCATTGACTATTGACCATTAACCGA
Found at i:2198901 original size:39 final size:38
Alignment explanation
Indices: 2198846--2199062 Score: 222
Period size: 39 Copynumber: 5.6 Consensus size: 38
2198836 CTATGACATA
** * *
2198846 TAAGTCCTTATTGCAGGCTCCTTGTATTTTTGCTCAGGG
1 TAAGTCCTTACCGCAGGCTCCTTG-CTTTGTGCTCAGGG
* *
2198885 TAAGTCCTTACCGCAGGCTCCTCGACTTTTTGCTCAGGG
1 TAAGTCCTTACCGCAGGCTCCTTG-CTTTGTGCTCAGGG
2198924 TAAGTCCTTACCGCAGGCTCCTCAT-CTTTGTGCTCAGGG
1 TAAGTCCTTACCGCAGGCTCCT--TGCTTTGTGCTCAGGG
* * * *
2198963 TAAGTCCTTACCGTAGGCTCATCAGCTTTGTGCTCAAGG
1 TAAGTCCTTACCGCAGGCTCCT-TGCTTTGTGCTCAGGG
* * * * **
2199002 TAAATCCTTATCGCATGCTCCTCTGCTTTGTGCACAAAG
1 TAAGTCCTTACCGCAGGCTCCT-TGCTTTGTGCTCAGGG
2199041 TAAGTCCTTACCGCAGG-TCCTT
1 TAAGTCCTTACCGCAGGCTCCTT
2199063 ATGTTGTGTG
Statistics
Matches: 152, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
37 1 0.01
38 4 0.03
39 147 0.97
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (38 bp):
TAAGTCCTTACCGCAGGCTCCTTGCTTTGTGCTCAGGG
Found at i:2198975 original size:78 final size:77
Alignment explanation
Indices: 2198846--2199061 Score: 256
Period size: 78 Copynumber: 2.8 Consensus size: 77
2198836 CTATGACATA
* * * *
2198846 TAAGTCCTTATTGCAGGCTCCTTGTATTTTTGCTCAGGGTAAGTCCTTACCGCAGGCTCCTC-GA
1 TAAGTCCTTATCGCAGGCTCC-TCTCTTTGTGCTCAGGGTAAGTCCTTACCGCAGGCTCCTCAG-
* *
2198910 CTTTTTGCTCAGGG
64 CTTTGTGCTCAAGG
* * *
2198924 TAAGTCCTTACCGCAGGCTCCTCATCTTTGTGCTCAGGGTAAGTCCTTACCGTAGGCTCATCAGC
1 TAAGTCCTTATCGCAGGCTCCTC-TCTTTGTGCTCAGGGTAAGTCCTTACCGCAGGCTCCTCAGC
2198989 TTTGTGCTCAAGG
65 TTTGTGCTCAAGG
* * * **
2199002 TAAATCCTTATCGCATGCTCCTCTGCTTTGTGCACAAAGTAAGTCCTTACCGCAGG-TCCT
1 TAAGTCCTTATCGCAGGCTCCTCT-CTTTGTGCTCAGGGTAAGTCCTTACCGCAGGCTCCT
2199062 TATGTTGTGT
Statistics
Matches: 118, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
77 5 0.04
78 112 0.95
79 1 0.01
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (77 bp):
TAAGTCCTTATCGCAGGCTCCTCTCTTTGTGCTCAGGGTAAGTCCTTACCGCAGGCTCCTCAGCT
TTGTGCTCAAGG
Found at i:2199968 original size:14 final size:14
Alignment explanation
Indices: 2199949--2200012 Score: 64
Period size: 14 Copynumber: 4.9 Consensus size: 14
2199939 ATTATAATTG
*
2199949 TATAAATATTAAAA
1 TATAAAAATTAAAA
*
2199963 TATAAAAACTAAAA
1 TATAAAAATTAAAA
2199977 TATAAAAATT----
1 TATAAAAATTAAAA
*
2199987 TATATAAATTAAAA
1 TATAAAAATTAAAA
*
2200001 TATAAAAGTTAA
1 TATAAAAATTAA
2200013 TACATACAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 9 0.22
14 31 0.77
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (14 bp):
TATAAAAATTAAAA
Found at i:2200384 original size:3 final size:3
Alignment explanation
Indices: 2200376--2200420 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
2200366 TATTAACCCA
2200376 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T AGTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
2200421 TTACAACTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:2202060 original size:2 final size:2
Alignment explanation
Indices: 2202048--2202091 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2202038 AAGTGAAAAT
*
2202048 TA TA AA 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
2202090 TA
1 TA
2202092 ATCTTTACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2202788 original size:15 final size:16
Alignment explanation
Indices: 2202768--2202798 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2202758 TTATTTTTTA
2202768 TTTAAATATAT-ATTT
1 TTTAAATATATGATTT
2202783 TTTAAATATATGATTT
1 TTTAAATATATGATTT
2202799 AATTTTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTAAATATATGATTT
Found at i:2210124 original size:18 final size:18
Alignment explanation
Indices: 2210098--2210140 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2210088 TTAATTTCAA
*
2210098 TATTCTAAAAATATATAT
1 TATTTTAAAAATATATAT
*
2210116 TATTTTAAAATTATATAT
1 TATTTTAAAAATATATAT
*
2210134 GATTTTA
1 TATTTTA
2210141 GTTTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
TATTTTAAAAATATATAT
Done.