Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008709.1 Hibiscus syriacus cultivar Beakdansim tig00111758_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: 3030657
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 15
Found at i:1744673 original size:17 final size:17
Alignment explanation
Indices: 1744637--1744675 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1744627 AAATAACATG
* * *
1744637 TAAATAAAATTAGTATA
1 TAAATAAAAATAATACA
1744654 TAAATAAAAATAATACA
1 TAAATAAAAATAATACA
1744671 TAAAT
1 TAAAT
1744676 GAATTTAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (17 bp):
TAAATAAAAATAATACA
Found at i:1750113 original size:18 final size:17
Alignment explanation
Indices: 1750074--1750112 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1750064 TATAATTAAT
*
1750074 ATTTGGTTACAGAAGTG
1 ATTTTGTTACAGAAGTG
1750091 ATTTTGTTACACGAAG-G
1 ATTTTGTTACA-GAAGTG
1750108 ATTTT
1 ATTTT
1750113 TATTGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (17 bp):
ATTTTGTTACAGAAGTG
Found at i:1750145 original size:16 final size:16
Alignment explanation
Indices: 1750119--1750162 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
1750109 TTTTTATTGT
1750119 TAAATTATAATTATAAA
1 TAAATTATAATTA-AAA
1750136 TAAA-TATAATTAAAA
1 TAAATTATAATTAAAA
1750151 TAAATTATAATT
1 TAAATTATAATT
1750163 CTCTAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.27
16 15 0.58
17 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAATTATAATTAAAA
Found at i:1751718 original size:33 final size:35
Alignment explanation
Indices: 1751653--1751962 Score: 114
Period size: 33 Copynumber: 8.9 Consensus size: 35
1751643 CGTTCATAGT
* * *
1751653 TTATAT-ATATATATATATATATACTATGTATAAA
1 TTATATAATTTATATATATATAAACTATATATAAA
1751687 TTATATAATTTAT-TAT-TATAAACTATATATAAA
1 TTATATAATTTATATATATATAAACTATATATAAA
* * * * * * *
1751720 CTATATAGTTTATATATAGAGTACA-TATGGTTTAGAT
1 TTATATAATTTATATATATA-TAAACTAT-ATATA-AA
* *
1751757 TTATATAA-TTATATATAGTTTATAC-ATAATAGTAAA
1 TTATATAATTTATATATA-TATAAACTAT-ATA-TAAA
* * *
1751793 -TAAACT-ATATATACTATTTATAAACTAT-TATAAA
1 TTATA-TAATTTATA-TATATATAAACTATATATAAA
* * * * *
1751827 TTTTATAGTTTACATATGAAATATATA-TATATATATA
1 TTATATAATTT--ATAT-ATATATAAACTATATATAAA
*
1751864 TATATATATATATATATATAATAATAAAC--TATATAAA
1 T-TATATA-ATTTATATAT-AT-ATAAACTATATATAAA
* *
1751901 TTATAT-A--TAAACTATATATGAACTATATATAAA
1 TTATATAATTTATA-TATATATAAACTATATATAAA
* * * *
1751934 TTGTATAGTTTGTAT-T-TATATACTATATA
1 TTATATAATTTATATATATATAAACTATATA
1751963 ATTATAAATT
Statistics
Matches: 200, Mismatches: 46, Indels: 61
0.65 0.15 0.20
Matches are distributed among these distances:
31 5 0.03
32 5 0.03
33 53 0.26
34 19 0.09
35 20 0.10
36 44 0.22
37 43 0.22
38 9 0.05
39 2 0.01
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (35 bp):
TTATATAATTTATATATATATAAACTATATATAAA
Found at i:1751931 original size:2 final size:2
Alignment explanation
Indices: 1751418--1751919 Score: 85
Period size: 2 Copynumber: 245.0 Consensus size: 2
1751408 ATTGAAACAG
1751418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * *
1751460 AT AT AGT -T AT AC AT A- AT AT AT AT AGT TT AT AC AT AGT AGT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T A-T AT
* * * * *
1751502 AT A- AGC AT AA ACT AT AT GGT TT AT AT AT AGT -T TT AT -T A- AT
1 AT AT A-T AT AT A-T AT AT -AT AT AT AT AT A-T AT AT AT AT AT AT
* * * * *
1751542 AA ACT AT AT A- AT TT AT AC AT AGT AT AT AT AT AT AA AT AT AA ACT
1 AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T
* * * * * * * * *
1751586 AT AT ACT TT AT AT AT TT GT TT GGT AC AC CT AT AT ACT TT AT AT
1 AT AT A-T AT AT AT AT AT AT AT -AT AT AT AT AT AT A-T AT AT AT
* * *
1751629 AT AGT -T CT AT AT AT CGT -T CAT AGT TT AT AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT AT -AT AT -AT A-T AT AT AT AT AT AT AT AT AT
* * * *
1751671 AT AT ACT AT GT AT AA AT -T AT AT A- AT TT AT -T AT -T AT AA ACT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * * * * *
1751711 AT AT AT AA ACT AT AT AGT TT AT AT AT AG AGT AC AT AT GGT TT AG
1 AT AT AT AT A-T AT AT A-T AT AT AT AT AT A-T AT AT AT -AT AT AT
* * * * *
1751755 AT TT AT AT A- AT -T AT AT AT AGT TT AT AC AT A- AT AGT AA AT AA
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT
* * * * *
1751796 ACT AT AT AT ACT AT TT AT AA ACT AT -T AT AA AT -T TT AT AGT TT
1 A-T AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT
* *
1751838 AC AT AT GAA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
1751881 AT A- AT A- AT AA ACT AT AT AA AT -T AT AT AT AA ACT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT
1751920 GAACTATATA
Statistics
Matches: 355, Mismatches: 90, Indels: 110
0.64 0.16 0.20
Matches are distributed among these distances:
1 22 0.06
2 292 0.82
3 41 0.12
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1752454 original size:26 final size:27
Alignment explanation
Indices: 1752401--1752454 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
1752391 CATATATTCT
*
1752401 TCACTGTAACATATACACATGCACATA
1 TCACTGTAACATATACACATACACATA
*
1752428 TCAC-GTAACATA-ACATCATACATATA
1 TCACTGTAACATATACA-CATACACATA
1752454 T
1 T
1752455 ACATACTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 3 0.12
26 17 0.71
27 4 0.17
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.28
Consensus pattern (27 bp):
TCACTGTAACATATACACATACACATA
Found at i:1752888 original size:18 final size:18
Alignment explanation
Indices: 1752865--1752916 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
1752855 TGTAGAAATT
1752865 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
1752883 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
1752901 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
1752917 ATAGAACACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.27, C:0.35, G:0.23, T:0.15
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1754621 original size:11 final size:11
Alignment explanation
Indices: 1754605--1754698 Score: 59
Period size: 11 Copynumber: 8.5 Consensus size: 11
1754595 TTACATAAAT
*
1754605 TATATAGACTA
1 TATATAAACTA
*
1754616 TATATAAATTA
1 TATATAAACTA
** *
1754627 TATATTTTATTA
1 TATA-TAAACTA
**
1754639 -ATATAAAAAA
1 TATATAAACTA
*
1754649 TATATAAACCA
1 TATATAAACTA
1754660 TATAT--ACTA
1 TATATAAACTA
*
1754669 TATGTAAACCATA
1 TATATAAA-C-TA
1754682 TATATAAACTA
1 TATATAAACTA
1754693 TATATA
1 TATATA
1754699 CTATATAGTT
Statistics
Matches: 64, Mismatches: 13, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
9 7 0.11
10 3 0.05
11 38 0.59
12 7 0.11
13 9 0.14
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.39
Consensus pattern (11 bp):
TATATAAACTA
Found at i:1754662 original size:20 final size:20
Alignment explanation
Indices: 1754639--1754683 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1754629 TATTTTATTA
1754639 ATATAAAAAATATATAAACC
1 ATATAAAAAATATATAAACC
* ** *
1754659 ATATATACTATATGTAAACC
1 ATATAAAAAATATATAAACC
1754679 ATATA
1 ATATA
1754684 TATAAACTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (20 bp):
ATATAAAAAATATATAAACC
Found at i:1754684 original size:20 final size:20
Alignment explanation
Indices: 1754648--1754685 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1754638 AATATAAAAA
1754648 ATATATAAACCATATATACT
1 ATATATAAACCATATATACT
*
1754668 ATATGTAAACCATATATA
1 ATATATAAACCATATATA
1754686 TAAACTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (20 bp):
ATATATAAACCATATATACT
Found at i:1754776 original size:24 final size:24
Alignment explanation
Indices: 1754720--1754777 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
1754710 ACGTATGAAC
* *
1754720 TATATATAAACTATACTTTATATA
1 TATATATATACTATAATTTATATA
*
1754744 TAAATATATACTATAATTTATATA
1 TATATATATACTATAATTTATATA
1754768 TATATATATA
1 TATATATATA
1754778 TACATATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (24 bp):
TATATATATACTATAATTTATATA
Found at i:1754805 original size:13 final size:14
Alignment explanation
Indices: 1754802--1754845 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
1754792 AAGTATTAAT
1754802 TATAATTATAAGTA
1 TATAATTATAAGTA
1754816 TATAA-TATAAGTA
1 TATAATTATAAGTA
* *
1754829 T-TCATTATAAATA
1 TATAATTATAAGTA
1754842 TATA
1 TATA
1754846 CACACACACA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 2 0.08
13 17 0.68
14 6 0.24
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (14 bp):
TATAATTATAAGTA
Found at i:1754805 original size:40 final size:41
Alignment explanation
Indices: 1754680--1754805 Score: 116
Period size: 40 Copynumber: 3.1 Consensus size: 41
1754670 ATGTAAACCA
* * * * *
1754680 TATATATAAACTATATATAC-TATATAGTTTACGTATGAAC
1 TATATATAAACTATATATACATATATAATATAAGTATTAAT
* * *
1754720 TATATATAAACTATACTTTATATATA-AATATATACTA-TAATT
1 TATATATAAACTATA-TATACATATATAATATA-AGTATTAA-T
*
1754762 TATATATATA-TATATATACATATATAATATAAGTATTAAT
1 TATATATAAACTATATATACATATATAATATAAGTATTAAT
1754802 TATA
1 TATA
1754806 ATTATAAGTA
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
40 31 0.46
41 22 0.32
42 15 0.22
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (41 bp):
TATATATAAACTATATATACATATATAATATAAGTATTAAT
Found at i:1754811 original size:19 final size:18
Alignment explanation
Indices: 1754783--1754825 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
1754773 ATATATACAT
1754783 ATATAATATAAGTAT-TA
1 ATATAATATAAGTATATA
1754800 ATTATAATTATAAGTATATA
1 A-TATAA-TATAAGTATATA
1754820 ATATAA
1 ATATAA
1754826 GTATTCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 5 0.22
19 14 0.61
20 3 0.13
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
ATATAATATAAGTATATA
Found at i:1754841 original size:19 final size:18
Alignment explanation
Indices: 1754782--1754843 Score: 53
Period size: 19 Copynumber: 3.6 Consensus size: 18
1754772 TATATATACA
1754782 TATATAATATAAGTATTAAT
1 TATA-AATATAAGTATT-AT
*
1754802 TATAATTATAAG---TA-
1 TATAAATATAAGTATTAT
1754816 TAT-AATATAAGTATTCAT
1 TATAAATATAAGTATT-AT
1754834 TATAAATATA
1 TATAAATATA
1754844 TACACACACA
Statistics
Matches: 34, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
13 7 0.21
14 3 0.09
15 1 0.03
16 2 0.06
17 1 0.03
18 3 0.09
19 13 0.38
20 4 0.12
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (18 bp):
TATAAATATAAGTATTAT
Found at i:1754894 original size:15 final size:16
Alignment explanation
Indices: 1754860--1754899 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
1754850 CACACACATA
*
1754860 TATATATATATAAGTG
1 TATATATATATAAATG
*
1754876 TATATAT-TTTAAATG
1 TATATATATATAAATG
1754891 TATATATAT
1 TATATATAT
1754900 TGTATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TATATATATATAAATG
Found at i:1755132 original size:2 final size:2
Alignment explanation
Indices: 1754738--1755123 Score: 120
Period size: 2 Copynumber: 201.0 Consensus size: 2
1754728 AACTATACTT
* *
1754738 TA TA TA TA AA TA TA TA CTA TA -A TT 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
*
1754780 CA TA TA TA -A TA TA -A GTA T- TA -A T- TA TA -A T- TA TA -A GTA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * * *
1754816 TA TA -A TA TA -A GTA T- TCA T- TA TA AA TA TA TA CA CA CA CA CA
1 TA TA TA TA TA TA -TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
1754856 CA TA TA TA TA TA TA TA -A GTG TA TA TA T- TT TA AA TG 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
* * * *
1754897 TA T- TG TA TA TA TA TG TG TA AA CT- TA TA TA TA CT- 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
*
1754938 TA TA TA TA TA T- TA TA TA TA -A TA TA -A GTA TA CA T- TA TA CT-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
* * * *
1754977 TA TA AA TA TA TA -A TA TA TA -A GTA TA AA GTA CA TA TA CA T- TGA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA T-A
* *
1755019 -A T- TA AA T- TA AA TA -A GTA TA -A 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
* *
1755057 TA TA TA TA TA AA GTA TA AA GTA TA -A TA TA TA TA TA TA -A GTA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
*
1755098 TA AA GTA TA -A TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA
1755124 AAGTATATAC
Statistics
Matches: 290, Mismatches: 42, Indels: 104
0.67 0.10 0.24
Matches are distributed among these distances:
1 34 0.12
2 240 0.83
3 16 0.06
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (2 bp):
TA
Found at i:1756207 original size:24 final size:24
Alignment explanation
Indices: 1756179--1756226 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
1756169 TTTATATATA
1756179 TATATATATATTTGT-TTTGTTTTT
1 TATAT-TATATTTGTATTTGTTTTT
* *
1756203 TATATTATGTTTTTATTTGTTTTT
1 TATATTATATTTGTATTTGTTTTT
1756227 ATTATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (24 bp):
TATATTATATTTGTATTTGTTTTT
Found at i:1756231 original size:21 final size:21
Alignment explanation
Indices: 1756200--1756247 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
1756190 TTGTTTTGTT
*
1756200 TTTTATATTATGTTTTTATTTG
1 TTTTATATTAT-TTTTTATTTC
1756222 TTTT-TATTATTTTTTATTTC
1 TTTTATATTATTTTTTATTTC
1756242 TTTTAT
1 TTTTAT
1756248 TTTCTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 13 0.54
21 7 0.29
22 4 0.17
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (21 bp):
TTTTATATTATTTTTTATTTC
Found at i:1756252 original size:10 final size:9
Alignment explanation
Indices: 1756187--1756250 Score: 56
Period size: 10 Copynumber: 6.7 Consensus size: 9
1756177 TATATATATA
*
1756187 TATTTGTTT
1 TATTTTTTT
* *
1756196 TGTTTTTTA
1 TATTTTTTT
1756205 TATTATGTTTT
1 TATT-T-TTTT
1756216 TATTTGTTTT
1 TATTT-TTTT
1756226 TATTATTTTT
1 TATT-TTTTT
*
1756236 TATTTCTTT
1 TATTTTTTT
1756245 TATTTT
1 TATTTT
1756251 CTATTTTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
9 18 0.40
10 19 0.42
11 8 0.18
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (9 bp):
TATTTTTTT
Found at i:1758453 original size:20 final size:21
Alignment explanation
Indices: 1758381--1758454 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 21
1758371 ACGTAATTAT
*
1758381 ATAAGTAAAATATTATAATTAATG
1 ATAA-TAAAATA-TA-AATTAATA
** *
1758405 ATAGCAAAATATAAATTTATA
1 ATAATAAAATATAAATTAATA
1758426 ATAATAAAAT-TAAATTAATA
1 ATAATAAAATATAAATTAATA
1758446 A-AACTAAAA
1 ATAA-TAAAA
1758455 GACACAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.05
20 15 0.36
21 14 0.33
22 2 0.05
23 6 0.14
24 3 0.07
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (21 bp):
ATAATAAAATATAAATTAATA
Found at i:1767887 original size:9 final size:9
Alignment explanation
Indices: 1767875--1767941 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
1767865 TTTTTTCTAT
1767875 TTTTATATG
1 TTTTATATG
1767884 TTTTATATG
1 TTTTATATG
*
1767893 TTTTTTAT-
1 TTTTATATG
* **
1767901 TTTTTTAAA
1 TTTTATATG
*
1767910 ATTTATATG
1 TTTTATATG
1767919 TTTT-TAT-
1 TTTTATATG
*
1767926 TTTCTATTTG
1 TTT-TATATG
1767936 TTTTAT
1 TTTTAT
1767942 GTATACATTA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
7 3 0.07
8 11 0.24
9 29 0.63
10 3 0.07
ACGTcount: A:0.21, C:0.01, G:0.06, T:0.72
Consensus pattern (9 bp):
TTTTATATG
Found at i:1767887 original size:17 final size:16
Alignment explanation
Indices: 1767867--1767939 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 16
1767857 TTGCTATTTT
1767867 TTTTCTATTTTTATATG
1 TTTT-TATTTTTATATG
* *
1767884 TTTTATATGTTTTTTATT
1 TTTT-TAT-TTTTATATG
**
1767902 TTTTTAAAATTTATATG
1 TTTTT-ATTTTTATATG
*
1767919 TTTTTATTTTCTATTTG
1 TTTTTATTTT-TATATG
1767936 TTTT
1 TTTT
1767940 ATGTATACAT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
16 3 0.07
17 28 0.65
18 12 0.28
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (16 bp):
TTTTTATTTTTATATG
Found at i:1767896 original size:26 final size:25
Alignment explanation
Indices: 1767867--1767941 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
1767857 TTGCTATTTT
1767867 TTTTCTATTTTTATATGTTTTATATG
1 TTTT-TATTTTTATATGTTTTATATG
* ***
1767893 TTTTTTATTTTTTTAAAATTTATATG
1 -TTTTTATTTTTATATGTTTTATATG
*
1767919 TTTTTATTTTCTATTTGTTTTAT
1 TTTTTATTTT-TATATGTTTTAT
1767942 GTATACATTA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 10 0.26
26 24 0.63
27 4 0.11
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (25 bp):
TTTTTATTTTTATATGTTTTATATG
Found at i:1770176 original size:22 final size:22
Alignment explanation
Indices: 1770151--1770204 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
1770141 TTAGTTTGAT
* *
1770151 TGCTGATTGGAATTCGTCTGAA
1 TGCTGATTAGAAATCGTCTGAA
*
1770173 TGCTGATTAGAAATCGTTTGAA
1 TGCTGATTAGAAATCGTCTGAA
*
1770195 TGTTGATTAG
1 TGCTGATTAG
1770205 TTTTGATCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (22 bp):
TGCTGATTAGAAATCGTCTGAA
Found at i:1770812 original size:19 final size:19
Alignment explanation
Indices: 1770788--1770824 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1770778 AATAAATATA
*
1770788 TAAAGTCAATTTAGTAATT
1 TAAAGTAAATTTAGTAATT
1770807 TAAAGTAAATTTAGTAAT
1 TAAAGTAAATTTAGTAAT
1770825 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:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (19 bp):
TAAAGTAAATTTAGTAATT
Found at i:1772128 original size:23 final size:24
Alignment explanation
Indices: 1772084--1772134 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
1772074 AATTTATGTT
1772084 TTTTATTTTTTAAAAATATATA-A
1 TTTTATTTTTTAAAAATATATATA
* * *
1772107 TTTTATTTTTTTAAATTTTATATA
1 TTTTATTTTTTAAAAATATATATA
1772131 TTTT
1 TTTT
1772135 TTTAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TTTTATTTTTTAAAAATATATATA
Found at i:1773140 original size:51 final size:51
Alignment explanation
Indices: 1773069--1773170 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 51
1773059 GTAGTTGACT
*
1773069 GTTCCACAAGTTCTGAAATCACAAAAGCTACAGGAAAAA-CTGTACTAGGTG
1 GTTCCACAAGTTATGAAATCACAAAAGCTACA-GAAAAACCTGTACTAGGTG
* * * *
1773120 GTTCCACACGTTATGGAATCACAGAAGCTGCAGAAAAACCTGTACTAGGTG
1 GTTCCACAAGTTATGAAATCACAAAAGCTACAGAAAAACCTGTACTAGGTG
1773171 AATTAACATC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
50 6 0.13
51 39 0.87
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (51 bp):
GTTCCACAAGTTATGAAATCACAAAAGCTACAGAAAAACCTGTACTAGGTG
Found at i:1784627 original size:32 final size:31
Alignment explanation
Indices: 1784554--1784630 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
1784544 CCCCGTGATT
** * *
1784554 TTTCTTGGGTAGGCCCTGCGGCCCTGAGATC
1 TTTCTTGGGTAGGCCCCACGGCCCCGAGAAC
* *
1784585 CTTCTTGGGTAGGCCCCATGGCCCCGAGTAAC
1 TTTCTTGGGTAGGCCCCACGGCCCCGAG-AAC
1784617 TTTCTTGGGTAGGC
1 TTTCTTGGGTAGGC
1784631 TATCAAGCCC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 23 0.61
32 15 0.39
ACGTcount: A:0.12, C:0.29, G:0.31, T:0.29
Consensus pattern (31 bp):
TTTCTTGGGTAGGCCCCACGGCCCCGAGAAC
Found at i:1785571 original size:28 final size:30
Alignment explanation
Indices: 1785521--1785578 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
1785511 ATATTTAAAA
1785521 TATATTTATTAATATTTCAATAATAAAATAT
1 TATATTTATTAATATTT-AATAATAAAATAT
*
1785552 TATATTTTTTAATA-TT-ATAATAAAATA
1 TATATTTATTAATATTTAATAATAAAATA
1785579 CTCAATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.42
30 2 0.08
31 13 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (30 bp):
TATATTTATTAATATTTAATAATAAAATAT
Found at i:1785612 original size:23 final size:23
Alignment explanation
Indices: 1785560--1785613 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
1785550 ATTATATTTT
*
1785560 TTAATATTATAATAAAATACTCAA
1 TTAATATTATAATAAAATAAT-AA
*
1785584 TT-ATATTATAATAATATAAT-A
1 TTAATATTATAATAAAATAATAA
1785605 TGTAATATT
1 T-TAATATT
1785614 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.08
22 1 0.04
23 21 0.81
24 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
TTAATATTATAATAAAATAATAA
Found at i:1785768 original size:23 final size:24
Alignment explanation
Indices: 1785736--1785801 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 24
1785726 TTAATATAAT
*
1785736 AATATTTTAATAAATA-TATTTAA
1 AATATATTAATAAATACTATTTAA
* *
1785759 AATATATTAATTAATACTTTTTAA
1 AATATATTAATAAATACTATTTAA
*
1785783 AATATAGT-AT-AATACTATT
1 AATATATTAATAAATACTATT
1785802 ACTTTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.22
23 16 0.43
24 13 0.35
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (24 bp):
AATATATTAATAAATACTATTTAA
Found at i:1785795 original size:22 final size:24
Alignment explanation
Indices: 1785754--1785798 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1785744 AATAAATATA
*
1785754 TTTAAAATATATTAATTAATACTT
1 TTTAAAATATAGTAATTAATACTT
1785778 TTTAAAATATAGT-A-TAATACT
1 TTTAAAATATAGTAATTAATACT
1785799 ATTACTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
TTTAAAATATAGTAATTAATACTT
Found at i:1785930 original size:22 final size:21
Alignment explanation
Indices: 1785905--1785965 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
1785895 ATTTTAATAA
*
1785905 TAAATAAATAATTTTAATATTT
1 TAAATAAATAATATTAA-ATTT
* *
1785927 TAAAAATAATAATATTAAGTTT
1 TAAATA-AATAATATTAAATTT
*
1785949 TACGATAAATAATATTA
1 TA-AATAAATAATATTA
1785966 TTTATTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (21 bp):
TAAATAAATAATATTAAATTT
Found at i:1791336 original size:41 final size:41
Alignment explanation
Indices: 1791285--1791805 Score: 471
Period size: 41 Copynumber: 12.6 Consensus size: 41
1791275 TCATCGATAA
*
1791285 TGGCGTTTTT-TCAACAAACGCCG-TAAAAGAGTAGTACTTTAG
1 TGGCGTTTTTAT--ACAAACGCCGCT-AAAGACTAGTACTTTAG
* *
1791327 TGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAATTTAG
1 TGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTTAG
* * * * *
1791368 TGGCATTTTTTTACAAACGCCGCTATAGAATTGTACTTTAG
1 TGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTTAG
* * * * *
1791409 TGGCGTTTTTATACAAACGACGTTATACAC-ATGTACTATAG
1 TGGCGTTTTTATACAAACGCCGCTAAAGACTA-GTACTTTAG
* * *
1791450 TAGCGTTTTGTTTACAAACGCCGCTAAAGACTCA-TAATTTAG
1 TGGCGTTTT-TATACAAACGCCGCTAAAGACT-AGTACTTTAG
1791492 TGGCGTTTTTATACAAACGCCGCTAAAGACTCA-TACTTTAG
1 TGGCGTTTTTATACAAACGCCGCTAAAGACT-AGTACTTTAG
* *
1791533 TGGCGTTTTTATACAAACTCCGCTAAAGACGCA-TACTTTAG
1 TGGCGTTTTTATACAAACGCCGCTAAAGAC-TAGTACTTTAG
* * * * * * *
1791574 TGGCATTTTTATTCAAACGCCGTTATACACTTGTACTATAG
1 TGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTTAG
* * * * * *
1791615 TGGTGTTTGTGTTTACAAACGTCACTAAAGACTCGTAATTTAG
1 TGGCGTTT-T-TATACAAACGCCGCTAAAGACTAGTACTTTAG
* * * *
1791658 TGGCATTTTTATACAAACGCCACTAAAGACTCGTACTTTAT
1 TGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTTAG
* * * * *
1791699 TGACATTTTTATACAAACGCCACTAAAGACTCGTACTATAG
1 TGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTTAG
* * * *
1791740 TGGCGTTTTTATTCAAACGCCGCTATACG-CTTGTACTATAG
1 TGGCGTTTTTATACAAACGCCGCTA-AAGACTAGTACTTTAG
*
1791781 TGGCGTTTGTGTTTACAAACGCCGC
1 TGGCGTTT-T-TATACAAACGCCGC
1791806 AAGTTTACAA
Statistics
Matches: 398, Mismatches: 68, Indels: 25
0.81 0.14 0.05
Matches are distributed among these distances:
41 310 0.78
42 46 0.12
43 41 0.10
44 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (41 bp):
TGGCGTTTTTATACAAACGCCGCTAAAGACTAGTACTTTAG
Found at i:1791490 original size:124 final size:123
Alignment explanation
Indices: 1791318--1791764 Score: 367
Period size: 124 Copynumber: 3.6 Consensus size: 123
1791308 TAAAAGAGTA
* * * *
1791318 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTTTACA
1 GTACTATAGTAGCGTTTTTATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACA
* **
1791383 AACGCCGCTATAGAATTGTACTTTAGTGGCGTTTTTATACAAACGACGTTATACACAT
66 AACGCCGCTAAAGAATCATACTTTAGTGGCGTTTTTATACAAACGACGTTATACACAT
* *
1791441 GTACTATAGTAGCGTTTTGTTTACAAACGCCGCTAAAGACTCATAATTTAGTGGCGTTTTTATAC
1 GTACTATAGTAGCGTTTT-TATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATAC
* ** * * * **
1791506 AAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACTCCGCTAAAGACGC
65 AAACGCCGCTAAAGAATCATACTTTAGTGGCGTTTTTATACAAACGACGTTATACACAT
* * * * * * * * ** * * ** *
1791565 ATACTTTAGTGGCATTTTTATTCAAACGCCGTTATACACTTGTACTATAGTGGTGTTTGTGTTTA
1 GTACTATAGTAGCGTTTTTATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTT-T-TATA
* * * * * * * ** * *
1791630 CAAACGTCACTAAAGACTCGTAATTTAGTGGCATTTTTATACAAACGCCACTAAAGAC-T
64 CAAACGCCGCTAAAGAATCATACTTTAGTGGCGTTTTTATACAAACGACGTTATACACAT
* * * * * * * * *
1791689 CGTACTTTA-TTGACATTTTTATACAAACGCCACTAAAGACTCGTACTATAGTGGCGTTTTTATT
1 -GTACTATAGTAG-CGTTTTTATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATA
1791753 CAAACGCCGCTA
64 CAAACGCCGCTA
1791765 TACGCTTGTA
Statistics
Matches: 266, Mismatches: 53, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
123 58 0.22
124 108 0.41
125 100 0.38
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (123 bp):
GTACTATAGTAGCGTTTTTATACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTATACA
AACGCCGCTAAAGAATCATACTTTAGTGGCGTTTTTATACAAACGACGTTATACACAT
Found at i:1791688 original size:166 final size:166
Alignment explanation
Indices: 1791322--1791803 Score: 714
Period size: 166 Copynumber: 2.9 Consensus size: 166
1791312 AGAGTAGTAC
* *
1791322 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTAATTTAGTGGCATTTTTTTACAAACG
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACG
* * * * * * *
1791387 CCGCTATAGAATTGTACTTTAGTGGCGTTTTTATACAAACGACGTTATACACATGTACTATAGTA
66 CCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATTCAAACGCCGTTATACACTTGTACTATAGTG
*
1791452 GCGTTT-TGTTTACAAACGCCGCTAAAGACTCATAA
131 GCGTTTGTGTTTACAAACGCCACTAAAGACTCATAA
* * *
1791487 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACT
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACG
* * *
1791552 CCGCTAAAGACGCATACTTTAGTGGCATTTTTATTCAAACGCCGTTATACACTTGTACTATAGTG
66 CCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATTCAAACGCCGTTATACACTTGTACTATAGTG
* * *
1791617 GTGTTTGTGTTTACAAACGTCACTAAAGACTCGTAA
131 GCGTTTGTGTTTACAAACGCCACTAAAGACTCATAA
* * * *
1791653 TTTAGTGGCATTTTTATACAAACGCCACTAAAGACTCGTACTTTATTGACATTTTTATACAAACG
1 TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACG
* * * *
1791718 CCACTAAAGACTCGTACTATAGTGGCGTTTTTATTCAAACGCCGCTATACGCTTGTACTATAGTG
66 CCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATTCAAACGCCGTTATACACTTGTACTATAGTG
1791783 GCGTTTGTGTTTACAAACGCC
131 GCGTTTGTGTTTACAAACGCC
1791804 GCAAGTTTAC
Statistics
Matches: 281, Mismatches: 35, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
165 120 0.43
166 161 0.57
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (166 bp):
TTTAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTATACAAACG
CCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATTCAAACGCCGTTATACACTTGTACTATAGTG
GCGTTTGTGTTTACAAACGCCACTAAAGACTCATAA
Found at i:1796792 original size:43 final size:43
Alignment explanation
Indices: 1796744--1796987 Score: 242
Period size: 43 Copynumber: 5.7 Consensus size: 43
1796734 AAGGTAATTA
* * *
1796744 GCGGCGTTTGTATCAAAAAATGCCGCTATATGTCTGACTTTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGGTCTGACCTTTT
* * * *
1796787 GCGGCGTTTGTGTTC-AAAAACGCCGTTATAGGTCTAACATTTT
1 GCGGCGTTTGT-ATCAAAAAACGCCGCTATAGGTCTGACCTTTT
* * * *
1796830 GCGGCGTTTGTGTCCAAAAACGCCACTATAGGTATGACCTTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGGTCTGACCTTTT
* * * * *
1796873 ACGGCGTTTGT-TCTAAAAACTCCAG-TATAGGTCTTATCTTTT
1 GCGGCGTTTGTATCAAAAAACGCC-GCTATAGGTCTGACCTTTT
* *
1796915 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGGTCTGACCTTTT
* * * * *
1796958 GCGTCGTTTTTTTCTAGAAACGCCGCTATA
1 GCGGCGTTTGTATCAAAAAACGCCGCTATA
1796988 TATCATAACT
Statistics
Matches: 166, Mismatches: 30, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
42 37 0.22
43 127 0.77
44 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (43 bp):
GCGGCGTTTGTATCAAAAAACGCCGCTATAGGTCTGACCTTTT
Found at i:1796931 original size:85 final size:86
Alignment explanation
Indices: 1796744--1796966 Score: 283
Period size: 85 Copynumber: 2.6 Consensus size: 86
1796734 AAGGTAATTA
* * * *
1796744 GCGGCGTTTGTATCAAAAAATGCCGCTATATGTCTGACTTTTTGCGGCGTTTGTGTTCAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTTCAAAAACG
1796809 CCGTTATAGGTCTAACATTTT
66 CCGTTATAGGTCTAACATTTT
* * * *
1796830 GCGGCGTTTGTGTCCAAAAACGCCACTATAGGTATGACCTTTTACGGCG-TT-TGTTCTAAAAAC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTTC-AAAAAC
* *
1796893 TCCAG-TATAGGTCTTATC-TTTT
65 GCC-GTTATAGGTC-TAACATTTT
* *
1796915 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGTCGTTT
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTT
1796967 TTTTCTAGAA
Statistics
Matches: 117, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
84 5 0.04
85 65 0.56
86 47 0.40
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (86 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTGTTCAAAAACG
CCGTTATAGGTCTAACATTTT
Found at i:1797006 original size:128 final size:130
Alignment explanation
Indices: 1796741--1797006 Score: 285
Period size: 128 Copynumber: 2.1 Consensus size: 130
1796731 ATAAAGGTAA
* * *
1796741 TTAGCGGCGTTTGTATCAAAAAATGCCGCTATATGTCTGACTTTTTGCGGCGTTTGTGTTCAAAA
1 TTAGCGGCGTTTGTATCAAAAAATGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTATCCAAAA
* * * *
1796806 ACGCCGTTATAGGTCTAACATTTTGCGGCGTTTGTGTCCAAAAACGCCACTATAGGTATGACCTT
66 ACGCCGCTATAGATCTAACATTTTGCGGCGTTTGTGTCCAAAAACGCCACTATAGATATGAACTT
* *
1796871 TTA-CGGCGTTTGT-TCTAAAAACT-CCAG-TATAGGTCTTA-TCTTTTGCGGCGTTTGTATCCA
1 TTAGCGGCGTTTGTATC-AAAAAATGCC-GCTATAGGTCTGACT-TTTTGCGGCGTTTGTATCCA
* * * * * * * * *
1796931 AAAACGCCGCTATAGATCTGACCTTTTGCGTCGTTTTTTTCTAGAAACGCCGCTATATATCAT-A
63 AAAACGCCGCTATAGATCTAACATTTTGCGGCGTTTGTGTCCAAAAACGCCACTATAGAT-ATGA
1796995 AC-T
127 ACTT
1796998 TTAGCGGCG
1 TTAGCGGCG
1797007 CTGGTATTGC
Statistics
Matches: 113, Mismatches: 18, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
127 5 0.04
128 86 0.76
129 19 0.17
130 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (130 bp):
TTAGCGGCGTTTGTATCAAAAAATGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTATCCAAAA
ACGCCGCTATAGATCTAACATTTTGCGGCGTTTGTGTCCAAAAACGCCACTATAGATATGAACTT
Found at i:1797798 original size:33 final size:34
Alignment explanation
Indices: 1797710--1797799 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 34
1797700 AAAAAAATAT
* *
1797710 TATATAAAAATGTTAAAAGAAAAAAATGAAGAAAA
1 TATA-AAAAATATTAAAAGAGAAAAATGAAGAAAA
* * *
1797745 TAT--TAAATTTTAGAAA-AGAAAAAT-AATAAAA
1 TATAAAAAATATTA-AAAGAGAAAAATGAAGAAAA
1797776 TATAAAAAATATTAAAAGAGAAAA
1 TATAAAAAATATTAAAAGAGAAAA
1797800 TAAAAATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
31 9 0.20
32 17 0.38
33 16 0.36
35 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (34 bp):
TATAAAAAATATTAAAAGAGAAAAATGAAGAAAA
Found at i:1797816 original size:31 final size:31
Alignment explanation
Indices: 1797758--1797817 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
1797748 TAAATTTTAG
*
1797758 AAAAGAAAAATAATAAAATATAAAAAATATT
1 AAAAGAAAAATAATAAAATAAAAAAAATATT
1797789 AAAAGAGAAAAT-A-AAAATAAAACAAAATA
1 AAAAGA-AAAATAATAAAATAAAA-AAAATA
1797818 AAATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 8 0.31
31 13 0.50
32 5 0.19
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.17
Consensus pattern (31 bp):
AAAAGAAAAATAATAAAATAAAAAAAATATT
Found at i:1797816 original size:40 final size:39
Alignment explanation
Indices: 1797756--1797870 Score: 119
Period size: 40 Copynumber: 2.9 Consensus size: 39
1797746 ATTAAATTTT
* *
1797756 AGAAAAGAAAAAT--AATAAAATATAAAAAATATTAAAAG
1 AGAAAATAAAAATAAAACAAAATA-AAAAAATATTAAAAG
* * **
1797794 AGAAAATAAAAATAAAACAAAATAAAATAAAAAATAAGTG
1 AGAAAATAAAAATAAAACAAAATAAAA-AAATATTAAAAG
*
1797834 -GCAAAATAAAAATAAAACAAAATAAAAAAATGTTAAA
1 AG-AAAATAAAAATAAAACAAAATAAAAAAATATTAAA
1797871 TTTTAAAGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
38 12 0.19
39 10 0.16
40 41 0.65
ACGTcount: A:0.74, C:0.03, G:0.07, T:0.17
Consensus pattern (39 bp):
AGAAAATAAAAATAAAACAAAATAAAAAAATATTAAAAG
Found at i:1797819 original size:28 final size:29
Alignment explanation
Indices: 1797758--1797830 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 29
1797748 TAAATTTTAG
*
1797758 AAAAGAAAAATAATAAAATATAAAAAATATT
1 AAAAG-AAAA-AATAAAATATAAAAAATAAT
*
1797789 AAAAGAGAAAATAAAA-ATAAAACAA-AAT
1 AAAAGAAAAAATAAAATATAAAA-AATAAT
*
1797817 AAAATAAAAAATAA
1 AAAAGAAAAAATAA
1797831 GTGGCAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 20 0.54
29 9 0.24
30 3 0.08
31 5 0.14
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (29 bp):
AAAAGAAAAAATAAAATATAAAAAATAAT
Found at i:1797976 original size:18 final size:18
Alignment explanation
Indices: 1797955--1797997 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1797945 GTTGTTTTTA
*
1797955 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
1797973 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
1797991 AAATAAA
1 AAATAAA
1797998 TAATCTAAAT
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:1799754 original size:86 final size:86
Alignment explanation
Indices: 1799603--1800230 Score: 949
Period size: 86 Copynumber: 7.3 Consensus size: 86
1799593 CGGTCATAAT
* * * *
1799603 TCTTTAGATGACTCCCCTTCACGGGAAAGCCAAGTGGTATATTCCTCAAGTGGTTCCCTTTCGCG
1 TCTTTGGATGACTCCCCTTCACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGCG
1799668 GGTCTGAACCAAGTGAGATGA
66 GGTCTGAACCAAGTGAGATGA
* *
1799689 TATTTGGATGACTCCCCTTCAC-GGAAATACCATGTGGTATATTCCTC-GGTTGGTTCCCCTTCG
1 TCTTTGGATGACTCCCCTTCACGGGAAA-GCCATGTGGTATATTCCTCAGG-TGGTTCCCCTTCG
1799752 CGGGTCTGAACCAAGTGAGATGA
64 CGGGTCTGAACCAAGTGAGATGA
* *
1799775 TCTTTGGATGACTCCCCTTTACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTTGCG
1 TCTTTGGATGACTCCCCTTCACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGCG
*
1799840 GGTCTGAACTAAGTGAGATGA
66 GGTCTGAACCAAGTGAGATGA
* * * **
1799861 TCTTTGGATGACTCCCCTTCATGGGAAAGCCATGTGGTATATTCCTTAGGTGGTTCTCCTTTACG
1 TCTTTGGATGACTCCCCTTCACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGCG
*
1799926 GGTTTGAACCAAGTGAGATGA
66 GGTCTGAACCAAGTGAGATGA
* * * *
1799947 TCTTTGGATGACTTCCCTTCATGGGAAAGCTATGTGGTATATTCCTCAGGTGGTTCCCCTTCGTG
1 TCTTTGGATGACTCCCCTTCACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGCG
* *
1800012 GGTCTGAACTAAGTAAGATGA
66 GGTCTGAACCAAGTGAGATGA
* *
1800033 TCTTTGGATGACTCCCCTTCACGGGAAA-TCATGTGGTATATTCCTCAGGTTGTTCCCCTTCGCG
1 TCTTTGGATGACTCCCCTTCACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGCG
1800097 GGTCTGAACCAAGTGAGATGA
66 GGTCTGAACCAAGTGAGATGA
*
1800118 TCTTTGGATGAGC-CCCCTTCACGGGAAATCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGC
1 TCTTTGGATGA-CTCCCCTTCACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGC
** *
1800182 ATGTCTGAACCAAGTGAGGTGA
65 GGGTCTGAACCAAGTGAGATGA
*
1800204 TCTTTGGATGACTCCCTTTCACGGGAA
1 TCTTTGGATGACTCCCCTTCACGGGAA
1800231 TCCATGAGAA
Statistics
Matches: 493, Mismatches: 42, Indels: 14
0.90 0.08 0.03
Matches are distributed among these distances:
85 84 0.17
86 402 0.82
87 7 0.01
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (86 bp):
TCTTTGGATGACTCCCCTTCACGGGAAAGCCATGTGGTATATTCCTCAGGTGGTTCCCCTTCGCG
GGTCTGAACCAAGTGAGATGA
Found at i:1800179 original size:42 final size:42
Alignment explanation
Indices: 1800045--1800179 Score: 102
Period size: 44 Copynumber: 3.2 Consensus size: 42
1800035 TTTGGATGAC
*
1800045 TCCCCTTCACGGGAAAT-CATGTGGTATATTCCTCAGGTTGT
1 TCCCCTTCACGGGAAATCCATGTGGTATATTCCTCAGGTGGT
* * * **
1800086 TCCCCTTCGCGGGTCTGAA-CCAAGTGAG-ATGA-T-CTTTGGATGAG-
1 TCCCCTTCACGGG---AAATCCATGTG-GTAT-ATTCCTCAGG-TG-GT
*
1800130 CCCCCTTCACGGGAAATCCATGTGGTATATTCCTCAGGTGGT
1 TCCCCTTCACGGGAAATCCATGTGGTATATTCCTCAGGTGGT
1800172 TCCCCTTC
1 TCCCCTTC
1800180 GCATGTCTGA
Statistics
Matches: 68, Mismatches: 13, Indels: 25
0.64 0.12 0.24
Matches are distributed among these distances:
41 17 0.25
42 18 0.26
43 8 0.12
44 22 0.32
45 3 0.04
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (42 bp):
TCCCCTTCACGGGAAATCCATGTGGTATATTCCTCAGGTGGT
Found at i:1804185 original size:12 final size:12
Alignment explanation
Indices: 1804168--1804193 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1804158 TTATGCATGA
1804168 AGCATGAGAATT
1 AGCATGAGAATT
1804180 AGCATGAGAATT
1 AGCATGAGAATT
1804192 AG
1 AG
1804194 AGGCATTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.27, T:0.23
Consensus pattern (12 bp):
AGCATGAGAATT
Found at i:1815132 original size:18 final size:18
Alignment explanation
Indices: 1815106--1815148 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
1815096 TTTAAATTTA
* * *
1815106 TTTAATTAATTATTTTCT
1 TTTATTTAATTATTATAT
*
1815124 TTTATTTAATTCTTATAT
1 TTTATTTAATTATTATAT
1815142 TTTATTT
1 TTTATTT
1815149 TAAAAACAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTAATTATTATAT
Found at i:1818147 original size:15 final size:15
Alignment explanation
Indices: 1818127--1818168 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
1818117 TTTAGCATAC
*
1818127 TTTATTTCATTTTAA
1 TTTATTTCATTTCAA
*
1818142 TTTATTTCATTTCAT
1 TTTATTTCATTTCAA
*
1818157 TTTATTTTATTT
1 TTTATTTCATTT
1818169 ATCAAATGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTCATTTCAA
Found at i:1818153 original size:20 final size:20
Alignment explanation
Indices: 1818130--1818168 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1818120 AGCATACTTT
1818130 ATTTCATTTTAATTTATTTC
1 ATTTCATTTTAATTTATTTC
*
1818150 ATTTCATTTTATTTTATTT
1 ATTTCATTTTAATTTATTT
1818169 ATCAAATGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTCATTTTAATTTATTTC
Found at i:1819919 original size:22 final size:21
Alignment explanation
Indices: 1819894--1819934 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1819884 CTTTCCTCGG
*
1819894 TTTTATAAAAGTTTTTCTTTTC
1 TTTT-TAAAAGTTCTTCTTTTC
*
1819916 TTTTTCAAAGTTCTTCTTT
1 TTTTTAAAAGTTCTTCTTT
1819935 GTTTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.12, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTTTAAAAGTTCTTCTTTTC
Found at i:1822017 original size:13 final size:14
Alignment explanation
Indices: 1821999--1822031 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
1821989 AAAAGTTTAT
1821999 AAAATAA-TTAAAA
1 AAAATAATTTAAAA
1822012 AAAATAATTTTAAAA
1 AAAATAA-TTTAAAA
1822027 AAAAT
1 AAAAT
1822032 CTTATAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
15 11 0.61
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATAATTTAAAA
Found at i:1822434 original size:20 final size:20
Alignment explanation
Indices: 1822409--1822455 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
1822399 GTCTGGCAAT
1822409 GAACCGGCTAAAAAACGGTA
1 GAACCGGCTAAAAAACGGTA
* * *
1822429 GAACCGACTGAAAACCGGTA
1 GAACCGGCTAAAAAACGGTA
*
1822449 AAACCGG
1 GAACCGG
1822456 GGTGAATTGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.23, G:0.26, T:0.09
Consensus pattern (20 bp):
GAACCGGCTAAAAAACGGTA
Found at i:1824423 original size:317 final size:310
Alignment explanation
Indices: 1823787--1824716 Score: 1020
Period size: 305 Copynumber: 3.0 Consensus size: 310
1823777 AATATGATGA
* * *
1823787 ATCAAAGCGTCACGAATAAAATTTATTAGTGACAAATGTA-AACGTCACTAATTCAAACCGAATT
1 ATCAAAGTGTCACGAATAAAATTTATTAGTGACAAAT-TACAA-GTCACTAATTCAAATCTAATT
* *
1823851 GACATTATAATAAAACGTCACTAATAC-TTTTTTCATTGGAGATGATTTTACAATGCCA-CCATT
64 GTCATTATAATAAAACGTCACTAATACTTTTTTTCATTGGAGATGATTTTACAATGCCACCCTTT
* *
1823914 TTATCTAAATGTCATTAAAAGGTTTCCCACCAAATTTTTGGGAGGCAAGATTTTGATGTCAAACA
129 TTATCTAAATGTCATTAAAAGGTTTCCTACC-AATTTTT-AGAGG-AAGATTTTG-TGTCAAACA
* * * * * * * * *
1823979 TATTGTGATGAAAATCAATTACCAGTTTTGAAATTGCCATAAAAGATATAACATTAATTACCAAA
190 TATAGTGA-CAAAAACAATGACCA-TTTTAAAATTGTCATGAAAGATATAACATTAATCACTAAA
* * *
1824044 TATGACAAAAAGGAAAATG--TCACGTTATATTATATTTTGAGATGTTATACGCAACGT
253 TATGACAAAAA-GAAAATGCATCACGTTATATTATATTTTGTGATGTTATAAGCAACAT
*
1824101 ATCAAAGTATCACGAATAAAATTTATTAGTGACAAATATACAATGTCACTAATTCAAATCTAATT
1 ATCAAAGTGTCACGAATAAAATTTATTAGTGACAAAT-TACAA-GTCACTAATTCAAATCTAATT
* * *
1824166 GTCATTATAAATAAAGCATCACTAATACTTTTTTTCATTCGAGATGA-TTTACAATGCCACCCTT
64 GTCATTAT-AATAAAACGTCACTAATACTTTTTTTCATTGGAGATGATTTTACAATGCCACCCTT
* * *
1824230 TTTATCTAAATGTCATTAAAAGATTTCCTACCAATTTTTCAGAGAGATGATTTTAGCGTCAAACA
128 TTTATCTAAATGTCATTAAAAGGTTTCCTACCAATTTTT-AGAG-GAAGATTTT-GTGTCAAACA
* *
1824295 TATAGTGACAAAACACAACGACCATTTCTAAAATTGTCATGAAAGATATATCATTAATCACTAAA
190 TATAGTGACAAAA-ACAATGACCATTT-TAAAATTGTCATGAAAGATATAACATTAATCACTAAA
*
1824360 TATGACTAAAAGAAAATGCATCACGTTATATTATATTTTGTGATGTTATAAGCAACAT
253 TATGACAAAAAGAAAATGCATCACGTTATATTATATTTTGTGATGTTATAAGCAACAT
* *
1824418 ATCAAAGTGTCACGAATAAAA-TTA--A-TG------TGCAAGTCACTAATTCAAAT-TGAATCG
1 ATCAAAGTGTCACGAATAAAATTTATTAGTGACAAATTACAAGTCACTAATTCAAATCT-AATTG
* * * * * **
1824472 TCATTATAATAAAACGTCATTGATAATTTTTTTCATTGGCGACGATTTTAC-A-G-CATCAATGT
65 TCATTATAATAAAACGTCACTAATACTTTTTTTCATTGGAGATGATTTTACAATGCCA-CCCT-T
* *
1824534 TTTATCTAAATGTCATTAAAAGGTTTCCCT-CTAAATTTTTTGAAGGGAAGATTTTGGTGTCAAA
128 TTTATCTAAATGTCATTAAAAGGTTT-CCTAC-CAATTTTTAG-A-GGAAGATTTT-GTGTCAAA
* *
1824598 CATATAGTGACAAAAATCAATGACAAATTTTAAAATTGTCATGAAAGATATACCATTAATCACTA
188 CATATAGTGACAAAAA-CAATGAC-CATTTTAAAATTGTCATGAAAGATATAACATTAATCACTA
* ** * * *
1824663 AATATGACGAAAAGAAAAAAAACATCACGTTGTAGTATATTTTGTGACGTTATA
251 AATATGAC-AAAA-AGAAAATGCATCACGTTATATTATATTTTGTGATGTTATA
1824717 CGTTACGACA
Statistics
Matches: 533, Mismatches: 61, Indels: 51
0.83 0.09 0.08
Matches are distributed among these distances:
302 2 0.00
303 3 0.01
304 61 0.11
305 120 0.23
306 12 0.02
307 34 0.06
313 2 0.00
314 38 0.07
315 42 0.08
316 112 0.21
317 107 0.20
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (310 bp):
ATCAAAGTGTCACGAATAAAATTTATTAGTGACAAATTACAAGTCACTAATTCAAATCTAATTGT
CATTATAATAAAACGTCACTAATACTTTTTTTCATTGGAGATGATTTTACAATGCCACCCTTTTT
ATCTAAATGTCATTAAAAGGTTTCCTACCAATTTTTAGAGGAAGATTTTGTGTCAAACATATAGT
GACAAAAACAATGACCATTTTAAAATTGTCATGAAAGATATAACATTAATCACTAAATATGACAA
AAAGAAAATGCATCACGTTATATTATATTTTGTGATGTTATAAGCAACAT
Found at i:1825871 original size:27 final size:27
Alignment explanation
Indices: 1825803--1825865 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
1825793 ATGTGTGTGT
1825803 GTGTGTGTGTTTAAAGATTAGGAATTA
1 GTGTGTGTGTTTAAAGATTAGGAATTA
1825830 GTGTGTGTGTTTAAAGATTAGGAATTA
1 GTGTGTGTGTTTAAAGATTAGGAATTA
1825857 GTGTGTGTG
1 GTGTGTGTG
1825866 GGTAAAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.41
Consensus pattern (27 bp):
GTGTGTGTGTTTAAAGATTAGGAATTA
Found at i:1826039 original size:12 final size:12
Alignment explanation
Indices: 1826022--1826082 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
1826012 TAATATATAG
1826022 TTTTGAAAATAT
1 TTTTGAAAATAT
1826034 TTTTGAAAATAT
1 TTTTGAAAATAT
* * *
1826046 ATAT-AATATATAG
1 TTTTGAA-A-ATAT
*
1826059 TTTTGAAAACAT
1 TTTTGAAAATAT
*
1826071 TTTCGAAAATAT
1 TTTTGAAAATAT
1826083 ATATAATATA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
11 2 0.05
12 27 0.73
13 6 0.16
14 2 0.05
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTGAAAATAT
Found at i:1826061 original size:37 final size:37
Alignment explanation
Indices: 1825967--1826400 Score: 538
Period size: 37 Copynumber: 11.6 Consensus size: 37
1825957 TATACATAAC
* * *
1825967 ATATATAATATATAGTGTTGAAAGCATTTTTTCCGAAAGT
1 ATATATAATATATAGTTTTGAAAACA-TTTTT--GAAAAT
* *
1826007 ATAAATAATATATAGTTTTGAAAATATTTTTGAAAAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
*
1826044 ATATATAATATATAGTTTTGAAAACATTTTCGAAAAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
*
1826081 ATATATAATATATAGTTTT-AAAACGTTTTTTGAAAAT
1 ATATATAATATATAGTTTTGAAAAC-ATTTTTGAAAAT
* *
1826118 ATATATAATATATAGTTTTAAAAACATTTTTGAAAAC
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
* *
1826155 ATATATAATATATAGTTTGGAAAACATTATTGAAAAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
1826192 ATATATAATATATAGTTTTGAAAACATTTTTGAAAATAT
1 ATATATAATATATAGTTTTGAAAACATTTTTG-AAA-AT
* ***
1826231 ATATATAATATATAGTTTTGAAAATATTTTTTTGAAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
* * *
1826268 ATATGTAATATATAGTTTT-AAAACGTTTTCGAAATAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAA-AT
* * *
1826305 ATATATAATATATAGTTTAGAAAACATGTTTGCAAAT
1 ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
*
1826342 ATATATAATATATAAGTTTTGAAAACGTTTTTCG--AA-
1 ATATATAATATAT-AGTTTTGAAAACATTTTT-GAAAAT
*
1826378 ATATATAATAT-TAGTTTTAAAAA
1 ATATATAATATATAGTTTTGAAAA
1826401 GTATTTTATA
Statistics
Matches: 347, Mismatches: 39, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
34 10 0.03
35 1 0.00
36 25 0.07
37 216 0.62
38 35 0.10
39 38 0.11
40 22 0.06
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (37 bp):
ATATATAATATATAGTTTTGAAAACATTTTTGAAAAT
Found at i:1826436 original size:17 final size:16
Alignment explanation
Indices: 1826414--1826509 Score: 63
Period size: 17 Copynumber: 5.8 Consensus size: 16
1826404 TTTTATAGTA
1826414 TATTTATTTCTTTTTTT
1 TATTTATTT-TTTTTTT
* *
1826431 TATTTATCTGTTTATTT
1 TATTTAT-TTTTTTTTT
* *
1826448 TATTTCTTTATCTCTTTAT
1 TATTTATTT-T-T-TTTTT
*
1826467 T-TTTATTTTTTTTAT
1 TATTTATTTTTTTTTT
1826482 T-TTTATTTTTATTTTAT
1 TATTTATTTTT-TTTT-T
1826499 T-TTTATTTTTT
1 TATTTATTTTTT
1826510 AGGTCCAATA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
15 15 0.23
16 6 0.09
17 32 0.49
18 8 0.12
19 4 0.06
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.79
Consensus pattern (16 bp):
TATTTATTTTTTTTTT
Found at i:1826448 original size:21 final size:22
Alignment explanation
Indices: 1826424--1826500 Score: 90
Period size: 21 Copynumber: 3.6 Consensus size: 22
1826414 TATTTATTTC
1826424 TTTT-TTTTATTTATCTGTTTA-
1 TTTTATTTTATTTATCT-TTTAT
*
1826445 TTTTA-TTTCTTTATCTCTTTAT
1 TTTTATTTTATTTATCT-TTTAT
*
1826467 TTTTATTTTTTTTAT-TTTTAT
1 TTTTATTTTATTTATCTTTTAT
1826488 TTTTATTTTATTT
1 TTTTATTTTATTT
1826501 TTATTTTTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
21 35 0.71
22 6 0.12
23 8 0.16
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.79
Consensus pattern (22 bp):
TTTTATTTTATTTATCTTTTAT
Found at i:1826473 original size:6 final size:6
Alignment explanation
Indices: 1826416--1826508 Score: 70
Period size: 6 Copynumber: 15.5 Consensus size: 6
1826406 TTATAGTATA
* * * *
1826416 TTTATT TCTTTTT TTTATT TATCTG TTTA-T TTTATTT CTTTATCT CTTTATT
1 TTTATT T-TTATT TTTATT TTTATT TTTATT TTTA-TT -TTTAT-T -TTTATT
1826468 TTTA-- TTT-TT TTTATT TTTATT TTTA-T TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT
1826509 TAGGTCCAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
4 3 0.04
5 12 0.17
6 36 0.51
7 8 0.11
8 11 0.16
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:1826496 original size:11 final size:11
Alignment explanation
Indices: 1826462--1826507 Score: 69
Period size: 11 Copynumber: 4.3 Consensus size: 11
1826452 TCTTTATCTC
1826462 TTTATTTTTA-
1 TTTATTTTTAT
1826472 TTT-TTTTTATT
1 TTTATTTTTA-T
1826483 TTTATTTTTAT
1 TTTATTTTTAT
1826494 TTTATTTTTAT
1 TTTATTTTTAT
1826505 TTT
1 TTT
1826508 TTAGGTCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 6 0.18
10 3 0.09
11 18 0.55
12 6 0.18
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:1833532 original size:3 final size:3
Alignment explanation
Indices: 1833526--1833574 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
1833516 TTTGTGACAT
1833526 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1833574 T
1 T
1833575 ATAAAAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1833644 original size:16 final size:17
Alignment explanation
Indices: 1833593--1833644 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
1833583 TAAAAAATTA
1833593 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
1833610 GA-TT-AAA-TTAGGAGT
1 AATTTGAAAGTTA-GAGT
1833625 AATTTGAAAGTTAG-GT
1 AATTTGAAAGTTAGAGT
1833641 AATT
1 AATT
1833645 AAATTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 10 0.34
17 5 0.17
18 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:1835121 original size:37 final size:36
Alignment explanation
Indices: 1835023--1835123 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 36
1835013 TTTCGTCCTA
1835023 CTAGGATTCAAACT-CTCAAAAATAGGATAGAATTCTG
1 CTAGGATT-AAACTCCT-AAAAATAGGATAGAATTCTG
* *
1835060 CTAGGATTCAACTCCTAAAAATAGGATAGAATTTTG
1 CTAGGATTAAACTCCTAAAAATAGGATAGAATTCTG
** *
1835096 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTAAACTCCTAAAAATAGGAT
1835124 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
36 26 0.46
37 30 0.54
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (36 bp):
CTAGGATTAAACTCCTAAAAATAGGATAGAATTCTG
Found at i:1835668 original size:26 final size:26
Alignment explanation
Indices: 1835639--1835720 Score: 82
Period size: 25 Copynumber: 3.2 Consensus size: 26
1835629 TATTTATTAT
1835639 TATTTTACTATTAACGTATATAAATA
1 TATTTTACTATTAACGTATATAAATA
* ** *
1835665 TATTTT-CTCTT-TTGCTACTAT-TAT-
1 TATTTTACTATTAACG-TA-TATAAATA
1835689 TATTTTACTATTAACGTATATAAATA
1 TATTTTACTATTAACGTATATAAATA
1835715 TATTTT
1 TATTTT
1835721 CTCTTTTGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
24 10 0.24
25 16 0.38
26 16 0.38
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.54
Consensus pattern (26 bp):
TATTTTACTATTAACGTATATAAATA
Found at i:1835702 original size:50 final size:50
Alignment explanation
Indices: 1835633--1835741 Score: 218
Period size: 50 Copynumber: 2.2 Consensus size: 50
1835623 CTATTATATT
1835633 TATTATTATTTTACTATTAACGTATATAAATATATTTTCTCTTTTGCTAC
1 TATTATTATTTTACTATTAACGTATATAAATATATTTTCTCTTTTGCTAC
1835683 TATTATTATTTTACTATTAACGTATATAAATATATTTTCTCTTTTGCTAC
1 TATTATTATTTTACTATTAACGTATATAAATATATTTTCTCTTTTGCTAC
1835733 TATTATTAT
1 TATTATTAT
1835742 CATTAGATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (50 bp):
TATTATTATTTTACTATTAACGTATATAAATATATTTTCTCTTTTGCTAC
Found at i:1835893 original size:16 final size:16
Alignment explanation
Indices: 1835872--1835905 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1835862 CATGTATTTA
1835872 TATTATATTACATTAT
1 TATTATATTACATTAT
* *
1835888 TATTATTTTACTTTAT
1 TATTATATTACATTAT
1835904 TA
1 TA
1835906 AATTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTACATTAT
Found at i:1835910 original size:21 final size:22
Alignment explanation
Indices: 1835886--1835935 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
1835876 ATATTACATT
*
1835886 ATTATTATTTTACTTTATTA-A
1 ATTATTATTTTACGTTATTATA
*
1835907 ATTATT-TTTTTCGTTATTATA
1 ATTATTATTTTACGTTATTATA
*
1835928 TTTATTAT
1 ATTATTAT
1835936 ATATATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 11 0.46
21 12 0.50
22 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTATTATTTTACGTTATTATA
Found at i:1839264 original size:22 final size:22
Alignment explanation
Indices: 1839241--1839302 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
1839231 CAAAAAGGGC
1839241 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-AAAAGAAGCA
* *
1839264 AAAAAGGAAAAAACAAGAA-CA
1 AAAAAGAAAAAAAAAAGAAGCA
1839285 AAAAAGAAAGAACAAAAA
1 AAAAAGAAA-AA-AAAAA
1839303 TAAAAAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.30
22 8 0.24
23 15 0.45
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAGCA
Found at i:1839293 original size:20 final size:20
Alignment explanation
Indices: 1839241--1839309 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
1839231 CAAAAAGGGC
*
1839241 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAG-AAAAA-ACAAGAA-CA
1839264 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
1839285 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
1839305 AAAAA
1 AAAAA
1839310 AAGGACAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 17 0.41
21 7 0.17
22 6 0.15
23 10 0.24
24 1 0.02
ACGTcount: A:0.80, C:0.06, G:0.13, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:1839312 original size:18 final size:19
Alignment explanation
Indices: 1839285--1839320 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1839275 AACAAGAACA
1839285 AAAAAGAAAGAACAAAAAT
1 AAAAAGAAAGAACAAAAAT
*
1839304 AAAAA-AAAGGACAAAAA
1 AAAAAGAAAGAACAAAAA
1839321 GCACATGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.03
Consensus pattern (19 bp):
AAAAAGAAAGAACAAAAAT
Found at i:1839946 original size:22 final size:22
Alignment explanation
Indices: 1839918--1839968 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
1839908 CCCCATCAAT
1839918 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
1839940 CCTTTGAGCATCAAATTCCAAA
1 CCTTTGAGCATCAAATACCAAA
1839962 CCTTTGA
1 CCTTTGA
1839969 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:1840877 original size:36 final size:36
Alignment explanation
Indices: 1840828--1840931 Score: 154
Period size: 36 Copynumber: 2.9 Consensus size: 36
1840818 GTGCTCACCA
1840828 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
* * *
1840864 TTGTCTCTGTTGAGACCGTTTCCCTTGAAACAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
* * *
1840900 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1840932 TAAACATTGA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
Found at i:1840974 original size:50 final size:50
Alignment explanation
Indices: 1840920--1841079 Score: 133
Period size: 50 Copynumber: 3.2 Consensus size: 50
1840910 TGAGACAGTT
1840920 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAGTTTTGTC
1 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAGTTTTGTC
* * *** * * * * ** * *** *
1840970 TCTCTTGAGATAGTTTCCCTTGAAACAAAATTCCGTCTCCATTGAG-ACAGTT
1 TCTCTTGAAACA-TAAACATTGAAA-ACATTTCCCT-TGAAATGAGTTTTGTC
*
1841022 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTC
1 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAGTTTTGTC
1841072 TCTCTTGA
1 TCTCTTGA
1841080 GATAGTTTCC
Statistics
Matches: 73, Mismatches: 33, Indels: 8
0.64 0.29 0.07
Matches are distributed among these distances:
49 5 0.07
50 27 0.37
51 16 0.22
52 19 0.26
53 6 0.08
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (50 bp):
TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAGTTTTGTC
Found at i:1841022 original size:37 final size:37
Alignment explanation
Indices: 1840963--1841135 Score: 129
Period size: 37 Copynumber: 4.9 Consensus size: 37
1840953 TTGAAATGAG
*
1840963 TTTTGTCTCTC-TTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAAA
** *
1841000 TTCCGTCTCCATTGAGACAGTTTCTCTTGAAACATAAA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACA-AAA
* **
1841038 ---------CATTGAAAACA-TTTCCCTTGAAA-TGAA
1 TTTTGTCTCCATTG-AGACAGTTTCCCTTGAAACAAAA
*
1841065 TTTTGTCTCTC-TTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTC-CATTGAGACAGTTTCCCTTGAAACAAAA
* *
1841102 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACA
1841136 TAAACATTGA
Statistics
Matches: 106, Mismatches: 14, Indels: 32
0.70 0.09 0.21
Matches are distributed among these distances:
27 2 0.02
29 16 0.15
30 4 0.04
35 3 0.03
36 17 0.16
37 61 0.58
38 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (37 bp):
TTTTGTCTCCATTGAGACAGTTTCCCTTGAAACAAAA
Found at i:1841044 original size:102 final size:102
Alignment explanation
Indices: 1840846--1841200 Score: 577
Period size: 102 Copynumber: 3.5 Consensus size: 102
1840836 CTTGAGACAG
** * * ** *
1840846 TTTCCCTTGAAACAAACTTTGTCTCTGTTGAGACCGTTTCCCTTGAAAC-AAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1840910 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* ** *
1840947 TTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTCCGTCTCCAT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1841012 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
1841049 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1841114 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
** *
1841151 TTTCCCTTGAAATGAATTCCGTCTCTCTTGAGATAGTTTCTCTTGAAACA
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
1841201 TAAACATTGA
Statistics
Matches: 235, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
101 42 0.18
102 193 0.82
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:1841171 original size:167 final size:169
Alignment explanation
Indices: 1840983--1841300 Score: 552
Period size: 167 Copynumber: 1.9 Consensus size: 169
1840973 CTTGAGATAG
1840983 TTTCCCTTGAAACAAAATTCCGTCTC-CATTGAGACAGTTTCTCTTGAAACATAAACATTGAAAA
1 TTTCCCTTGAAACAAAATTCCGTCTCTC-TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAA
* *
1841047 CATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCC
65 CATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCC
1841112 CTTGAGACAG-TTTCTCTTGAAACATAAACATTGAAAACA
130 CTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
** *
1841151 TTTCCCTTGAAA-TGAATTCCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTCCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
*
1841215 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATTTTGTCTCCC
66 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCC
1841280 TTGAGACAGTTTTCTCTTGAA
131 TTGAGACAGTTTTCTCTTGAA
1841301 GCATCATCTT
Statistics
Matches: 142, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
167 118 0.83
168 24 0.17
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (169 bp):
TTTCCCTTGAAACAAAATTCCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCC
TTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:1841190 original size:65 final size:65
Alignment explanation
Indices: 1841106--1841265 Score: 293
Period size: 65 Copynumber: 2.5 Consensus size: 65
1841096 ACAAAATTTT
*
1841106 GTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTCC
1 GTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTCC
* *
1841171 GTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTC
1 GTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTCC
1841236 GTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 GTCTCTCTTGAGACAGTTTCTCTTGAAACA
1841266 AAATTTTGTC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 91 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (65 bp):
GTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTCC
Found at i:1841327 original size:103 final size:104
Alignment explanation
Indices: 1841171--1841406 Score: 255
Period size: 104 Copynumber: 2.3 Consensus size: 104
1841161 AATGAATTCC
*
1841171 GTCTCTCTTGAGATAG-TTTCTCTTGAAACATAAACATTGAAAACATTTCCCTT-GAAATGAATT
1 GTCTCTCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGGAAAT-AATT
* * * *
1841234 TCGTCT-CTCTTGAGACAGTTTCTCTTGAAACAAAATTTT
65 TCATCTCCCCGTGAGACAATTTCTCTTGAAACAAAATTTT
* * * * * * ** * *
1841273 GTCTCCCTTGAGACAGTTTTCTCTTGAAGCATCATCTTTGAATATGTTTTCCTTGGAACTAATTT
1 GTCTCTCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGGAAATAATTT
* * * *
1841338 CATCTCCCCGTGAGACAATTTCTTTTGGAACTAAGTTTT
66 CATCTCCCCGTGAGACAATTTCTCTTGAAACAAAATTTT
*
1841377 GTCTCTCTTGAGACAGTTTT-TCTTAAAACA
1 GTCTCTCTTGAGACAGTTTTCTCTTGAAACA
1841407 AAATTTTGTC
Statistics
Matches: 109, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
102 14 0.13
103 46 0.42
104 49 0.45
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (104 bp):
GTCTCTCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGGAAATAATTT
CATCTCCCCGTGAGACAATTTCTCTTGAAACAAAATTTT
Found at i:1841443 original size:37 final size:37
Alignment explanation
Indices: 1841373--1841444 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
1841363 TGGAACTAAG
* * **
1841373 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
* *
1841410 TTTTGTCTCCCTTAAGACCGTTTCCCTTGAAACAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAA
1841445 CAAATATCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.40
Consensus pattern (37 bp):
TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
Found at i:1841974 original size:98 final size:98
Alignment explanation
Indices: 1841719--1842689 Score: 777
Period size: 98 Copynumber: 9.4 Consensus size: 98
1841709 TATCTAGAGT
*
1841719 CAATTTCGACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
*
1841784 GGACGGCTGGTTGTCAACAATAATTTCCCAGTTTCAGG-GC
66 GGACGGCTGGTTGTCAAC-A-AA-----CAATTTC-GGAGC
* * * * * * * * *
1841824 CAATTTTAACTTCACAACGAATGATATTGGACCCAATACAGCACAAGCTCAACTTCACAGCGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
* ** *
1841889 GGGCGGCTGACTGTCGACAAACAATTTCGGAGC
66 GGACGGCTGGTTGTCAACAAACAATTTCGGAGC
* *
1841922 CAATCTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
*
1841987 GGACGGCTGGTTGTCAACAATAATTTCCTAGTTTCAGG-GC
66 GGACGGCTGGTTGTCAAC-A-AA----C-AATTTC-GGAGC
* * * * *
1842027 CAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAGCGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
* ** * *
1842092 GGGCGGCTGACTGTCGACAAGA-AATTTTGGAGC
66 GGACGGCTGGTTGTCAACAA-ACAATTTCGGAGC
* * *
1842125 CAATCTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAGCGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
* *
1842190 GGACGACTGGTTGTCAACAAACAATTTCCCAATTCCAGAGC
66 GGACGGCTGGTTGTCAACAAACAA--T-----TT-CGGAGC
* * * * *
1842231 CGATTTCAACTCCAC-GACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAAC
1 CAATTTCAACTTCACAG-CGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTTCACAAC
* * *
1842295 GAAGGGACGGCTGGTTGTCAACGAACAACTTTTCAGTTTCATCC
62 GAAGGGACGGCTGGTTGTCAACAAACAA--TTTC-G---GA-GC
* * * * *
1842339 GCGATTTTAACTCCAC-GACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAA
1 -CAATTTCAACTTCACAG-CGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTTCACAA
* *
1842403 TGAAGGGACGGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGC
61 CGAAGGGACGGCTGGTTGTCAAC-AA-A-----C-AATTTCGGAGC
* *
1842449 CAATTTCAACTTCGCAGCGAACGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
* * *
1842514 GGACGGCTGATTGTCAAC-AA-GATTTCGTTCAGAGT
66 GGACGGCTGGTTGTCAACAAACAATTTCG----GAGC
* * * * *
1842549 CAATTTCATCTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCACAGCGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
* ** *
1842614 GGGCGGCTGACTGTCAACAAACAATTTCCCAGTTCCAGAAC
66 GGACGGCTGGTTGTCAACAAACAATTT--C-G-----GAGC
*
1842655 CAATTTCAACTTCACAGCGGAGGATATTGGACTCG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCG
1842690 GAACAATATT
Statistics
Matches: 710, Mismatches: 107, Indels: 97
0.78 0.12 0.11
Matches are distributed among these distances:
96 5 0.01
97 5 0.01
98 158 0.22
99 1 0.00
100 80 0.11
101 2 0.00
102 4 0.01
103 5 0.01
104 8 0.01
105 152 0.21
106 114 0.16
107 3 0.00
108 3 0.00
109 158 0.22
110 3 0.00
111 2 0.00
115 4 0.01
116 1 0.00
117 2 0.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (98 bp):
CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAG
GGACGGCTGGTTGTCAACAAACAATTTCGGAGC
Found at i:1842055 original size:105 final size:103
Alignment explanation
Indices: 1841714--1842689 Score: 969
Period size: 109 Copynumber: 9.4 Consensus size: 103
1841704 CGTTTTATCT
* *
1841714 AGAGTCAATTTCGACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
1841779 CGAAGGGACGGCTGGTTGTCAACAATAATTTCCCAGTTTC
66 CGAAGGGACGGCTGGTTGTCAACAA-AATTT-CCAGTTTC
* * * * * * * * * *
1841819 AGGGCCAATTTTAACTTCACAACGAATGATATTGGACCCAATACAGCACAAGCTCAACTTCACAG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* ** * *
1841884 CGAAGGGGCGGCTGACTGTCGAC-AAA----CAATTTC
66 CGAAGGGACGGCTGGTTGTCAACAAAATTTCCAGTTTC
* * *
1841917 GGAGCCAATCTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
1841982 CGAAGGGACGGCTGGTTGTCAACAATAATTTCCTAGTTTC
66 CGAAGGGACGGCTGGTTGTCAACAA-AATTTCC-AGTTTC
* * * * * *
1842022 AGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAGCACAAGCTCAACTTCACAG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* ** * *
1842087 CGAAGGGGCGGCTGACTGTCGACAAGAA-----A-TTTT
66 CGAAGGGACGGCTGGTTGTCAACAA-AATTTCCAGTTTC
* * * *
1842120 GGAGCCAATCTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* * *
1842185 CGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTCC
66 CGAAGGGACGGCTGGTTGTCAAC-AA-AATTT-CCAGTTTC
* * * * *
1842226 AGAGCCGATTTCAACTCCAC-GACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTC
1 AGAGCCAATTTCAACTTCACAG-CGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTTC
*
1842290 ACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTTTCAGTTTC
62 ACAACGAAGGGACGGCTGGTTGTCAAC-AA-AA-TTTCCAGTTTC
** * * * * *
1842335 A-TCCGCGATTTTAACTCCAC-GACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTT
1 AGAGC-CAATTTCAACTTCACAG-CGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTT
* * *
1842398 CACAATGAAGGGACGGCTGGTTGTCAACAAACATTTTTCAAATTTC
61 CACAACGAAGGGACGGCTGGTTGTCAACAAA-A--TTTCCAGTTTC
* *
1842444 AGAGCCAATTTCAACTTCGCAGCGAACGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* *
1842509 CGAAGGGACGGCTGATTGTCAACAAGATTT-C-G-TTC
66 CGAAGGGACGGCTGGTTGTCAACAAAATTTCCAGTTTC
* * * * * *
1842544 AGAGTCAATTTCATCTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCACAG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
* ** *
1842609 CGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAGTTCC
66 CGAAGGGACGGCTGGTTGTCAAC-AA-AATTT-CCAGTTTC
* *
1842650 AGAACCAATTTCAACTTCACAGCGGAGGATATTGGACTCG
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
1842690 GAACAATATT
Statistics
Matches: 719, Mismatches: 121, Indels: 61
0.80 0.13 0.07
Matches are distributed among these distances:
98 155 0.22
99 6 0.01
100 83 0.12
101 2 0.00
102 4 0.01
103 5 0.01
104 3 0.00
105 160 0.22
106 116 0.16
107 3 0.00
108 6 0.01
109 171 0.24
110 5 0.01
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (103 bp):
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAA
CGAAGGGACGGCTGGTTGTCAACAAAATTTCCAGTTTC
Found at i:1842076 original size:203 final size:203
Alignment explanation
Indices: 1841727--1842686 Score: 1059
Period size: 203 Copynumber: 4.6 Consensus size: 203
1841717 GTCAATTTCG
*
1841727 ACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
1 ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * * * *
1841792 GGTTGTCAACAATAATTTCCCAGTTTCAGGGCCAATTTTAACTTCACAACGAATGATATTGGACC
66 GGTTGTCAACAACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
* * * * *
1841857 CAATACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCGACAAACAATTTCG-GAG
131 CAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAA-AATTTCGTGAG
1841921 CCAATCTCA
195 CCAATCTCA
1841930 ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
1 ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * *
1841995 GGTTGTCAACAATAATTTCCTAGTTTCAGGGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
66 GGTTGTCAACAACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
* * * * *
1842060 CAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCGACAAGAAATTTTG-GAG
131 CAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAA-AAATTTCGTGAG
1842124 CCAATCTCA
195 CCAATCTCA
* * * *
1842133 ACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAGCGAAGGGACGACT
1 ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
* * * * *
1842198 GGTTGTCAACAAACAATTTCCCAATTCCAGAGCCGATTTCAACTCCAC-GACGGAGGATATCGTG
66 GGTTGTCAAC-AACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATAT--TG
* * * ** *
1842262 CTACCCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTT
127 -GACCCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAAC-AA-AA-ATT
* * * * *
1842327 TCAGTTTCATCCGCGATTTTA
188 TC-G--TGA-GC-CAATCTCA
* * * *
1842348 ACTCCAC-GACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGAC
1 ACTTCACAG-CGAAGGATAT--TG-AACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC
* * * * * *
1842412 GGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGCCAATTTCAACTTCGCAGCGAACGATATT
62 GGCTGGTTGTCAAC-AACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATT
* * * * *
1842477 GGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAAC-AAGATTTCG
126 GGACCCAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAAAATTTCG
* *
1842541 TTCAGAGTCAATTTCA
191 -T--GAGCCAATCTCA
* * * * *
1842557 TCTTCACAGCGAAGGATATT-AGACTCGAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGC
1 ACTTCACAGCGAAGGATATTGA-ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGC
** * * *
1842621 TGACTGTCAACAAACAATTTCCCAGTTCCAGAACCAATTTCAACTTCACAGCGGAGGATATTGGA
65 TGGTTGTCAAC-AACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
1842686 C
129 C
1842687 TCGGAACAAT
Statistics
Matches: 652, Mismatches: 82, Indels: 43
0.84 0.11 0.06
Matches are distributed among these distances:
203 266 0.41
204 40 0.06
206 94 0.14
207 46 0.07
208 4 0.01
209 25 0.04
210 3 0.00
211 5 0.01
212 1 0.00
213 2 0.00
214 2 0.00
215 70 0.11
216 2 0.00
217 2 0.00
218 89 0.14
219 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (203 bp):
ACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCT
GGTTGTCAACAACAATTTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
CAAGACAACACAAGCTCAACTTCACAACGAAGGGACGGCTGACTGTCAACAAAAATTTCGTGAGC
CAATCTCA
Found at i:1843238 original size:37 final size:36
Alignment explanation
Indices: 1843140--1843240 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 36
1843130 TTTCGTCCTA
1843140 CTAGGATTCAAACT-CTCAAAAATAGGATAGAATTCTG
1 CTAGGATT-AAACTCCT-AAAAATAGGATAGAATTCTG
* *
1843177 CTAGGATTCAACTCCTAAAAATAGGATAGAATTTTG
1 CTAGGATTAAACTCCTAAAAATAGGATAGAATTCTG
** *
1843213 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTAAACTCCTAAAAATAGGAT
1843241 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
36 26 0.46
37 30 0.54
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (36 bp):
CTAGGATTAAACTCCTAAAAATAGGATAGAATTCTG
Found at i:1843828 original size:52 final size:51
Alignment explanation
Indices: 1843755--1843866 Score: 215
Period size: 52 Copynumber: 2.2 Consensus size: 51
1843745 CTATTATATT
1843755 TATTATTATTTTACTATTAACGTATATAAATATATATTTTCTCTTTTGCTAC
1 TATTATTATTTTACTATTAACGTATATAAATATAT-TTTTCTCTTTTGCTAC
1843807 TATTATTATTTTACTATTAACGTATATAAATATATTTTTCTCTTTTGCTAC
1 TATTATTATTTTACTATTAACGTATATAAATATATTTTTCTCTTTTGCTAC
1843858 TATTATTAT
1 TATTATTAT
1843867 CATTAGATGT
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 25 0.42
52 35 0.58
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (51 bp):
TATTATTATTTTACTATTAACGTATATAAATATATTTTTCTCTTTTGCTAC
Found at i:1844016 original size:16 final size:16
Alignment explanation
Indices: 1843997--1844030 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1843987 CATGTATTTA
1843997 TATTATATTACATTAT
1 TATTATATTACATTAT
* *
1844013 TATTATTTTACTTTAT
1 TATTATATTACATTAT
1844029 TA
1 TA
1844031 AATTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTACATTAT
Found at i:1844035 original size:21 final size:20
Alignment explanation
Indices: 1844011--1844050 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1844001 ATATTACATT
*
1844011 ATTATTATTTTACTTTATTAA
1 ATTATT-TTTTACGTTATTAA
*
1844032 ATTATTTTTTTCGTTATTA
1 ATTATTTTTTACGTTATTA
1844051 TATTTATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTATTTTTTACGTTATTAA
Found at i:1844997 original size:17 final size:16
Alignment explanation
Indices: 1844971--1845021 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
1844961 ATAAAACATT
1844971 AAAATCAAAATATTAAA
1 AAAAT-AAAATATTAAA
1844988 AAAATAAAA-A-TAATA
1 AAAATAAAATATTAA-A
*
1845003 GATAATAAAATATTAAA
1 -AAAATAAAATATTAAA
1845020 AA
1 AA
1845022 TATTGTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
14 3 0.11
15 2 0.07
16 13 0.46
17 7 0.25
18 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (16 bp):
AAAATAAAATATTAAA
Found at i:1852305 original size:2 final size:2
Alignment explanation
Indices: 1852298--1852349 Score: 95
Period size: 2 Copynumber: 25.5 Consensus size: 2
1852288 ATACATATGA
1852298 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1852340 AT AT AGT AT A
1 AT AT A-T AT A
1852350 GGCTAGGTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 47 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1852455 original size:2 final size:2
Alignment explanation
Indices: 1852448--1852486 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1852438 TGTATATTCC
*
1852448 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1852487 ATTAAGTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1861173 original size:42 final size:42
Alignment explanation
Indices: 1861109--1861564 Score: 296
Period size: 42 Copynumber: 10.5 Consensus size: 42
1861099 AGTAAACAAT
* * *
1861109 TTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGA
1 TTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGA
*
1861151 TTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGC
1 TTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGA
* * * * *
1861193 TCAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGTATGATGA
1 TTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGA
* *** * *
1861235 TTAAATCCTTCGGGTAATTTTTAAGCCTTCACGGAAG-A-GTAGTGAA
1 TTAAATCCTTCGGGTCATCAGTAAGTCTT-TC-G-AGCATG-A-TG-A
** * * *
1861281 GCAAATCCGTCAGTAAGTGCCTCCAGTAAGTCTTTCGAGCATGATGA
1 TTAAATCCTTC-G--GGT-CAT-CAGTAAGTCTTTCGAGCATGATGA
* *
1861328 TGAAATCCTT-TGGTCCATCAGTAAGTCTTTCGAGCATGATGA
1 TTAAATCCTTCGGGT-CATCAGTAAGTCTTTCGAGCATGATGA
* * * *
1861370 TTAAATCCTTCGGGT-AACTGGTAAGCCTTCACCGAAG-A-GTAGTGAA
1 TTAAATCCTTCGGGTCATC-AGTAAGTCTT--TCG-AGCATG-A-TG-A
** * * * *
1861416 GAAAATCCATCAATAAGTGCCATCAGTAAATCTTTCGAGCATGATGA
1 TTAAATCC-T---T-CGGGTCATCAGTAAGTCTTTCGAGCATGATGA
*
1861463 TGAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGA
1 TTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGA
** * * *
1861505 TTAAATCCTTCGGGTCATTTGTGAGTCTCTCGAGCAAGATGA
1 TTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGA
*
1861547 -TAAATCCTTTGGGTCATC
1 TTAAATCCTTCGGGTCATC
1861565 CATAAGACCT
Statistics
Matches: 317, Mismatches: 68, Indels: 59
0.71 0.15 0.13
Matches are distributed among these distances:
41 18 0.06
42 200 0.63
43 10 0.03
44 7 0.02
45 8 0.03
46 17 0.05
47 17 0.05
48 8 0.03
49 9 0.03
50 5 0.02
51 16 0.05
52 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (42 bp):
TTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGA
Found at i:1861198 original size:22 final size:20
Alignment explanation
Indices: 1861129--1861204 Score: 55
Period size: 22 Copynumber: 3.6 Consensus size: 20
1861119 TGGGCCATCA
*
1861129 GTAAGTCTTTCGAGCATGAT
1 GTAAGTCCTTCGAGCATGAT
* * *
1861149 GATTAAATCCTTCGGGTCATCA-
1 G--TAAGTCCTTCGAG-CATGAT
*
1861171 GTAAGTCTTTCGAGCATGAT
1 GTAAGTCCTTCGAGCATGAT
1861191 GCTCAAGTCCTTCG
1 G-T-AAGTCCTTCG
1861205 GGCCATCAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
19 4 0.10
20 12 0.29
21 1 0.02
22 20 0.49
23 4 0.10
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (20 bp):
GTAAGTCCTTCGAGCATGAT
Found at i:1861411 original size:135 final size:135
Alignment explanation
Indices: 1861166--1861519 Score: 541
Period size: 135 Copynumber: 2.6 Consensus size: 135
1861156 TCCTTCGGGT
* * * * * *
1861166 CATCAGTAAGTCTTTCGAGCATGATGCTCAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGTATG
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGTCCATCAGTAAGTCTTTCGAGCATG
* ** * * * *
1861231 ATGATTAAATCCTTCGGGTAATTTTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCCGTCAGTA
66 ATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACCGAAGAGTAGTGAAGAAAATCCATCAATA
1861296 AGTGC
131 AGTGC
*
1861301 C-TCCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTTGGTCCATCAGTAAGTCTTTCGAGCAT
1 CAT-CAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGTCCATCAGTAAGTCTTTCGAGCAT
1861365 GATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACCGAAGAGTAGTGAAGAAAATCCATCAAT
65 GATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACCGAAGAGTAGTGAAGAAAATCCATCAAT
1861430 AAGTGC
130 AAGTGC
*
1861436 CATCAGTAAATCTTTCGAGCATGATGATGAAATCCTTCGGGT-CATCAGTAAGTCTTTCGAGCAT
1 CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTC-GGTCCATCAGTAAGTCTTTCGAGCAT
1861500 GATGATTAAATCCTTCGGGT
65 GATGATTAAATCCTTCGGGT
1861520 CATTTGTGAG
Statistics
Matches: 200, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
134 1 0.00
135 195 0.98
136 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (135 bp):
CATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGTCCATCAGTAAGTCTTTCGAGCATG
ATGATTAAATCCTTCGGGTAACTGGTAAGCCTTCACCGAAGAGTAGTGAAGAAAATCCATCAATA
AGTGC
Found at i:1861469 original size:22 final size:21
Alignment explanation
Indices: 1861442--1861516 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
1861432 GTGCCATCAG
*
1861442 TAAATCTTTCGAGCATGATGA
1 TAAATCCTTCGAGCATGATGA
* *
1861463 TGAAATCCTTCGGGTCATCA-G-
1 T-AAATCCTTCGAG-CATGATGA
* *
1861484 TAAGTCTTTCGAGCATGATGA
1 TAAATCCTTCGAGCATGATGA
1861505 TTAAATCCTTCG
1 -TAAATCCTTCG
1861517 GGTCATTTGT
Statistics
Matches: 40, Mismatches: 9, Indels: 9
0.69 0.16 0.16
Matches are distributed among these distances:
19 4 0.10
20 10 0.25
21 2 0.05
22 20 0.50
23 4 0.10
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (21 bp):
TAAATCCTTCGAGCATGATGA
Found at i:1861897 original size:53 final size:53
Alignment explanation
Indices: 1861834--1862036 Score: 334
Period size: 53 Copynumber: 3.8 Consensus size: 53
1861824 ATCACACCAT
*
1861834 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGCAG
*
1861887 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGTAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGCAG
*
1861940 AAGATTGTTCGAGTTCTACTCCCTGAAGCAATAGGGAGCGAACCCGTAAGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGCAG
* * * * *
1861993 AAGATTATTCCAATTCTACTCCCTGAAGCAATAGGGAGCAAACC
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACC
1862037 GTTTTTAGAA
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 142 1.00
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (53 bp):
AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGCAG
Found at i:1862104 original size:106 final size:106
Alignment explanation
Indices: 1861834--1862083 Score: 324
Period size: 106 Copynumber: 2.4 Consensus size: 106
1861824 ATCACACCAT
* * * * *
1861834 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGCAGAAGATTGTTCGA
1 AAGATTGTTCGAGTTCTAATCCATGAAGCAAGAGGGAGCGAACCCGTAAGCAGAAGATTATTCCA
* *
1861899 GTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAAGTAG
66 ATTCTACTCCCTGAAGCAAGAGGGAGCGAAACCGTAAGTAG
* * *
1861940 AAGATTGTTCGAGTTCTACTCCCTGAAGCAATAGGGAGCGAACCCGTAAGCAGAAGATTATTCCA
1 AAGATTGTTCGAGTTCTAATCCATGAAGCAAGAGGGAGCGAACCCGTAAGCAGAAGATTATTCCA
* ***
1862005 ATTCTACTCCCTGAAGCAATAGGGAGC-AAACCGTTTTTAG
66 ATTCTACTCCCTGAAGCAAGAGGGAGCGAAACCGTAAGTAG
* *
1862045 AAGATTTTTTGAGTTCCTTAATCCATGAA-CAAGAGGGAG
1 AAGATTGTTCGAGTT-C-TAATCCATGAAGCAAGAGGGAG
1862084 TGGATCCGTC
Statistics
Matches: 127, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
105 22 0.17
106 96 0.76
107 9 0.07
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (106 bp):
AAGATTGTTCGAGTTCTAATCCATGAAGCAAGAGGGAGCGAACCCGTAAGCAGAAGATTATTCCA
ATTCTACTCCCTGAAGCAAGAGGGAGCGAAACCGTAAGTAG
Found at i:1868603 original size:12 final size:12
Alignment explanation
Indices: 1868582--1868627 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
1868572 AATTGTGGAT
*
1868582 TTTGAGATTGTG
1 TTTGATATTGTG
1868594 TTTGATATTGTG
1 TTTGATATTGTG
*
1868606 TTTGGTATTGTG
1 TTTGATATTGTG
*
1868618 TTTGGTATTG
1 TTTGATATTG
1868628 GAAATATGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:1869441 original size:20 final size:19
Alignment explanation
Indices: 1869416--1869587 Score: 92
Period size: 20 Copynumber: 8.5 Consensus size: 19
1869406 TTAAATTCGC
1869416 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATT-GAAAATCGA
* * * *
1869436 GTTGCGAAAATGAAATTTGT
1 GTTGCG-AATTGAAAATCGA
* * *
1869456 GTTGCAAAATTGAAACTCGC
1 GTTGC-GAATTGAAAATCGA
1869476 GTTGCGAATTAGAAAATCGA
1 GTTGCGAATT-GAAAATCGA
** * *
1869496 GTTGCGAAAACGAAACTCGT
1 GTTGCG-AATTGAAAATCGA
* *
1869516 GTTACGAATTTAAAAATCGA
1 GTTGCGAA-TTGAAAATCGA
** * *
1869536 GTTGCGAAAAAGAAATTCGT
1 GTTGCG-AATTGAAAATCGA
*
1869556 GTTGCGAAATTGTCAAATTCGA
1 GTTGCG-AATTG--AAAATCGA
1869578 GTTGCGAATT
1 GTTGCGAATT
1869588 CGACTTCTGT
Statistics
Matches: 113, Mismatches: 31, Indels: 15
0.71 0.19 0.09
Matches are distributed among these distances:
19 6 0.05
20 83 0.73
21 11 0.10
22 13 0.12
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (19 bp):
GTTGCGAATTGAAAATCGA
Found at i:1869452 original size:40 final size:40
Alignment explanation
Indices: 1869394--1869590 Score: 146
Period size: 40 Copynumber: 4.9 Consensus size: 40
1869384 ATTAAAAGCT
* * * *
1869394 GAGTTGTGAAATTTAAATTCGCGTTGCGAATTCGAAAATC
1 GAGTTGCGAAATTGAAATTCGAGTTGCGAATTCGAAACTC
* * * *
1869434 GAGTTGCGAAAATGAAATTTGTGTTGCAAAATT-GAAACTC
1 GAGTTGCGAAATTGAAATTCGAGTTGC-GAATTCGAAACTC
* * **
1869474 GCGTTGCG-AATTAGAAAATCGAGTTGCGAAAACGAAACTC
1 GAGTTGCGAAATT-GAAATTCGAGTTGCGAATTCGAAACTC
* * * * * *** *
1869514 GTGTTACGAATTTAAAAATCGAGTTGCGAAAAAGAAATTC
1 GAGTTGCGAAATTGAAATTCGAGTTGCGAATTCGAAACTC
*
1869554 GTGTTGCGAAATTGTCAAATTCGAGTTGCGAATTCGA
1 GAGTTGCGAAATTG--AAATTCGAGTTGCGAATTCGA
1869591 CTTCTGTGTT
Statistics
Matches: 123, Mismatches: 28, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
39 5 0.04
40 94 0.76
41 7 0.06
42 17 0.14
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (40 bp):
GAGTTGCGAAATTGAAATTCGAGTTGCGAATTCGAAACTC
Found at i:1869518 original size:60 final size:60
Alignment explanation
Indices: 1869402--1869564 Score: 182
Period size: 60 Copynumber: 2.7 Consensus size: 60
1869392 CTGAGTTGTG
* * * * * * *
1869402 AAATTTAAATTCGCGTTGCGAATTCGAAAATCGAGTTGCGAAAATGAAATTTGTGTTGCA
1 AAATTAAAAATCGCGTTGCGAATTAGAAAATCGAGTTGCGAAAACGAAACTCGTGTTACA
* * *
1869462 AAATTGAAACTCGCGTTGCGAATTAGAAAATCGAGTTGCGAAAACGAAACTCGTGTTACG
1 AAATTAAAAATCGCGTTGCGAATTAGAAAATCGAGTTGCGAAAACGAAACTCGTGTTACA
* * ** * *
1869522 AATTTAAAAATCGAGTTGCGAAAAAGAAATTCGTGTTGCGAAA
1 AAATTAAAAATCGCGTTGCGAATTAGAAAATCGAGTTGCGAAA
1869565 TTGTCAAATT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 87 1.00
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (60 bp):
AAATTAAAAATCGCGTTGCGAATTAGAAAATCGAGTTGCGAAAACGAAACTCGTGTTACA
Found at i:1871660 original size:19 final size:18
Alignment explanation
Indices: 1871621--1871660 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1871611 AAATTTTTTG
*
1871621 TTTTAATTAAAATTAATA
1 TTTTAATTAAAATTAAAA
*
1871639 TTTTTATTAAAATGTAAAA
1 TTTTAATTAAAAT-TAAAA
1871658 TTT
1 TTT
1871661 ATTTTTGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTAATTAAAATTAAAA
Found at i:1871846 original size:2 final size:2
Alignment explanation
Indices: 1871839--1871871 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1871829 ACATTCATAA
1871839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1871872 ATTTTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1895527 original size:18 final size:17
Alignment explanation
Indices: 1895500--1895533 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1895490 CAGAATGCCA
1895500 AAATGGTATCGATACTG
1 AAATGGTATCGATACTG
*
1895517 AAATAGGTATCGGTACT
1 AAAT-GGTATCGATACT
1895534 ATAGAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (17 bp):
AAATGGTATCGATACTG
Found at i:1895942 original size:15 final size:15
Alignment explanation
Indices: 1895922--1895975 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
1895912 ATTTTATTAG
*
1895922 TATGTGAATATGTTA
1 TATGTGAATATGTTC
*
1895937 TATGTGAATGTGTTC
1 TATGTGAATATGTTC
** *
1895952 TACATGAAAATGTTC
1 TATGTGAATATGTTC
1895967 TATGTGAAT
1 TATGTGAAT
1895976 GTAGTTTACT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (15 bp):
TATGTGAATATGTTC
Found at i:1896450 original size:65 final size:65
Alignment explanation
Indices: 1896367--1896494 Score: 188
Period size: 65 Copynumber: 2.0 Consensus size: 65
1896357 TATTATTTTT
* * *
1896367 ATATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTT-GGTATTTTTATTAGGATTTAG
1 ATATTATATATTTGTTTTAGGTATTTTAGTTTAAATA-GTTTTAAGTATTTTAATTAGGATTTAG
1896431 A
65 A
*
1896432 ATATTATATTATTT-TTTTAGGTATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTA
1 ATATTATA-TATTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTAGGATTTA
1896495 AGATGTTTTA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
64 5 0.09
65 47 0.82
66 5 0.09
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (65 bp):
ATATTATATATTTGTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTATTTTAATTAGGATTTAGA
Found at i:1897133 original size:10 final size:11
Alignment explanation
Indices: 1897116--1897172 Score: 50
Period size: 10 Copynumber: 5.5 Consensus size: 11
1897106 TATTTATTAC
1897116 TATATATTTAT
1 TATATATTTAT
1897127 TAT-TA-TTA-
1 TATATATTTAT
*
1897135 TATATATATAT
1 TATATATTTAT
1897146 ATATATATTTAT
1 -TATATATTTAT
* *
1897158 TTTAT-TTTAA
1 TATATATTTAT
1897168 TATAT
1 TATAT
1897173 CTTTTCAACA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
8 3 0.08
9 5 0.14
10 12 0.32
11 7 0.19
12 10 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATATTTAT
Found at i:1904730 original size:44 final size:43
Alignment explanation
Indices: 1904657--1904757 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 43
1904647 AATCCCAATG
* * *
1904657 GGTGTATCGATGCACATTTAAGGAGTGCATCGGTGCACCTTCAT
1 GGTGTATCGATGCACATTCAAGGAGTGCATCGATGCA-CTACAT
*
1904701 GGTGTATCGATGCACATTCAAGG-GATGCATCGATGCACTAGAT
1 GGTGTATCGATGCACATTCAAGGAG-TGCATCGATGCACTACAT
*
1904744 AGTGTATCGATGCA
1 GGTGTATCGATGCA
1904758 TTATGCACAA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
43 18 0.35
44 33 0.65
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
GGTGTATCGATGCACATTCAAGGAGTGCATCGATGCACTACAT
Found at i:1904736 original size:23 final size:22
Alignment explanation
Indices: 1904662--1904738 Score: 84
Period size: 23 Copynumber: 3.5 Consensus size: 22
1904652 CAATGGGTGT
*
1904662 ATCGATGCACATTTAAGGAGTGC
1 ATCGATGCACATTCAAGGA-TGC
* * * *
1904685 ATCGGTGCACCTTCATGG-TGT
1 ATCGATGCACATTCAAGGATGC
1904706 ATCGATGCACATTCAAGGGATGC
1 ATCGATGCACATTCAA-GGATGC
1904729 ATCGATGCAC
1 ATCGATGCAC
1904739 TAGATAGTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
21 15 0.35
22 2 0.05
23 26 0.60
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGATGC
Found at i:1910551 original size:65 final size:64
Alignment explanation
Indices: 1910480--1910634 Score: 168
Period size: 64 Copynumber: 2.4 Consensus size: 64
1910470 GTACACTAGG
* * * * ***
1910480 TGTGCATCGGTGCACTAATTACATTCAATGTTTCAAACA-AGCCTGGAGTGCATCGATGCATGGT
1 TGTGCATCGGTACACAAAATACATTCAATG-TTCAAA-ATAGCCAGGAGTGCATCGATGCATACC
1910544 T
64 T
* * * **
1910545 TGTGCATCAGTACACAAAATGCATTCGATGTTCAAAATATTCAGGAGTGCATCGATGCATACCT
1 TGTGCATCGGTACACAAAATACATTCAATGTTCAAAATAGCCAGGAGTGCATCGATGCATACCT
*
1910609 TGTGCATCGGTACACAAAATGCATTC
1 TGTGCATCGGTACACAAAATACATTC
1910635 GAAATTCAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
63 1 0.01
64 51 0.67
65 24 0.32
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (64 bp):
TGTGCATCGGTACACAAAATACATTCAATGTTCAAAATAGCCAGGAGTGCATCGATGCATACCT
Found at i:1910643 original size:64 final size:65
Alignment explanation
Indices: 1910524--1910664 Score: 189
Period size: 64 Copynumber: 2.2 Consensus size: 65
1910514 AAACAAGCCT
*** **
1910524 GGAGTGCATCGATGCATGGTTTGTGCATCAGTACACAAAATGCATTCGATGTTCAAA-ATATTC-
1 GGAGTGCATCGATGCATACCTTGTGCATCAGTACACAAAATGCATTCGAAATTCAAATA-ATTCA
1910587 A
65 A
* *
1910588 GGAGTGCATCGATGCATACCTTGTGCATCGGTACACAAAATGCATTCGAAATTCAATTAATTCAA
1 GGAGTGCATCGATGCATACCTTGTGCATCAGTACACAAAATGCATTCGAAATTCAAATAATTCAA
1910653 GGA-TGCATCGAT
1 GGAGTGCATCGAT
1910665 ACATTGATTG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
64 63 0.93
65 5 0.07
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (65 bp):
GGAGTGCATCGATGCATACCTTGTGCATCAGTACACAAAATGCATTCGAAATTCAAATAATTCAA
Found at i:1911728 original size:14 final size:15
Alignment explanation
Indices: 1911700--1911731 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1911690 CCCATTTCGT
1911700 TTTATTTTCATTTTA
1 TTTATTTTCATTTTA
1911715 TTTATTTT-ATTTTA
1 TTTATTTTCATTTTA
1911729 TTT
1 TTT
1911732 TATCAGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTTCATTTTA
Found at i:1911753 original size:5 final size:5
Alignment explanation
Indices: 1911699--1911734 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
1911689 ACCCATTTCG
1911699 TTTTA TTTTCA TTTTA -TTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA T
1911735 CAGATACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 20 0.69
6 5 0.17
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:1913397 original size:32 final size:32
Alignment explanation
Indices: 1913354--1913415 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
1913344 TTGAAATAGG
1913354 TTTTAGTATTTTA-ATTAAGTTTTAGGATATTAT
1 TTTTAGTATTTTATATT-AGTTTTAGG-TATTAT
*
1913387 TTTTA-TATTTTATATTTGTTTTAGGTATT
1 TTTTAGTATTTTATATTAGTTTTAGGTATT
1913416 TTAGTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (32 bp):
TTTTAGTATTTTATATTAGTTTTAGGTATTAT
Found at i:1917131 original size:15 final size:15
Alignment explanation
Indices: 1917111--1917152 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
1917101 CTTCATGGGG
*
1917111 TAAGAAGACAACGTC
1 TAAGAAGAAAACGTC
1917126 TAAGAAGAAAACGTC
1 TAAGAAGAAAACGTC
*
1917141 AAAGAAGGAAAA
1 TAAGAA-GAAAA
1917153 AGAAAACATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.57, C:0.12, G:0.21, T:0.10
Consensus pattern (15 bp):
TAAGAAGAAAACGTC
Found at i:1921650 original size:12 final size:12
Alignment explanation
Indices: 1921630--1921660 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1921620 TAATCCCGGG
*
1921630 TTTGTTTTTTCA
1 TTTGATTTTTCA
1921642 TTTGATTTTTCA
1 TTTGATTTTTCA
1921654 TTTGATT
1 TTTGATT
1921661 ATCAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.06, G:0.10, T:0.71
Consensus pattern (12 bp):
TTTGATTTTTCA
Found at i:1923483 original size:2 final size:2
Alignment explanation
Indices: 1923476--1923603 Score: 168
Period size: 2 Copynumber: 64.5 Consensus size: 2
1923466 TCAATCTACA
*
1923476 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT A- 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
* * * *
1923517 AT AT AT GT AT AT AT TT AT AT AT AT TT AT AT TT 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
* * * *
1923559 AT AT AT AT AT TT AT TT AT AT AT AT TT AT AT TT 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
1923601 AT A
1 AT A
1923604 ATTTACGAAA
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
1 1 0.01
2 106 0.99
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (2 bp):
AT
Found at i:1923869 original size:13 final size:13
Alignment explanation
Indices: 1923851--1923887 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1923841 ACTCAACGAA
*
1923851 CGTCATTAATGTG
1 CGTCATAAATGTG
1923864 CGTCATAAATGTG
1 CGTCATAAATGTG
*
1923877 TGTCATAAATG
1 CGTCATAAATG
1923888 CACGTCATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (13 bp):
CGTCATAAATGTG
Found at i:1923873 original size:85 final size:85
Alignment explanation
Indices: 1923660--1923842 Score: 280
Period size: 85 Copynumber: 2.2 Consensus size: 85
1923650 AATTACGCGT
*
1923660 GCTTCAATGACACGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
1 GCTTCAATGACACACAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
*
1923725 CAAGCAGATTTATGACGTGG
66 CAAGCAGATTTATGACGGGG
* * *
1923745 GCTTCAATGACGCACAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGT
1 GCTTCAATGACACACAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
*
1923810 C-ATCTTA-ATTTATGACGGGG
66 CAAGC--AGATTTATGACGGGG
1923830 GCTTCAATGACAC
1 GCTTCAATGACAC
1923843 TCAACGAACG
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
84 2 0.02
85 86 0.97
86 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (85 bp):
GCTTCAATGACACACAATGTAAGTCATACATGCGTGTCATAAATTTATGACACACAAATGTATGT
CAAGCAGATTTATGACGGGG
Found at i:1924636 original size:19 final size:18
Alignment explanation
Indices: 1924607--1924654 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
1924597 AATCTCTTTA
1924607 ATTTATTTATTGAATTATT
1 ATTT-TTTATTGAATTATT
* * *
1924626 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTGAATTATT
1924645 ATTTTTTATT
1 ATTTTTTATT
1924655 TTAAAAACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 7 0.29
19 16 0.67
20 1 0.04
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (18 bp):
ATTTTTTATTGAATTATT
Done.