Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008161.1 Hibiscus syriacus cultivar Beakdansim tig00110730_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: 673301
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 4
Found at i:1518 original size:59 final size:59
Alignment explanation
Indices: 1385--1520 Score: 143
Period size: 59 Copynumber: 2.3 Consensus size: 59
1375 GTGTCTCTTA
* * * * * * *
1385 ATTTTAAATTTATTTAATTTAGTCTAAATTAATGATTTAATATATTAATTTAAGTTTAT
1 ATTTAAAATTTATTCAATTTAATCCAAATTAAAGATTTAATATATTAATTTAAGGTTAC
* * *
1444 ATTTCAACTTT-TTCAATTTAATCCAAATTTAAAG-TTATAATTTATTAATTTAAGGTT-C
1 ATTTAAAATTTATTCAATTTAATCCAAA-TTAAAGATT-TAATATATTAATTTAAGGTTAC
1502 ATTTAAAATTTATTCAATT
1 ATTTAAAATTTATTCAATT
1521 GATCCTTATA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
58 24 0.38
59 39 0.62
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.51
Consensus pattern (59 bp):
ATTTAAAATTTATTCAATTTAATCCAAATTAAAGATTTAATATATTAATTTAAGGTTAC
Found at i:1646 original size:18 final size:18
Alignment explanation
Indices: 1577--1733 Score: 80
Period size: 18 Copynumber: 9.1 Consensus size: 18
1567 ATTAATAAAT
1577 TAATATATAG-TTATATA
1 TAATATATAGTTTATATA
* *
1594 TACTGTATAGTTTATATA
1 TAATATATAGTTTATATA
* **
1612 TACTA-AT-GAAT-TATA
1 TAATATATAGTTTATATA
*
1627 TAATATATAGTTTGTATA
1 TAATATATAGTTTATATA
** * *
1645 TACCATATACTATATAGGT-
1 TAATATATAGTTTATA--TA
* * ** *
1664 TTATA-ATACTGAATGTA
1 TAATATATAGTTTATATA
1681 TAATATATAG-TTATATA
1 TAATATATAGTTTATATA
*
1698 T-A-CTATAGTTTATATA
1 TAATATATAGTTTATATA
*
1714 TAATGTATAGTTTATATA
1 TAATATATAGTTTATATA
1732 TA
1 TA
1734 CCTATATATA
Statistics
Matches: 103, Mismatches: 26, Indels: 21
0.69 0.17 0.14
Matches are distributed among these distances:
15 13 0.13
16 14 0.14
17 22 0.21
18 51 0.50
19 2 0.02
20 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (18 bp):
TAATATATAGTTTATATA
Found at i:1672 original size:25 final size:25
Alignment explanation
Indices: 1624--1700 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 25
1614 CTAATGAATT
*
1624 ATATAATATATAGTTTGTATATACC
1 ATATAATATATAGTTTATATATACC
* *
1649 ATATACTATATAGGTTTATA-ATACTGA
1 ATATAATATATA-GTTTATATATAC--C
1676 ATGTATAATATATAG-TTATATATAC
1 A--TATAATATATAGTTTATATATAC
1701 TATAGTTTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
25 15 0.36
26 6 0.14
27 6 0.14
28 5 0.12
29 10 0.24
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43
Consensus pattern (25 bp):
ATATAATATATAGTTTATATATACC
Found at i:3586 original size:2 final size:2
Alignment explanation
Indices: 3574--3634 Score: 56
Period size: 2 Copynumber: 30.0 Consensus size: 2
3564 AAATATCAAC
*
3574 TA TA GTA TA TA TA TA TA TA TA TA T- TA TA TA TA GTCA TA TG TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -T-A TA TA TA
3616 -A TA TA TA GT- TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA
3635 GTTCATATGT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
1 3 0.06
2 41 0.82
3 5 0.10
4 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3597 original size:28 final size:29
Alignment explanation
Indices: 3559--3642 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 29
3549 TATGACTAAG
*
3559 TATATAAATATCA-ACTATAGT-ATATATA
1 TATATATATATCATA-TATAGTCATATATA
* *
3587 TATATATATATTATATATAGTCATATGTA
1 TATATATATATCATATATAGTCATATATA
3616 -ATATATAGTTAT-ATATATAGTTCATAT
1 TATATATA--TATCATATATAG-TCATAT
3643 GTAAACTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 24 0.50
29 15 0.31
30 9 0.19
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (29 bp):
TATATATATATCATATATAGTCATATATA
Found at i:3601 original size:17 final size:18
Alignment explanation
Indices: 3574--3634 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 18
3564 AAATATCAAC
3574 TATAGTATATATATATA--
1 TATA-TATATATATATAGT
3591 TATATAT-TATATATAGT
1 TATATATATATATATAGT
* *
3608 CATATGTA-ATATATAGT
1 TATATATATATATATAGT
3625 TATATATATA
1 TATATATATA
3635 GTTCATATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
15 8 0.22
16 3 0.08
17 24 0.67
18 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (18 bp):
TATATATATATATATAGT
Found at i:3601 original size:19 final size:18
Alignment explanation
Indices: 3574--3634 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
3564 AAATATCAAC
3574 TATAGTATATATATATATA
1 TATA-TATATATATATATA
3593 TATAT-TATATATAGTCATA
1 TATATATATATATA-T-ATA
*
3612 TGTA-ATATATAGT-TATA
1 TATATATATATA-TATATA
3629 TATATA
1 TATATA
3635 GTTCATATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
17 14 0.40
18 4 0.11
19 16 0.46
20 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (18 bp):
TATATATATATATATATA
Found at i:3653 original size:30 final size:30
Alignment explanation
Indices: 3598--3660 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
3588 ATATATATAT
3598 TATATATAGTCATATGTAATATATAGTT-A
1 TATATATAGTCATATGTAATATATAGTTCA
3627 TATATATAGTTCATATGTAA-ACTATAGTTCA
1 TATATATAG-TCATATGTAATA-TATAGTTCA
3658 TAT
1 TAT
3661 GTAAATATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
29 10 0.32
30 17 0.55
31 4 0.13
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (30 bp):
TATATATAGTCATATGTAATATATAGTTCA
Found at i:3696 original size:18 final size:18
Alignment explanation
Indices: 3631--3665 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3621 TAGTTATATA
3631 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
3649 TATAGTTCATATGTAAA
1 TATAGTTCATATGTAAA
3666 TATTAAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:3737 original size:23 final size:22
Alignment explanation
Indices: 3701--3773 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
3691 ATAGTTATAC
3701 ATATAG-TATATAAAATATAAA
1 ATATAGTTATATAAAATATAAA
*
3722 CTATAGTTTATATAAATAGTATAAA
1 ATATAG-TTATATAAA-A-TATAAA
3747 ATATAG-TATAT-AAATATAAA
1 ATATAGTTATATAAAATATAAA
*
3767 TTATAGT
1 ATATAGT
3774 ATGTAGTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
20 11 0.25
21 6 0.14
22 2 0.05
23 13 0.30
24 1 0.02
25 11 0.25
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.38
Consensus pattern (22 bp):
ATATAGTTATATAAAATATAAA
Found at i:3744 original size:25 final size:22
Alignment explanation
Indices: 3701--3764 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 22
3691 ATAGTTATAC
3701 ATATAGTATATAAA-ATATAAA
1 ATATAGTATATAAATATATAAA
*
3722 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATATAAATA-TATAAA
3747 ATATAGTATATAAATATA
1 ATATAGTATATAAATATA
3765 AATTATAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
21 5 0.14
22 2 0.05
23 18 0.49
24 1 0.03
25 11 0.30
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.38
Consensus pattern (22 bp):
ATATAGTATATAAATATATAAA
Found at i:3750 original size:32 final size:32
Alignment explanation
Indices: 3685--3751 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
3675 AGTTTATATG
*
3685 TAAACTATAGTTATACATATAGTATATAAAATA
1 TAAACTATAGTTATACAAATAG-ATATAAAATA
*
3718 TAAACTATAGTTTATATAAATAG-TATAAAATA
1 TAAACTATAG-TTATACAAATAGATATAAAATA
3750 TA
1 TA
3752 GTATATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 11 0.35
33 10 0.32
34 10 0.32
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.37
Consensus pattern (32 bp):
TAAACTATAGTTATACAAATAGATATAAAATA
Found at i:3754 original size:12 final size:13
Alignment explanation
Indices: 3685--3764 Score: 59
Period size: 13 Copynumber: 6.6 Consensus size: 13
3675 AGTTTATATG
3685 TAAACTATAGT-TA
1 TAAA-TATAGTATA
*
3698 TACATATAGTATA
1 TAAATATAGTATA
3711 T-AA-A-A-TATA
1 TAAATATAGTATA
* *
3720 -AACTATAGTTTA
1 TAAATATAGTATA
3732 TATAA-ATAGTATA
1 TA-AATATAGTATA
3745 -AAATATAGTATA
1 TAAATATAGTATA
3757 TAAATATA
1 TAAATATA
3765 AATTATAGTA
Statistics
Matches: 52, Mismatches: 6, Indels: 18
0.68 0.08 0.24
Matches are distributed among these distances:
9 5 0.10
10 2 0.04
11 4 0.08
12 19 0.37
13 21 0.40
14 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.38
Consensus pattern (13 bp):
TAAATATAGTATA
Found at i:3950 original size:13 final size:11
Alignment explanation
Indices: 3915--3952 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
3905 ATATAAATTG
*
3915 TATAGTTTATA
1 TATAATTTATA
*
3926 TATAATTCATA
1 TATAATTTATA
3937 TATAATTTATA
1 TATAATTTATA
3948 TATAA
1 TATAA
3953 ACTATGCAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:3970 original size:2 final size:2
Alignment explanation
Indices: 3815--3951 Score: 66
Period size: 2 Copynumber: 73.5 Consensus size: 2
3805 TAGGCCCCAC
*
3815 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AA AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
3855 AT -T AT A- AA ACT AT AT A- AT TT A- AA AT AT AT AT TT AT A- AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
3893 -T AT AC AT AT AT A- AT AT AA AT -T GT AT AGT TT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
3932 -T CAT AT AT A- AT TT AT AT AT A
1 AT -AT AT AT AT AT AT AT AT AT A
3952 AACTATGCAG
Statistics
Matches: 103, Mismatches: 16, Indels: 32
0.68 0.11 0.21
Matches are distributed among these distances:
1 13 0.13
2 87 0.84
3 3 0.03
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4023 original size:28 final size:27
Alignment explanation
Indices: 3991--4073 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 27
3981 TCATATAAGC
*
3991 TATATAGTATTATATTTTATACATGGTA
1 TATATAGTATTATATTTTATACAT-ATA
**
4019 TATATAGT-TTATGCTTTATACATATA
1 TATATAGTATTATATTTTATACATATA
* *
4045 TATATA-TA-TATA-TATATATATATA
1 TATATAGTATTATATTTTATACATATA
4069 TATAT
1 TATAT
4074 TAGTTGTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 15 0.31
25 4 0.08
26 8 0.17
27 13 0.27
28 8 0.17
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.51
Consensus pattern (27 bp):
TATATAGTATTATATTTTATACATATA
Found at i:4047 original size:2 final size:2
Alignment explanation
Indices: 4035--4073 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
4025 GTTTATGCTT
*
4035 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4074 TAGTTGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4738 original size:211 final size:209
Alignment explanation
Indices: 4117--4889 Score: 1084
Period size: 211 Copynumber: 3.7 Consensus size: 209
4107 TTTATATTTA
*
4117 TTAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTA-TATTTTTGTATTAATTTCAACCTC
1 TTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACT-TTTTTGTATTAATTTCAACCTC
*
4181 AAAATTTAAAATTATTTCGATTTGATCC-CTTTGTGCTGT-TTAAATATATTTAAATTTTTATTT
65 AAAATTTAAAATTATTTCGATTTGATCCTCTTTGTG-TGTGTTTAATATATTTAAATTTTTATTT
* *
4244 ATAATTTCATATTTGTTCAATTTAGTCCTCCAAA-TTTATTTGCACCTGAAATTGACCCATACTT
129 GTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAATTGA-CCATACTT
*
4308 ATTACTT-ATT-TATATT
193 ATTACTTAATTCT-TTTT
* *
4324 TTAATTGGCCCTTAACTTTTTAAAT-GGT-TAATTTAGTACTTTTTTTTATTAATTTCAACCTCA
1 TTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCA
* *
4387 AAATTTTAAA-TATTTTGATTTGATCCT-TTTGTGT-TGTTTAATATATTTAAA-TTTTA-TTGT
66 AAATTTAAAATTATTTCGATTTGATCCTCTTTGTGTGTGTTTAATATATTTAAATTTTTATTTGT
4447 AATTTCATATTTGTTCAATTTAGT-C-CCAAATTTTATTTGCATCTGAAATTGACCATACTTATT
131 AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAATTGACCATACTTATT
*
4510 ACTTATTTCTATTTT
196 ACTTAATTCT-TTTT
* * *
4525 TAAATTGACCCATAACTTTTTAAATGGGTATAA-TTAGTAC-TTTTTGTATTAA-TTCAACATCA
1 TTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCA
* * *
4587 CAATATAAAATTATTTCGATTTGATCCCTCATTAATGTGTGTGTTTAATTTATTTAAATTTTTAT
66 AAATTTAAAATTATTTCGATTTGAT-CCTC-TT--TGTGTGTGTTTAATATATTTAAATTTTTAT
*
4652 TTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATATGAAATTGATCCATAC
127 TTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAATTGA-CCATAC
4717 TTA-TACTTAATTCTTTTT
191 TTATTACTTAATTCTTTTT
4735 TTAATTGGCCCATAACTTTTTAAATGGG--TAATTTAGTACTTTTTTGTATTAATTTCAACCTCA
1 TTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCA
* * *
4798 TAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTA
66 AAATTTAAAATTATTTCGATTTGAT-CCTC-T--TTGTGTG-TGTTTAATATATTTAAATTTTTA
4863 TTTGTAATTTCATATTTGTTCAATTTA
126 TTTGTAATTTCATATTTGTTCAATTTA
4890 ATTTTAAATT
Statistics
Matches: 512, Mismatches: 28, Indels: 47
0.87 0.05 0.08
Matches are distributed among these distances:
199 20 0.04
200 39 0.08
201 78 0.15
202 19 0.04
203 18 0.04
204 23 0.04
205 41 0.08
206 8 0.02
207 40 0.08
208 8 0.02
209 35 0.07
210 43 0.08
211 81 0.16
212 59 0.12
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (209 bp):
TTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCA
AAATTTAAAATTATTTCGATTTGATCCTCTTTGTGTGTGTTTAATATATTTAAATTTTTATTTGT
AATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAATTGACCATACTTATT
ACTTAATTCTTTTT
Found at i:13996 original size:41 final size:41
Alignment explanation
Indices: 13942--14026 Score: 154
Period size: 41 Copynumber: 2.1 Consensus size: 41
13932 CCTGAAATAG
13942 TGATGGAGACTTCAACAAATGCG-AAACAAGTAAAAACCTGA
1 TGATGGAGACTTCAACAAATGCGAAAACAAGTAAAAA-CTGA
13983 TGATGGAGACTTCAACAAATGCGAAAACAAGTAAAAACTGA
1 TGATGGAGACTTCAACAAATGCGAAAACAAGTAAAAACTGA
14024 TGA
1 TGA
14027 AGCTACAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 30 0.70
42 13 0.30
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (41 bp):
TGATGGAGACTTCAACAAATGCGAAAACAAGTAAAAACTGA
Found at i:15857 original size:20 final size:20
Alignment explanation
Indices: 15832--15928 Score: 135
Period size: 20 Copynumber: 4.9 Consensus size: 20
15822 CATTAGACAA
*
15832 GGGGAATCGGTACCCCCTAG
1 GGGGAATCTGTACCCCCTAG
*
15852 GGGGAATCTGTTCCCCCT-G
1 GGGGAATCTGTACCCCCTAG
* *
15871 GGGGAATCGGTACCCCCTGG
1 GGGGAATCTGTACCCCCTAG
15891 GGGGAATCTGTA-CCCCTAGG
1 GGGGAATCTGTACCCCCTA-G
15911 GGGGAATCTGTACCCCCT
1 GGGGAATCTGTACCCCCT
15929 GGGCAATCTG
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
19 22 0.32
20 41 0.60
21 5 0.07
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (20 bp):
GGGGAATCTGTACCCCCTAG
Found at i:15886 original size:39 final size:39
Alignment explanation
Indices: 15832--15928 Score: 142
Period size: 39 Copynumber: 2.5 Consensus size: 39
15822 CATTAGACAA
*
15832 GGGGAATCGGTACCCCCTAGGGGGAATCTGTTCCCCCT-G
1 GGGGAATCGGTACCCCCTAGGGGGAATCTG-TACCCCTAG
*
15871 GGGGAATCGGTACCCCCTGGGGGGAATCTGTACCCCTAGG
1 GGGGAATCGGTACCCCCTAGGGGGAATCTGTACCCCTA-G
*
15911 GGGGAATCTGTACCCCCT
1 GGGGAATCGGTACCCCCT
15929 GGGCAATCTG
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
38 6 0.11
39 29 0.55
40 18 0.34
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (39 bp):
GGGGAATCGGTACCCCCTAGGGGGAATCTGTACCCCTAG
Found at i:17061 original size:24 final size:24
Alignment explanation
Indices: 17034--17124 Score: 107
Period size: 24 Copynumber: 3.8 Consensus size: 24
17024 CATAATTCAA
*
17034 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCATATCAG-AATCCAT
* *
17058 GTCAAGTAACAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAT
17082 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCATATCAGAATCCAT
*
17106 GTCAA-TATCATATAAGAAT
1 GTCAAGTATCATATCAGAAT
17125 TCAAATCGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
23 18 0.31
24 39 0.67
25 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAT
Found at i:18691 original size:63 final size:63
Alignment explanation
Indices: 18592--18711 Score: 213
Period size: 63 Copynumber: 1.9 Consensus size: 63
18582 TTGAACATTT
*
18592 TCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCCTTCACAAACTCTCCTAACACTC
1 TCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCATTCACAAACTCTCCTAACACTC
* *
18655 TCTGATCTTGAAACTGTTCTCTTAATAGACTTCTAGTATCATTCACAAACTCTCCTA
1 TCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCATTCACAAACTCTCCTA
18712 GGATTAAAAC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.36
Consensus pattern (63 bp):
TCTGATCTTGAAACGGTTCTCTTAACAGACTTCTAGTATCATTCACAAACTCTCCTAACACTC
Found at i:21383 original size:19 final size:19
Alignment explanation
Indices: 21347--21392 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
21337 CTAAATCCTT
*
21347 TTTCAAAATTTCATTTTGGC
1 TTTCAAAATCTCATTTT-GC
*
21367 TTTCAAAATCT-ATTTTGT
1 TTTCAAAATCTCATTTTGC
21385 TTTCAAAA
1 TTTCAAAA
21393 GAAATCGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.38
19 5 0.21
20 10 0.42
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (19 bp):
TTTCAAAATCTCATTTTGC
Found at i:22286 original size:32 final size:34
Alignment explanation
Indices: 22250--22319 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
22240 CCTTACAAAC
* *
22250 TCCCTAGTTTTT-C-TGGGCTAAACTAGAACTTT
1 TCCCTAGTTTTTACACGGGCTAAACTAGAACATT
*
22282 TCCCTAGTTTTTACACGGGCTAAGCTAGAACATT
1 TCCCTAGTTTTTACACGGGCTAAACTAGAACATT
22316 TCCC
1 TCCC
22320 CTTCACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 12 0.36
33 1 0.03
34 20 0.61
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.36
Consensus pattern (34 bp):
TCCCTAGTTTTTACACGGGCTAAACTAGAACATT
Found at i:23063 original size:22 final size:22
Alignment explanation
Indices: 23046--23112 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
23036 CTCGTATAAA
23046 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
23068 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
23090 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
23112 T
1 T
23113 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:23364 original size:29 final size:31
Alignment explanation
Indices: 23332--23390 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
23322 TAGACATAGT
*
23332 ATTTCCATACCTTTAAC-CATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
*
23361 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATACCTTTAACACATAGTGCATAT
23391 AACTTTTCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.58
30 5 0.19
31 6 0.23
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:23890 original size:66 final size:66
Alignment explanation
Indices: 23774--23923 Score: 194
Period size: 66 Copynumber: 2.2 Consensus size: 66
23764 TTTTCTCATG
* *
23774 GGGGAATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATAAACGA
1 GGGGTATCGGTT--CCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCAT-AACGA
23839 TG-A
63 TGAA
** * ** *
23842 GGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCTTGCATTCTGGAAATTCATTTCGTTGA
1 GGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATAACGATGA
23907 A
66 A
23908 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
23924 TTGAATGGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
65 4 0.05
66 58 0.79
68 11 0.15
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.28
Consensus pattern (66 bp):
GGGGTATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATAACGATGA
A
Found at i:23942 original size:20 final size:21
Alignment explanation
Indices: 23903--23944 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23893 ATTCATTTCG
*
23903 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCCGTTCCCC
*
23924 TTGAATGGGTA-CCGTTCCCC
1 TTGAAGGGGTATCCGTTCCCC
23944 T
1 T
23945 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.14, C:0.26, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTATCCGTTCCCC
Found at i:29988 original size:22 final size:22
Alignment explanation
Indices: 29971--30037 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
29961 CTCGTATAAA
29971 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
29993 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
30015 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
30037 T
1 T
30038 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:30296 original size:30 final size:31
Alignment explanation
Indices: 30255--30314 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
30245 TAGACATAGT
*
30255 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
*
30285 ATTTACATACCTTTATCACATAGTGCATAT
1 ATTTACATACCTTTAACACATAGTGCATAT
30315 AACTTTTCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:30366 original size:26 final size:28
Alignment explanation
Indices: 30330--30396 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 28
30320 TTCTGCATAA
**
30330 TCATGTCATGTAATACA-T-ATATGAAT
1 TCATGTCATGTAATACATTAATACAAAT
30356 TCATGTCATGTAATACATTTAATACAAAT
1 TCATGTCATGTAATACA-TTAATACAAAT
30385 TCATGTCATGTA
1 TCATGTCATGTA
30397 TCATAATATG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 17 0.47
28 1 0.03
29 18 0.50
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (28 bp):
TCATGTCATGTAATACATTAATACAAAT
Found at i:30842 original size:68 final size:69
Alignment explanation
Indices: 30698--30849 Score: 209
Period size: 69 Copynumber: 2.2 Consensus size: 69
30688 TTTTTCTCAT
* *
30698 GGGGAATCGGTT-CCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATAAACGA
1 GGGGTATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATAAACGA
*
30762 TGAG
66 TGAA
** * ** *
30766 GGGGTATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCTTGCATTCTGGAAATTCAT-TTCGT
1 GGGGTATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATAAACGA
30830 TGAA
66 TGAA
30834 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
30850 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
68 32 0.43
69 42 0.57
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.28
Consensus pattern (69 bp):
GGGGTATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAAATTCATAAACGA
TGAA
Found at i:30859 original size:21 final size:21
Alignment explanation
Indices: 30829--30871 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
30819 ATTCATTTCG
* *
30829 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
30850 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
30871 T
1 T
30872 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:31835 original size:22 final size:21
Alignment explanation
Indices: 31784--31848 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
31774 CGTTAGACAA
* *
31784 GGGGGAATCGGTACCCTCTGG
1 GGGGGAATCGGTTCCCCCTGG
31805 GGGGGAATCGGTTCCCCCTGG
1 GGGGGAATCGGTTCCCCCTGG
*
31826 GGTGGGAATCTGTTCCCCCTGG
1 GG-GGGAATCGGTTCCCCCTGG
31848 G
1 G
31849 CAATCTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 21 0.52
22 19 0.47
ACGTcount: A:0.11, C:0.26, G:0.42, T:0.22
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCCTGG
Found at i:41454 original size:4 final size:4
Alignment explanation
Indices: 41447--41477 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
41437 ACATGTATGT
41447 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
41478 CATAGTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:44830 original size:141 final size:142
Alignment explanation
Indices: 44601--44885 Score: 491
Period size: 141 Copynumber: 2.0 Consensus size: 142
44591 GAAATCAAAA
* * *
44601 TTTGAGATTAACAATAGGAAATGAAAAGATATTCATTAGAAAAAAAAATAAGAAGTTAGTCTCAG
1 TTTGAGATTAACAATAGGAAATGAAAAGATATTCACTAG-AAAAAAAATAAGAAGTTAATCTCAC
44666 TCTTTGATTTTCCCTCATCCAACGATCCTAAAATAGTGTAAAGCTTTTGGTTTTACACTAGCTGT
65 TCTTTGATTTTCCCTCATCCAACGATCCTAAAATAGTGTAAAGCTTTTGGTTTTACACTAGCTGT
44731 AAGTGGATCATAC
130 AAGTGGATCATAC
* *
44744 TTTGAGATTAACAGTAGGAAATGAAAAGATATTCACTAG-AAAAAAATAAGAAGTTAATTTCACT
1 TTTGAGATTAACAATAGGAAATGAAAAGATATTCACTAGAAAAAAAATAAGAAGTTAATCTCACT
* *
44808 CTTTGATTTTCCCTCATTCAACGATCTTAAAATAGTGTAAAGCTTTTGGTTTTACACTAGCTGTA
66 CTTTGATTTTCCCTCATCCAACGATCCTAAAATAGTGTAAAGCTTTTGGTTTTACACTAGCTGTA
44873 AGTGGATCATAC
131 AGTGGATCATAC
44885 T
1 T
44886 GGTAATATGG
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 98 0.73
143 37 0.27
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (142 bp):
TTTGAGATTAACAATAGGAAATGAAAAGATATTCACTAGAAAAAAAATAAGAAGTTAATCTCACT
CTTTGATTTTCCCTCATCCAACGATCCTAAAATAGTGTAAAGCTTTTGGTTTTACACTAGCTGTA
AGTGGATCATAC
Found at i:52006 original size:20 final size:20
Alignment explanation
Indices: 51981--52035 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
51971 ACAGGTAACG
*
51981 AATTTGATAAAACCGATTGA
1 AATTTGACAAAACCGATTGA
* **
52001 AATTTGACAAAATCGATTTT
1 AATTTGACAAAACCGATTGA
*
52021 AATTTGAGAAAACCG
1 AATTTGACAAAACCG
52036 GTAAAGAGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (20 bp):
AATTTGACAAAACCGATTGA
Found at i:52373 original size:21 final size:21
Alignment explanation
Indices: 52347--52393 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
52337 GCCTATAAAT
*
52347 TATCGATACGTTAGACTCATG
1 TATCGATACCTTAGACTCATG
52368 TATCGATACCTTAGACTCATG
1 TATCGATACCTTAGACTCATG
52389 TATCG
1 TATCG
52394 GTACATGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (21 bp):
TATCGATACCTTAGACTCATG
Found at i:59991 original size:5 final size:5
Alignment explanation
Indices: 59981--60019 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
59971 TGTAACTTGT
* * *
59981 ATTTG ATTTG ATTTG ATTTG ATTTA ATTTA ATTTA ATTT
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATTT
60020 AATGCTTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (5 bp):
ATTTG
Found at i:60001 original size:15 final size:15
Alignment explanation
Indices: 59981--60022 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
59971 TGTAACTTGT
* *
59981 ATTTGATTTGATTTG
1 ATTTGATTTAATTTA
59996 ATTTGATTTAATTTA
1 ATTTGATTTAATTTA
*
60011 ATTTAATTTAAT
1 ATTTGATTTAAT
60023 GCTTGAATGT
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:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (15 bp):
ATTTGATTTAATTTA
Found at i:63398 original size:18 final size:18
Alignment explanation
Indices: 63377--63419 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
63367 TCAAAATTTG
*
63377 TATGTGAATGAAATTTTA
1 TATGTGAATGAAATTATA
*
63395 TATGTGAATGAAATTATG
1 TATGTGAATGAAATTATA
63413 TATGTGA
1 TATGTGA
63420 TGACCAAAGT
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:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (18 bp):
TATGTGAATGAAATTATA
Found at i:66903 original size:200 final size:200
Alignment explanation
Indices: 66520--67109 Score: 740
Period size: 200 Copynumber: 3.0 Consensus size: 200
66510 TTTGTATAGG
* * *
66520 TAGTCTAGTATGTTTCTC-AACAATTTGCACGCACAAAGTATCGATACA-TGTATAACAAGTATC
1 TAGTCCAGTATGTTTCTCAAACAATTTGCACGCAGAAAGTATCGATACACT-TATCACAAGTATC
* * * * * *
66583 GATACTTATAATTTTGAAACCGATTACTTTAAAATTATAGGTAAATTTACAATGTCAACTGTAAA
65 GATACTTATAATTTCGAAACTGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAA
* * * * * * * *
66648 AGTCTACCGATTTAATGATACTAGGCGTAAACATAGAGTATCA-ATACTTTTTGTATAGTTATCA
130 AATATATCAATTTAATGATAATAGGCGTAAACATAAAGTAT-AGATACTCTTTGTATAGGTATCA
* *
66712 ATATTTT
194 ACACTTT
* * * * * *
66719 TAGTCCAGTATGCTTCTCAAAGAATTTGTATGCAGAAAATATCGATACACTTATCACAAGTATCA
1 TAGTCCAGTATGTTTCTCAAACAATTTGCACGCAGAAAGTATCGATACACTTATCACAAGTATCG
*
66784 ATACTTATAATTTCGAAACTGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAAGGGTAAAA
66 ATACTTATAATTTCGAAACTGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAA
* *
66849 ATATATCAATTTAATGATAATAGGTGTAAACATAAAGTATAGATACTCTTTGTATAGGTATCGAC
131 ATATATCAATTTAATGATAATAGGCGTAAACATAAAGTATAGATACTCTTTGTATAGGTATCAAC
66914 ACTTT
196 ACTTT
* * * * *
66919 TAGTCCAGTATATTTCTCAAATAATTTACACGAAGAAAGTATCGATACACGTATCACAAGTATCG
1 TAGTCCAGTATGTTTCTCAAACAATTTGCACGCAGAAAGTATCGATACACTTATCACAAGTATCG
*
66984 ATACTGT-TAATTTCGAAACCT-ATTACTTTAAAGTAATAGGTAAATTTATAATGTAAACGGTAA
66 ATACT-TATAATTTCGAAA-CTGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAA
* * * * * * *
67047 AAATATATCAGTTTAATGATAATATGCGTAAATATAAAGTATTGATAATTTTTGAATAGGTAT
129 AAATATATCAATTTAATGATAATAGGCGTAAACATAAAGTATAGATACTCTTTGTATAGGTAT
67110 TGATACTTTC
Statistics
Matches: 338, Mismatches: 48, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
199 17 0.05
200 317 0.94
201 4 0.01
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (200 bp):
TAGTCCAGTATGTTTCTCAAACAATTTGCACGCAGAAAGTATCGATACACTTATCACAAGTATCG
ATACTTATAATTTCGAAACTGATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAA
ATATATCAATTTAATGATAATAGGCGTAAACATAAAGTATAGATACTCTTTGTATAGGTATCAAC
ACTTT
Found at i:67689 original size:18 final size:18
Alignment explanation
Indices: 67631--67689 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
67621 CAACCAAAAC
*
67631 CTTCTTCTCAACCAAGGT
1 CTTCTTCTCAACTAAGGT
* *
67649 CATCTTCTTAACTAAGGT
1 CTTCTTCTCAACTAAGGT
* * *
67667 ATTCTTCTCAAGTAAGGG
1 CTTCTTCTCAACTAAGGT
67685 CTTCT
1 CTTCT
67690 GACCAAATCA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (18 bp):
CTTCTTCTCAACTAAGGT
Found at i:69849 original size:15 final size:15
Alignment explanation
Indices: 69829--69858 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
69819 AGAATATTAG
69829 AACATTGTTATGTAT
1 AACATTGTTATGTAT
*
69844 AACATTGTTTTGTAT
1 AACATTGTTATGTAT
69859 GATTGGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (15 bp):
AACATTGTTATGTAT
Found at i:70210 original size:18 final size:19
Alignment explanation
Indices: 70178--70213 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
70168 CAATTATGTT
70178 TTTTCAATTTGAATTTGAA
1 TTTTCAATTTGAATTTGAA
*
70197 TTTT-AATTTTAATTTGA
1 TTTTCAATTTGAATTTGA
70214 GCTCTACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (19 bp):
TTTTCAATTTGAATTTGAA
Found at i:71890 original size:19 final size:21
Alignment explanation
Indices: 71851--71890 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
71841 TGCACGCACA
*
71851 AAGTATCTATACATGTATAAT
1 AAGTATCGATACATGTATAAT
71872 AAGTATCGATAC-T-TATAAT
1 AAGTATCGATACATGTATAAT
71891 TTCGAAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
AAGTATCGATACATGTATAAT
Found at i:72557 original size:199 final size:198
Alignment explanation
Indices: 71688--72739 Score: 1241
Period size: 199 Copynumber: 5.3 Consensus size: 198
71678 TGATACCTAG
* * *
71688 AATTTTGAAACGTATTACTTTAAAGTAATACGTAAATTTACAATGTAAACGGTAAAAATCTACCG
1 AATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACTG
* * * * * * * * **
71753 ATTTAATGATAATAGGCATAAACTTAACGTATCGATACTTATTATATAAGCATCAATACTTTTTT
66 GTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTT-TTGTATAGGTATCGATACTTTTAG
*
71818 TCCAATATGCATCTCAAACAATTTGCACGCACAAAGTATCT-AT--ACATGTATAATAAGTATCG
130 TCCAATATGCTTCTC-AACAATTTGCACGCACAAAGTAT-TGATACACATGTATAA-AA-TATCG
*
71880 ATACT-TAT
191 ATA-TGTAA
* * * * *
71888 AATTTCGAAACCTATTTCTTTTAAGTAATAGGTAAATTTACAATATAAACGGTAAAAATCTACCG
1 AATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACTG
* * * *
71953 ATTTAATGATAATAGGCGTAAACATAAATTATTGATAC---T-TATA--TATCGATACTTTTATT
66 GTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTTTGTATAGGTATCGATACTTTTAGT
* * * * *
72012 CCAATATGCATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACATGTACAAATTATCGATA
131 CCAATATGCTTCTC-AACAATTTGCACGC-ACAAAGTATTGATACACATGTATAAAATATCGATA
*
72077 CT-TAT
194 -TGTAA
* * * *
72082 AATTTTGAAACCTCTTACTATAAAGTAATACGTAAATTTACAATGTAAACGGTAAAAATCTACTA
1 AATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACTG
* * * * *
72147 GTATAATTATAATAGGCGTAAACATCAAGTATCAATACTTTTTGTGTAGGTATCGATACTTTTAG
66 GTTTAATGATAATAGGCGTAAACATAAAGTATCGATAC-TTTTGTATAGGTATCGATACTTTTAG
* * * * * *
72212 TCCAGTATGCTTCTCAACAATTTTCACACACAAAGTATTGATACA-GTGTATAAAGTATCGATAC
130 TCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGATACACATGTATAAAATATCGATAT
**
72276 GTGG
195 GTAA
* * *
72280 AATTTTGAAA-CTGATTACTTTAAAGTTATAGGTAAATTTACAATGTAAATGGTAAAAGTCTACT
1 AATTTTGAAACCT-ATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACT
*
72344 GGTTTAATGATAATAGGCGTAAACATCAAGTATCGATACGTTTTGTATAGGTATCGATACTTTTA
65 GGTTTAATGATAATAGGCGTAAACATAAAGTATCGATAC-TTTTGTATAGGTATCGATACTTTTA
72409 GTCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGATACACATGTATAAAATATCGATA
129 GTCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGATACACATGTATAAAATATCGATA
*
72474 TGCAA
194 TGTAA
* * *
72479 AATTTTGAAACCAATTACTTTAAAGCT-ATAGGTAAATTTACAATGTAAACGATAAAATTCTACT
1 AATTTTGAAACCTATTACTTTAAAG-TAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACT
* * * *
72543 GGTTTAATGATAATAGGCGTAAACATAAAGTATCGATATGTTTTGTATAGATATTGATATTTTTA
65 GGTTTAATGATAATAGGCGTAAACATAAAGTATCGATA-CTTTTGTATAGGTATCGATACTTTTA
* * *
72608 GTCCAATATGCTTCTCAACAATTTGCACGCACAAAATATCGATACACATGTATAAAGTATCGATA
129 GTCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGATACACATGTATAAAATATCGATA
**
72673 TGCGA
194 TGTAA
** * * ** *
72678 AATTTCAAAAACTATTACTTTAAAGTTATATATAAATTTACAATGTAAACGGTAAAAGTCTA
1 AATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTA
72740 TCAGTATATT
Statistics
Matches: 744, Mismatches: 90, Indels: 37
0.85 0.10 0.04
Matches are distributed among these distances:
193 42 0.06
194 110 0.15
195 5 0.01
196 10 0.01
197 2 0.00
198 175 0.24
199 267 0.36
200 106 0.14
201 27 0.04
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (198 bp):
AATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTACTG
GTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTTTGTATAGGTATCGATACTTTTAGT
CCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGATACACATGTATAAAATATCGATATG
TAA
Found at i:72609 original size:397 final size:390
Alignment explanation
Indices: 71688--72739 Score: 1294
Period size: 397 Copynumber: 2.7 Consensus size: 390
71678 TGATACCTAG
* *
71688 AATTTTGAAACGTATTACTTTAAAGTAATACGTAAATTTACAATGTAAACGGTAAAAATCTACCG
1 AATTTTGAAACCTATTACTTTAAAGTAATACGTAAATTTACAATGTAAACGGTAAAAATCTACTG
* * * * * * * *
71753 ATTTAATGATAATAGGCATAAACTTAACGTATCGATACTTATTATATA-AGCATCAATACTTTTT
66 GTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTTTTGTATAGA-TATCGATA-TTTTT
* *
71817 -TTCCAATATGCATCTCAAACAATTTGCACGCACAAAGTATCT-ATACATGTATAATAAGTATCG
129 AGTCCAATATGCTTCTC-AACAATTTGCACGCACAAAGTAT-TGATACATGTAT-A-AAGTATCG
* * * * * *
71880 ATAC-TTATAATTTCGAAACCTATTTCTTTTAAGTAATAGGTAAATTTACAATATAAACGGTAAA
190 ATACGTGA-AATTTAGAAA-CTATTACTTTAAAGTTATAGGTAAATTTACAATGTAAACGGTAAA
* * *
71944 AATCTACCGATTTAATGATAATAGGCGTAAACATAAATTATTGATACTTATATATCGATACTTTT
253 AGTCTACCGATTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATATATCGATACTTTT
* *
72009 ATTCCAATATGCATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACATGTACAAATTATCG
318 AGTCCAATATGCATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACATGTACAAAATATCG
* *
72074 ATACTTAT
383 ATACTCAA
* * *
72082 AATTTTGAAACCTCTTACTATAAAGTAATACGTAAATTTACAATGTAAACGGTAAAAATCTACTA
1 AATTTTGAAACCTATTACTTTAAAGTAATACGTAAATTTACAATGTAAACGGTAAAAATCTACTG
* * * * * * *
72147 GTATAATTATAATAGGCGTAAACATCAAGTATCAATACTTTTTGTGTAGGTATCGATACTTTTAG
66 GTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTTTTGTATAGATATCGATATTTTTAG
* * *
72212 TCCAGTATGCTTCTCAACAATTTTCACACACAAAGTATTGATACAGTGTATAAAGTATCGATACG
131 TCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGATACA-TGTATAAAGTATCGATACG
* * *
72277 TGGAATTTTGAAACTGATTACTTTAAAGTTATAGGTAAATTTACAATGTAAATGGTAAAAGTCTA
195 TGAAATTTAGAAACT-ATTACTTTAAAGTTATAGGTAAATTTACAATGTAAACGGTAAAAGTCTA
* * *
72342 CTGGTTTAATGATAATAGGCGTAAACATCAAGTATCGATACGTTTTGTATAGGTATCGATACTTT
259 CCGATTTAATGATAATAGGCGTAAACATAAAGTATCGATAC----T-TATA--TATCGATACTTT
* * * *
72407 TAGTCCAATATGCTTCTC-AACAATTTGCACGC-ACAAAGTATTGATACACATGTATAAAATATC
317 TAGTCCAATATGCATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACATGTACAAAATATC
72470 GATA-TGCAA
382 GATACT-CAA
* * * *
72479 AATTTTGAAACCAATTACTTTAAAGCT-ATAGGTAAATTTACAATGTAAACGATAAAATTCTACT
1 AATTTTGAAACCTATTACTTTAAAG-TAATACGTAAATTTACAATGTAAACGGTAAAAATCTACT
*
72543 GGTTTAATGATAATAGGCGTAAACATAAAGTATCGATA-TGTTTTGTATAGATATTGATATTTTT
65 GGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACT-TTTTGTATAGATATCGATATTTTT
* *
72607 AGTCCAATATGCTTCTCAACAATTTGCACGCACAAAATATCGATACACATGTATAAAGTATCGAT
129 AGTCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGAT--ACATGTATAAAGTATCGAT
* * * **
72672 ATGCGAAATTTCAAAAACTATTACTTTAAAGTTATATATAAATTTACAATGTAAACGGTAAAAGT
192 ACGTGAAATTT-AGAAACTATTACTTTAAAGTTATAGGTAAATTTACAATGTAAACGGTAAAAGT
72737 CTA
256 CTA
72740 TCAGTATATT
Statistics
Matches: 564, Mismatches: 75, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
391 2 0.00
392 101 0.18
393 32 0.06
394 121 0.21
396 3 0.01
397 184 0.33
398 85 0.15
399 36 0.06
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (390 bp):
AATTTTGAAACCTATTACTTTAAAGTAATACGTAAATTTACAATGTAAACGGTAAAAATCTACTG
GTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTTTTGTATAGATATCGATATTTTTAG
TCCAATATGCTTCTCAACAATTTGCACGCACAAAGTATTGATACATGTATAAAGTATCGATACGT
GAAATTTAGAAACTATTACTTTAAAGTTATAGGTAAATTTACAATGTAAACGGTAAAAGTCTACC
GATTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATATATCGATACTTTTAGTCCAAT
ATGCATCTCAAACAATTTGCACGCAAAAAAGTATCGATACACATGTACAAAATATCGATACTCAA
Found at i:75516 original size:201 final size:200
Alignment explanation
Indices: 75161--75613 Score: 554
Period size: 201 Copynumber: 2.3 Consensus size: 200
75151 TGCATTGTAG
* * * *
75161 AAGTAATAGGTAAATTCACAATGTAAATGGTAAAAGTATATTGGTATAATGATAATAGCGTAAAT
1 AAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTATACTGGTATAATGAAAATAGCGTAAAT
* * * * *
75226 GCATCGTATCAATATTGTGTTATATCAGTATCGATACTTTAATTTCAGTATGCATCTCAAACAAT
66 ACAACGTATCAATATTGTGTTATATCAGAATCGATACTTTAATTCCAATATGCATCTCAAACAAT
* * *
75291 TTGCACGCAAAAACTATTGATACACATATATAAAGTATCGATGTACTCAGAATTTCGAAACCTAT
131 TTGCACGCAAAAACTATCGATACACATATACAAAGTATCGA--TACTCAGAATTCCGAAACCTAT
*
75356 TACTTTA
194 TACTATA
* * * * *
75363 AAGTAATAGGTAAATTTACAATGTAAACAGTAAAAATCTACTGGTTTAATGAAAATAGGCGTAAA
1 AAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTATACTGGTATAATGAAAATA-GCGTAAA
* * * **
75428 TATAACGTATCGATACTT-T-TT-TAT-AGGAATCGATACTTTTATTCCAATATGTTTCTCAAAC
65 TACAACGTATCAATA-TTGTGTTATATCA-GAATCGATACTTTAATTCCAATATGCATCTCAAAC
* * ***
75489 AATTTGCACGCAAAAAGTATCGATACACATGTACAAAGTATCGATACTTTTAATTCCGAAACCTA
128 AATTTGCACGCAAAAACTATCGATACACATATACAAAGTATCGATACTCAGAATTCCGAAACCTA
75554 TTACTATA
193 TTACTATA
* * *
75562 AAGTAATAGGTAAATTAATAATGTAAAGGGTAAAAGTTTACTGGTATAATGA
1 AAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTATACTGGTATAATGA
75614 TCATAGGCAT
Statistics
Matches: 214, Mismatches: 34, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
199 69 0.32
200 1 0.00
201 72 0.34
202 51 0.24
203 19 0.09
204 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (200 bp):
AAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTATACTGGTATAATGAAAATAGCGTAAAT
ACAACGTATCAATATTGTGTTATATCAGAATCGATACTTTAATTCCAATATGCATCTCAAACAAT
TTGCACGCAAAAACTATCGATACACATATACAAAGTATCGATACTCAGAATTCCGAAACCTATTA
CTATA
Found at i:75640 original size:199 final size:197
Alignment explanation
Indices: 75161--75702 Score: 588
Period size: 199 Copynumber: 2.7 Consensus size: 197
75151 TGCATTGTAG
* * *
75161 AAGTAATAGGTAAATTCACAATGTAAATGGTAAAAGTATATTGGTATAATGATAATA-GCGTAAA
1 AAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTATACTGGTATAATGATAATAGGCGTAAA
* * * * *
75225 TGCATCGTATCAATATTGTGTTATATCAGTATCGATACTTTAATTTCAGTATGCATCTCAAACAA
66 TGCA-AGTATCGATATT-TATT-TAT-AGTATCGATACTTTTA-TTCAGTATGTATCTCAAACAA
* * *
75290 TTTGCACGCAAAAACTATTGATACACATATATAAAGTATCGATGTACTCAGAATTTCGAAACCTA
126 TTTGCACGCAAAAACTATCGATACACATATACAAAGTATCGA-GTACTCAGAATTCCGAAACCTA
*
75355 TTACTTTA
190 TTACTATA
* * * * * *
75363 AAGTAATAGGTAAATTTACAATGTAAACAGTAAAAATCTACTGGTTTAATGAAAATAGGCGTAAA
1 AAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTATACTGGTATAATGATAATAGGCGTAAA
** * * *
75428 TATAACGTATCGATACTTT-TTTATAGGAATCGATACTTTTATTCCAATATGTTTCTCAAACAAT
66 TGCAA-GTATCGATA-TTTATTTATA-GTATCGATACTTTTATT-CAGTATGTATCTCAAACAAT
* * ***
75492 TTGCACGCAAAAAGTATCGATACACATGTACAAAGTATCGA-TACTTTTAATTCCGAAACCTATT
127 TTGCACGCAAAAACTATCGATACACATATACAAAGTATCGAGTACTCAGAATTCCGAAACCTATT
75556 ACTATA
192 ACTATA
* * * * * *
75562 AAGTAATAGGTAAATTAATAATGTAAAGGGTAAAAGTTTACTGGTATAATGATCATAGGCATATA
1 AAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTATACTGGTATAATGATAATAGGCGTAAA
* * *
75627 TGCCAAGTATCGATAATTTATATATACGTATCAATACTTTTAGTTTAGT-TGTATCTCAAACAAT
66 TG-CAAGTATCGAT-ATTTATTTATA-GTATCGATACTTTTA-TTCAGTATGTATCTCAAACAAT
*
75691 TTGCACTCAAAA
127 TTGCACGCAAAA
75703 TGTACAAGTA
Statistics
Matches: 284, Mismatches: 47, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
199 115 0.40
200 26 0.09
201 72 0.25
202 51 0.18
203 18 0.06
204 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (197 bp):
AAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTATACTGGTATAATGATAATAGGCGTAAA
TGCAAGTATCGATATTTATTTATAGTATCGATACTTTTATTCAGTATGTATCTCAAACAATTTGC
ACGCAAAAACTATCGATACACATATACAAAGTATCGAGTACTCAGAATTCCGAAACCTATTACTA
TA
Found at i:76300 original size:226 final size:226
Alignment explanation
Indices: 75906--76442 Score: 794
Period size: 226 Copynumber: 2.4 Consensus size: 226
75896 ATGTACACTG
* *
75906 TAATATGTTGATAATACTGATAACAAATAAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
1 TAATATGTTGATAATACTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTA
* * *
75971 A-GGCTCCATCAGCTTT-AAAGGAGCGCTACCTATTACATTAAATAAGCGCTATTTGTTATGTTA
66 AGGGC-CCATCAACTTTAAAAGGA-CGCTACCTATTACATAAAATAAGCGCTACTTGTTATGTTA
* *
76034 TTATGGTTGATAATGTGTCTAGTAATTAACATATTTTGTTATCTTCAGATTTCTAAGGCTCCATC
129 CTATGGTAGATAATGTGTCTAGTAATTAACATATTTTGTTATCTTCAGATTTCTAAGGCTCCATC
76099 AGCTTAAACTTTGGTAACATTTTAGGCGATACC
194 AGCTTAAACTTTGGTAACATTTTAGGCGATACC
* * * * *
76132 TAATATGTTGATAATACTAATAACAAATCAAGTAATTAACATATTTTATTTTTGTCGGATTTCTA
1 TAATATGTTGATAATACTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTA
*
76197 AGGGCCCATCAACTTTAAACAGGA-GTTACCTATTACATAAAATAAGCGCTACTTGTTATGTTAC
66 AGGGCCCATCAACTTTAAA-AGGACGCTACCTATTACATAAAATAAGCGCTACTTGTTATGTTAC
* * * **
76261 TATGGTAGATAATAT-TTTCAGTAATTAACATATTTTGTTATCTTCGGATTTCTAAGGCTCTGTC
130 TATGGTAGATAATGTGTCT-AGTAATTAACATATTTTGTTATCTTCAGATTTCTAAGGCTCCATC
*
76325 AGCTTAAACTTTGGTAACATTTTAGGCGTTACC
194 AGCTTAAACTTTGGTAACATTTTAGGCGATACC
* * * *
76358 TATTATGTTGATAATATTGATAACAAATCAAATAATTAACCTATTTTGTTATCATCGGATTTCTA
1 TAATATGTTGATAATACTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTA
*
76423 AGGTCCCATCAACTTTAAAA
66 AGGGCCCATCAACTTTAAAA
76443 ATGTGCTACA
Statistics
Matches: 278, Mismatches: 29, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
225 3 0.01
226 266 0.96
227 5 0.02
228 4 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (226 bp):
TAATATGTTGATAATACTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTA
AGGGCCCATCAACTTTAAAAGGACGCTACCTATTACATAAAATAAGCGCTACTTGTTATGTTACT
ATGGTAGATAATGTGTCTAGTAATTAACATATTTTGTTATCTTCAGATTTCTAAGGCTCCATCAG
CTTAAACTTTGGTAACATTTTAGGCGATACC
Found at i:82796 original size:29 final size:28
Alignment explanation
Indices: 82756--82810 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
82746 TATCATTTTG
* *
82756 TTTCGAAAAATTACTATAATAGCACCCA
1 TTTCGAAAAATTACCAGAATAGCACCCA
* *
82784 TTTCGAATTAATTCCCAGAATAGCACC
1 TTTCGAA-AAATTACCAGAATAGCACC
82811 AAAACCGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 7 0.32
29 15 0.68
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (28 bp):
TTTCGAAAAATTACCAGAATAGCACCCA
Found at i:82879 original size:12 final size:13
Alignment explanation
Indices: 82854--82895 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
82844 AACGGTCAAC
*
82854 GGTCCACGGGTCG
1 GGTCAACGGGTCG
82867 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
*
82879 GGTAAACGGGTCG
1 GGTCAACGGGTCG
82892 GGTC
1 GGTC
82896 GGGTAAACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:82897 original size:18 final size:18
Alignment explanation
Indices: 82874--82927 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
82864 TCGGGTCAAC
82874 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
*
82892 GGTCGGGTAAACTGGTCG
1 GGTCGGGTAAACGGGTCG
82910 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
82928 TGACCGGTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.17, G:0.48, T:0.19
Consensus pattern (18 bp):
GGTCGGGTAAACGGGTCG
Found at i:82926 original size:13 final size:13
Alignment explanation
Indices: 82859--82894 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
82849 TCAACGGTCC
*
82859 ACGGGTCGGGTCA
1 ACGGGTCGGGTAA
82872 AC-GGTCGGGTAA
1 ACGGGTCGGGTAA
82884 ACGGGTCGGGT
1 ACGGGTCGGGT
82895 CGGGTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.17, C:0.19, G:0.47, T:0.17
Consensus pattern (13 bp):
ACGGGTCGGGTAA
Found at i:90144 original size:13 final size:13
Alignment explanation
Indices: 90126--90167 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
90116 AACGGTCAAC
90126 GGTCAACGGGTCG
1 GGTCAACGGGTCG
90139 GGTCAAC-GGTCG
1 GGTCAACGGGTCG
*
90151 GGTAAACGGGTCG
1 GGTCAACGGGTCG
90164 GGTC
1 GGTC
90168 GGGTAAACGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.17, C:0.21, G:0.45, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:90169 original size:18 final size:18
Alignment explanation
Indices: 90146--90181 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
90136 TCGGGTCAAC
90146 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
90164 GGTCGGGTAAACGGGTCG
1 GGTCGGGTAAACGGGTCG
90182 TGACCGGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.50, T:0.17
Consensus pattern (18 bp):
GGTCGGGTAAACGGGTCG
Found at i:90181 original size:13 final size:13
Alignment explanation
Indices: 90130--90166 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
90120 GTCAACGGTC
*
90130 AACGGGTCGGGTC
1 AACGGGTCGGGTA
90143 AAC-GGTCGGGTA
1 AACGGGTCGGGTA
90155 AACGGGTCGGGT
1 AACGGGTCGGGT
90167 CGGGTAAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.19, C:0.19, G:0.46, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTA
Found at i:91769 original size:26 final size:25
Alignment explanation
Indices: 91740--91794 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
91730 TTAATTAGAT
*
91740 ATTATTTAT-AATTATATATTATTTAA
1 ATTAATTATAAATTAT-TATT-TTTAA
91766 ATTAATTATAAATTATTATTTTT-A
1 ATTAATTATAAATTATTATTTTTAA
91790 ATTAA
1 ATTAA
91795 AAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 6 0.22
25 3 0.11
26 12 0.44
27 6 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTAATTATAAATTATTATTTTTAA
Found at i:91771 original size:20 final size:20
Alignment explanation
Indices: 91727--91782 Score: 73
Period size: 17 Copynumber: 3.0 Consensus size: 20
91717 AGCATAGGCA
*
91727 AAATTAATTAGATATTATTT
1 AAATTAATTATATATTATTT
91747 --A-TAATTATATATTATTT
1 AAATTAATTATATATTATTT
*
91764 AAATTAATTATAAATTATT
1 AAATTAATTATATATTATT
91783 ATTTTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
17 15 0.48
18 1 0.03
19 1 0.03
20 14 0.45
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATTAATTATATATTATTT
Found at i:91790 original size:20 final size:20
Alignment explanation
Indices: 91739--91803 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
91729 ATTAATTAGA
* *
91739 TATTATTTATAATTATATAT
1 TATTATTTTTAATTATAAAT
**
91759 TATT-TAAATTAATTATAAAT
1 TATTAT-TTTTAATTATAAAT
* *
91779 TATTATTTTTAATTAAAAAA
1 TATTATTTTTAATTATAAAT
91799 TATTA
1 TATTA
91804 AATTCTAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTATTTTTAATTATAAAT
Found at i:93804 original size:73 final size:73
Alignment explanation
Indices: 93719--93867 Score: 208
Period size: 73 Copynumber: 2.0 Consensus size: 73
93709 TGTTCTTTAA
** * **
93719 ATCAAAGAATACTCAATAATATTGAAGTACAATGTCTTTTGCTTAGACCGATAAATCCAAATGAA
1 ATCAAAGAATACTCAATAATATCAAAGTACAATATCTTTTGCTTAGACCGATAAATCCAAACAAA
93784 ATTGTTAT
66 ATTGTTAT
* * * **
93792 ATCAAAGAATACTCAGTAATATCAAAGTATATTATCTTTTGCTTAGATTGATAAATCCAAACAAA
1 ATCAAAGAATACTCAATAATATCAAAGTACAATATCTTTTGCTTAGACCGATAAATCCAAACAAA
93857 ATTGTTAT
66 ATTGTTAT
93865 ATC
1 ATC
93868 CCCTATTCAA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (73 bp):
ATCAAAGAATACTCAATAATATCAAAGTACAATATCTTTTGCTTAGACCGATAAATCCAAACAAA
ATTGTTAT
Found at i:98075 original size:17 final size:17
Alignment explanation
Indices: 98048--98094 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
98038 TGTATAAAAA
* *
98048 TAAAAATATATTAAAATTT
1 TAAAAATATA--AAAAATG
98067 TAAAAATATAAAAAATG
1 TAAAAATATAAAAAATG
98084 TAAAAAT-TAAA
1 TAAAAATATAAA
98095 TCAATTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 4 0.15
17 12 0.46
19 10 0.38
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
TAAAAATATAAAAAATG
Found at i:98149 original size:22 final size:22
Alignment explanation
Indices: 98118--98164 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
98108 TTTAAAAAAT
* * * *
98118 AAAAATAAAAATTTGATGATAA
1 AAAAAGAAAAAATTAATAATAA
98140 AAAAAGAAAAAATTAATAATAA
1 AAAAAGAAAAAATTAATAATAA
98162 AAA
1 AAA
98165 TGTCATTAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (22 bp):
AAAAAGAAAAAATTAATAATAA
Found at i:99862 original size:28 final size:27
Alignment explanation
Indices: 99828--99912 Score: 125
Period size: 28 Copynumber: 3.0 Consensus size: 27
99818 CTCACCATTT
*
99828 ATATTATGTTGTCGAGTCAGTGCTTGAA
1 ATATTATGTTGTCGAG-CAATGCTTGAA
99856 ATATTATGTTGTCGAGCAAATGCTTGAA
1 ATATTATGTTGTCGAGC-AATGCTTGAA
*
99884 ATATTTTGTTGTCGAGCCAATGCTTGAA
1 ATATTATGTTGTCGAG-CAATGCTTGAA
99912 A
1 A
99913 GCAATAACAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.02
28 51 0.96
29 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (27 bp):
ATATTATGTTGTCGAGCAATGCTTGAA
Found at i:101159 original size:45 final size:43
Alignment explanation
Indices: 101109--101243 Score: 127
Period size: 45 Copynumber: 3.0 Consensus size: 43
101099 CTTAATATTC
101109 TATTTTTGTTTTTTTTATTTATATATATTATATTTTTACTTTTTT
1 TATTTTTGTTTTTTTTA-TTATATATATTATATTTTTA-TTTTTT
* * *
101154 TATTTTTATTTTTTTTCTTA-ATATCATGTATATCTTTA-TTTTT
1 TATTTTTGTTTTTTTTATTATATAT-AT-TATATTTTTATTTTTT
101197 TA--TTTGTTTTACTTTGTATTATATAT-TTATTATTTTTATTTGTTT
1 TATTTTTGTTTT--TTT-TATTATATATATTA-TATTTTTATTT-TTT
101242 TA
1 TA
101244 GTAAATATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
41 7 0.09
42 2 0.03
43 22 0.29
44 11 0.15
45 33 0.44
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (43 bp):
TATTTTTGTTTTTTTTATTATATATATTATATTTTTATTTTTT
Found at i:101166 original size:43 final size:43
Alignment explanation
Indices: 101119--101243 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 43
101109 TATTTTTGTT
101119 TTTTTTATTTATATATATTATATTTTTACTTTTTTTAT-TTTTA
1 TTTTTTATTTATATATATTATATTTTTA-TTTTTTTATGTTTTA
* * *
101162 TTTTTTTTCTTA-ATATCATGTATATCTTTATTTTTTATTTGTTTTA
1 TTTTTTAT-TTATATAT-AT-TATATTTTTATTTTTT-TATGTTTTA
* *
101208 CTTTGTA-TTATATAT-TTATTATTTTTATTTGTTTTA
1 TTTTTTATTTATATATATTA-TATTTTTATTT-TTTTA
101244 GTAAATATTA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
42 2 0.03
43 23 0.35
44 17 0.26
45 15 0.23
46 9 0.14
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (43 bp):
TTTTTTATTTATATATATTATATTTTTATTTTTTTATGTTTTA
Found at i:101169 original size:15 final size:15
Alignment explanation
Indices: 101109--101169 Score: 68
Period size: 15 Copynumber: 4.1 Consensus size: 15
101099 CTTAATATTC
*
101109 TATTTTTGTTTTTTT
1 TATTTTTATTTTTTT
* * * *
101124 TATTTATATATATTA
1 TATTTTTATTTTTTT
*
101139 TATTTTTACTTTTTT
1 TATTTTTATTTTTTT
101154 TATTTTTATTTTTTT
1 TATTTTTATTTTTTT
101169 T
1 T
101170 CTTAATATCA
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.79
Consensus pattern (15 bp):
TATTTTTATTTTTTT
Found at i:101253 original size:36 final size:36
Alignment explanation
Indices: 101153--101253 Score: 91
Period size: 36 Copynumber: 2.8 Consensus size: 36
101143 TTTACTTTTT
* *
101153 TTATTTTTATTT-TTTTTCTTAATATCATGTATATCTTTA
1 TTATTTTTATTTGTTTTAC-TAA-AT-AT-TATATATTTA
***
101192 -T-TTTTTATTTGTTTTACTTTGTATTATATATTTA
1 TTATTTTTATTTGTTTTACTAAATATTATATATTTA
*
101226 TTATTTTTATTTGTTTTAGTAAATATTA
1 TTATTTTTATTTGTTTTACTAAATATTA
101254 CTTTATATGT
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
34 9 0.18
35 3 0.06
36 22 0.44
37 10 0.20
38 6 0.12
ACGTcount: A:0.24, C:0.04, G:0.05, T:0.67
Consensus pattern (36 bp):
TTATTTTTATTTGTTTTACTAAATATTATATATTTA
Found at i:104540 original size:13 final size:12
Alignment explanation
Indices: 104506--104544 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 12
104496 ACAAAAAGTG
104506 AAAAAAAGAGAA
1 AAAAAAAGAGAA
104518 AAAAGCAAAGAGAA
1 AAAA--AAAGAGAA
104532 AATAAAAAGAGAA
1 AA-AAAAAGAGAA
104545 GGAAATTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.17
13 8 0.33
14 10 0.42
15 2 0.08
ACGTcount: A:0.77, C:0.03, G:0.18, T:0.03
Consensus pattern (12 bp):
AAAAAAAGAGAA
Found at i:106710 original size:65 final size:65
Alignment explanation
Indices: 106605--106805 Score: 208
Period size: 65 Copynumber: 3.1 Consensus size: 65
106595 ACAGTTTCCA
** * ** * *
106605 AGTTTC-CTTGAAACAAATTATTTGAATATGTTTTATTTGAAACAAATTTCATCTCCCTTGAGAC
1 AGTTTCTCTTGAAACAAAACATTTGAAAACATTTCACTTGAAACAAATTTCATCTCCCTTGAGAC
* * * *
106669 AGTTTCTCTTGAAACATAAACA-TTGAAAACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGA
1 AGTTTCTCTTGAAACA-AAACATTTGAAAACATTTCACTTGAAACAAATTTCATCTCCCTTGAGA
106733 C
65 C
* ** * ** * *
106734 AGTTTCCCTTGAAACAAATTATTTGAATATGTTTTATTTGAAACAAATTTCATCTCCCTTGAGAC
1 AGTTTCTCTTGAAACAAAACATTTGAAAACATTTCACTTGAAACAAATTTCATCTCCCTTGAGAC
106799 AGTTTCT
1 AGTTTCT
106806 TTTGGAACTA
Statistics
Matches: 110, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
64 9 0.08
65 98 0.89
66 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (65 bp):
AGTTTCTCTTGAAACAAAACATTTGAAAACATTTCACTTGAAACAAATTTCATCTCCCTTGAGAC
Found at i:106747 original size:36 final size:36
Alignment explanation
Indices: 106700--106889 Score: 162
Period size: 36 Copynumber: 5.4 Consensus size: 36
106690 ATTGAAAACA
*
106700 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* *
106736 TTTCCCTTGAAACAAA-----T-TAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
*** * *
106765 TTTTATTTGAAACAAATTTCATCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * * * *
106801 TTTCTTTTGGAACTAAGTTTTGTATCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* *
106838 TTTCTCTTGAAACAAATTTAGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
106874 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
106890 ATCTTTGAAT
Statistics
Matches: 121, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
28 2 0.02
29 18 0.15
30 2 0.02
31 1 0.01
34 1 0.01
35 1 0.01
36 65 0.54
37 31 0.26
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:106951 original size:65 final size:65
Alignment explanation
Indices: 106847--107020 Score: 224
Period size: 65 Copynumber: 2.6 Consensus size: 65
106837 GTTTCTCTTG
* * * **
106847 AAACAAATTTAGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
* *
106912 AAACAAATTTTGTCTCCCTTCAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
106977 TA
64 TA
* * *
106979 AAACAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACAA
1 AAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
107021 CATATATCTT
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
65 36 0.38
66 4 0.04
67 32 0.34
68 23 0.24
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:107017 original size:67 final size:67
Alignment explanation
Indices: 106847--107019 Score: 208
Period size: 67 Copynumber: 2.6 Consensus size: 67
106837 GTTTCTCTTG
* * * * * **
106847 AAACAAATTTAGTCTCTCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTCAGACAGTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
106910 TA
66 TA
* *
106912 AAACAAATTTTGTCTCCCTTCAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTCAGACAGTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
106977 TA
66 TA
* * *
106979 AAACAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACA
1 AAAC-AAATTTTGTCTCCCTTCAGACAGTTTCTCATGAAACA
107020 ACATATATCT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 32 0.34
66 2 0.02
67 37 0.39
68 23 0.24
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTCAGACAGTTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:107913 original size:106 final size:106
Alignment explanation
Indices: 107723--108094 Score: 518
Period size: 106 Copynumber: 3.5 Consensus size: 106
107713 AAGAAGGGGC
* *
107723 TTCCTAGTTTCAGAGACAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
*
107788 CAACTTCACAACGAAGGGGCGGCTGGCTGTCAACAAACATT
66 CAACTTCACAACGAAGGGGCGACTGGCTGTCAACAAACATT
107829 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
**
107894 CAACTTCACAACGAAGGGGCGACTGATTGTCAACAAACAACTT
66 CAACTTCACAACGAAGGGGCGACTGGCTGTCAACAAAC-A-TT
* * * *
107937 TT--CAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACA
1 TTCCCAG--T--TTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACA
* * * *
108000 AGCTCAACTTCACAGCGAATGGGCGACTGGCTGTCAATAAACAAT
62 AGCTCAACTTCACAACGAAGGGGCGACTGGCTGTCAACAAACATT
*
108045 TTCCCAGTTCCAGAGCCAATTTCAACTTCAC-GACG-GAGGATATTGGACTC
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAG-CGAG-GGATATTGGACTC
108095 GGAACAATAT
Statistics
Matches: 237, Mismatches: 19, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
105 1 0.00
106 136 0.57
107 1 0.00
108 9 0.04
109 1 0.00
110 89 0.38
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
TTCCCAGTTTCAGAGCCAATTTCAACTTCACAGCGAGGGATATTGGACTCAAGACAACACAAGCT
CAACTTCACAACGAAGGGGCGACTGGCTGTCAACAAACATT
Found at i:109419 original size:2 final size:2
Alignment explanation
Indices: 109412--109559 Score: 96
Period size: 2 Copynumber: 76.0 Consensus size: 2
109402 ATTTCTTCCC
* * *
109412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT TT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
109454 AT TT AT TT ACT AT AT -T CCT CT -T TT TT AT TT AT AT -T AT AT -T
1 AT AT AT AT A-T AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
109494 AT -T TT CAT -T AT AT AT AT CT -T AT AT CAT -T 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
109534 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
109560 GTATTAATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 24
0.75 0.09 0.15
Matches are distributed among these distances:
1 8 0.07
2 105 0.88
3 6 0.05
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (2 bp):
AT
Found at i:109627 original size:37 final size:34
Alignment explanation
Indices: 109586--109756 Score: 109
Period size: 37 Copynumber: 4.7 Consensus size: 34
109576 AATTACTATG
109586 TATATATTTTTTCTTAATATTATATTTTATACGTTTT
1 TATATATTTTTTCTTAATATTATATTTT-T--GTTTT
* *
109623 TATATATATTTTCTTAATATTCTATTTTTGTTTT
1 TATATATTTTTTCTTAATATTATATTTTTGTTTT
* * *
109657 TATTTATTTATATATATT-ATATTTTACTTTTT-TTTAT
1 TATATATTT-T-T-TCTTAATATTATA-TTTTTGTTT-T
* *
109694 TAT-TATTTTTTTCTTAATATCATGTATATCTTTATTTT
1 TATATA-TTTTTTCTT-A-AT-AT-TATATTTTTGTTTT
109732 T-TAT-TTGTTTTACTTAATATTATAT
1 TATATATT-TTTT-CTTAATATTATAT
109757 ATTTATTATT
Statistics
Matches: 110, Mismatches: 9, Indels: 33
0.72 0.06 0.22
Matches are distributed among these distances:
34 20 0.18
35 4 0.04
36 19 0.17
37 49 0.45
38 12 0.11
39 6 0.05
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (34 bp):
TATATATTTTTTCTTAATATTATATTTTTGTTTT
Found at i:109691 original size:40 final size:40
Alignment explanation
Indices: 109647--109768 Score: 95
Period size: 45 Copynumber: 2.9 Consensus size: 40
109637 TAATATTCTA
109647 TTTTTGTTTTTATTTATTTATATATATTATATTTTACTTT
1 TTTTTGTTTTTATTTATTTATATATATTATATTTTACTTT
* * * * *
109687 TTTTTATTATTATTTTTTTCTTAATATCATGTATATCTTTATTTT
1 TTTTTGTTTTTATTTATTT-AT-ATAT-AT-TATAT-TTTACTTT
*
109732 TTATTTG-TTTTACTTAATATTATATAT-TTATTATTTT
1 TT-TTTGTTTTTA-TTTAT-TTATATATATTA-TATTTT
109769 TATTTGTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
40 16 0.25
41 1 0.02
42 9 0.14
43 6 0.10
44 5 0.08
45 17 0.27
46 7 0.11
47 2 0.03
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (40 bp):
TTTTTGTTTTTATTTATTTATATATATTATATTTTACTTT
Found at i:109758 original size:36 final size:37
Alignment explanation
Indices: 109690--109779 Score: 107
Period size: 36 Copynumber: 2.5 Consensus size: 37
109680 TTACTTTTTT
* *
109690 TTATTATTATTT-TTTT-CTTAATATCATGTATATCT-
1 TTATTTTTATTTGTTTTACTTAATAT-ATATATATCTA
*
109725 TTATTTTTTATTTGTTTTACTTAATAT-TATATATTTA
1 TTA-TTTTTATTTGTTTTACTTAATATATATATATCTA
109762 TTATTTTTATTTGTTTTA
1 TTATTTTTATTTGTTTTA
109780 GTAAATACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
35 3 0.06
36 30 0.62
37 7 0.15
38 8 0.17
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.68
Consensus pattern (37 bp):
TTATTTTTATTTGTTTTACTTAATATATATATATCTA
Found at i:110833 original size:16 final size:16
Alignment explanation
Indices: 110784--110843 Score: 66
Period size: 16 Copynumber: 3.8 Consensus size: 16
110774 CGAGGTGAGC
*
110784 AATGAGCATCGAGCTT
1 AATGAGCAACGAGCTT
* * *
110800 AACGAGTAACGAGTTT
1 AATGAGCAACGAGCTT
*
110816 AATGAGCAACAAGCTT
1 AATGAGCAACGAGCTT
*
110832 AAAGAGCAACGA
1 AATGAGCAACGA
110844 TTCGAGCAAC
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (16 bp):
AATGAGCAACGAGCTT
Found at i:114608 original size:24 final size:25
Alignment explanation
Indices: 114576--114622 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
114566 CTATTCTTTC
114576 ACTTCAATCAAGC-TCGAATTTTAG
1 ACTTCAATCAAGCTTCGAATTTTAG
* *
114600 ACTTCAATCGAGCTTCTAATTTT
1 ACTTCAATCAAGCTTCGAATTTT
114623 TTTTGAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (25 bp):
ACTTCAATCAAGCTTCGAATTTTAG
Found at i:115385 original size:2 final size:2
Alignment explanation
Indices: 115378--115415 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
115368 ATACAACATA
115378 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
115416 TTGTAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122845 original size:35 final size:34
Alignment explanation
Indices: 122760--122846 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
122750 AAAATAATTT
* *
122760 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGA
* *
122794 TAAATGATAACCAAATTACAATAACTGATATTAAATGA
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGA
122832 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
122847 ACTTAAATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.55
36 1 0.02
37 4 0.09
38 10 0.23
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGA
Found at i:125171 original size:9 final size:9
Alignment explanation
Indices: 125141--125192 Score: 56
Period size: 8 Copynumber: 6.1 Consensus size: 9
125131 ATCTGCAAAA
125141 AAATTAAAT
1 AAATTAAAT
*
125150 -AAGTAAA-
1 AAATTAAAT
*
125157 ATATTAAAT
1 AAATTAAAT
125166 AAATTAAAT
1 AAATTAAAT
*
125175 -ACTTAAAT
1 AAATTAAAT
125183 AAATTAAAT
1 AAATTAAAT
125192 A
1 A
125193 CAAAATATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 18 0.53
9 16 0.47
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
AAATTAAAT
Found at i:125173 original size:17 final size:17
Alignment explanation
Indices: 125138--125190 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
125128 TATATCTGCA
* *
125138 AAAAAATTAAAT-AAGT
1 AAAATATTAAATAAATT
125154 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
125171 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
125188 AAA
1 AAA
125191 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 16 0.50
17 14 0.44
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:125191 original size:17 final size:17
Alignment explanation
Indices: 125144--125193 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
125134 TGCAAAAAAA
* *
125144 TTAAATAAGTAAAATA-
1 TTAAATAAATTAAATAC
125160 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
125177 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
125194 AAAATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:125241 original size:10 final size:10
Alignment explanation
Indices: 125228--125267 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
125218 AGAGATTATA
*
125228 AGAGTATTTG
1 AGAGAATTTG
*
125238 AGAGAAGTTG
1 AGAGAATTTG
125248 AGAGAATTTG
1 AGAGAATTTG
125258 AGAGAATTTG
1 AGAGAATTTG
125268 GTGTGATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.30
Consensus pattern (10 bp):
AGAGAATTTG
Found at i:125604 original size:29 final size:29
Alignment explanation
Indices: 125558--125636 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
125548 TACTGCTAAG
* * * *
125558 GATATTAGATCGAAAAATATAATCTGATT
1 GATATTACATCGATAAATATAACCTGATC
*
125587 GATATTATATCGATAAATATAACCTGATC
1 GATATTACATCGATAAATATAACCTGATC
* *
125616 GATGTTACATCAATAAATATA
1 GATATTACATCGATAAATATA
125637 TCGATCACCG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (29 bp):
GATATTACATCGATAAATATAACCTGATC
Found at i:149905 original size:11 final size:11
Alignment explanation
Indices: 149891--149951 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
149881 TTTTTGGCTC
149891 TTTTTTTTTGTT
1 TTTTTTTTTG-T
*
149903 TTTTTTTTTGC
1 TTTTTTTTTGT
**
149914 CGTTTTTTT-T
1 TTTTTTTTTGT
***
149924 TGCCTTTTTGT
1 TTTTTTTTTGT
149935 TTTTTTTTTGT
1 TTTTTTTTTGT
149946 TTTTTT
1 TTTTTT
149952 GAAAAAAAAT
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
10 6 0.16
11 22 0.58
12 10 0.26
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.84
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:151733 original size:13 final size:13
Alignment explanation
Indices: 151715--151743 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
151705 GGCTAGATCA
151715 AGTGCAAAAGCTG
1 AGTGCAAAAGCTG
151728 AGTGCAAAAGCTG
1 AGTGCAAAAGCTG
151741 AGT
1 AGT
151744 TTCGAGCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (13 bp):
AGTGCAAAAGCTG
Found at i:158671 original size:21 final size:21
Alignment explanation
Indices: 158647--158693 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
158637 TAACAAAATT
158647 AAATTCGAATTGTAATTCTAA
1 AAATTCGAATTGTAATTCTAA
158668 AAATTCGAATTGTAATTCTAA
1 AAATTCGAATTGTAATTCTAA
158689 AAATT
1 AAATT
158694 TGACTAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (21 bp):
AAATTCGAATTGTAATTCTAA
Found at i:159064 original size:50 final size:51
Alignment explanation
Indices: 158987--159086 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 51
158977 AAAATAACCT
158987 TCCTAGTCATTGAAAAATAATAATTCTCAACCTTAAATCACTTAACTTTTA
1 TCCTAGTCATTGAAAAATAATAATTCTCAACCTTAAATCACTTAACTTTTA
*
159038 TCCTAGTTATTG-AAAATAATAATTCTCAACCTTAAATCACTTAACTTTT
1 TCCTAGTCATTGAAAAATAATAATTCTCAACCTTAAATCACTTAACTTTT
159087 CACAATTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 37 0.77
51 11 0.23
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (51 bp):
TCCTAGTCATTGAAAAATAATAATTCTCAACCTTAAATCACTTAACTTTTA
Found at i:168091 original size:363 final size:363
Alignment explanation
Indices: 167426--168154 Score: 1449
Period size: 363 Copynumber: 2.0 Consensus size: 363
167416 GTGTTATAAA
167426 TACAAATGACATTAGACATGACGTTGGAGAACCATCATCAAAGGAAGAAACGAAAAATGAGGAAA
1 TACAAATGACATTAGACATGACGTTGGAGAACCATCATCAAAGGAAGAAACGAAAAATGAGGAAA
167491 CTCATGATCCTCTTGAGAATCCAACCATTGAAGAAAGGGAAGTATCTTATCCAAGAGAGTACAAC
66 CTCATGATCCTCTTGAGAATCCAACCATTGAAGAAAGGGAAGTATCTTATCCAAGAGAGTACAAC
*
167556 TATGTCAAGGATGGTGAAATTATAGGTGATCCATCCAAAGGGGTAACAACTCGATCTTCTCTTAG
131 TATGTCAAGGATGGTGAAATTATAGATGATCCATCCAAAGGGGTAACAACTCGATCTTCTCTTAG
167621 AAATATTTGTAATTATTTTGCATTTATCTCATGCATAGAGCCTAAGAATATTAAAGAAGCATTAA
196 AAATATTTGTAATTATTTTGCATTTATCTCATGCATAGAGCCTAAGAATATTAAAGAAGCATTAA
167686 ATGATGAACATTGGATTATGGCTATGCAAGAAGAGTTAAATCAATTTGAGAGAAGTAAAGTATGG
261 ATGATGAACATTGGATTATGGCTATGCAAGAAGAGTTAAATCAATTTGAGAGAAGTAAAGTATGG
167751 ACATTAGTTGAAAGGCCTAGTAATAAATCTACTGTAGG
326 ACATTAGTTGAAAGGCCTAGTAATAAATCTACTGTAGG
167789 TACAAATGACATTAGACATGACGTTGGAGAACCATCATCAAAGGAAGAAACGAAAAATGAGGAAA
1 TACAAATGACATTAGACATGACGTTGGAGAACCATCATCAAAGGAAGAAACGAAAAATGAGGAAA
167854 CTCATGATCCTCTTGAGAATCCAACCATTGAAGAAAGGGAAGTATCTTATCCAAGAGAGTACAAC
66 CTCATGATCCTCTTGAGAATCCAACCATTGAAGAAAGGGAAGTATCTTATCCAAGAGAGTACAAC
167919 TATGTCAAGGATGGTGAAATTATAGATGATCCATCCAAAGGGGTAACAACTCGATCTTCTCTTAG
131 TATGTCAAGGATGGTGAAATTATAGATGATCCATCCAAAGGGGTAACAACTCGATCTTCTCTTAG
167984 AAATATTTGTAATTATTTTGCATTTATCTCATGCATAGAGCCTAAGAATATTAAAGAAGCATTAA
196 AAATATTTGTAATTATTTTGCATTTATCTCATGCATAGAGCCTAAGAATATTAAAGAAGCATTAA
168049 ATGATGAACATTGGATTATGGCTATGCAAGAAGAGTTAAATCAATTTGAGAGAAGTAAAGTATGG
261 ATGATGAACATTGGATTATGGCTATGCAAGAAGAGTTAAATCAATTTGAGAGAAGTAAAGTATGG
168114 ACATTAGTTGAAAGGCCTAGTAATAAATCTACTGTAGG
326 ACATTAGTTGAAAGGCCTAGTAATAAATCTACTGTAGG
168152 TAC
1 TAC
168155 TAGATGGGTA
Statistics
Matches: 365, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
363 365 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (363 bp):
TACAAATGACATTAGACATGACGTTGGAGAACCATCATCAAAGGAAGAAACGAAAAATGAGGAAA
CTCATGATCCTCTTGAGAATCCAACCATTGAAGAAAGGGAAGTATCTTATCCAAGAGAGTACAAC
TATGTCAAGGATGGTGAAATTATAGATGATCCATCCAAAGGGGTAACAACTCGATCTTCTCTTAG
AAATATTTGTAATTATTTTGCATTTATCTCATGCATAGAGCCTAAGAATATTAAAGAAGCATTAA
ATGATGAACATTGGATTATGGCTATGCAAGAAGAGTTAAATCAATTTGAGAGAAGTAAAGTATGG
ACATTAGTTGAAAGGCCTAGTAATAAATCTACTGTAGG
Found at i:169865 original size:23 final size:20
Alignment explanation
Indices: 169810--169869 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 20
169800 TTTTGGTGCA
*
169810 GAGGGAATCGA-TCCCCCTT
1 GAGGGAACCGATTCCCCCTT
*
169829 GAGGGAACCAATTCCCCCTTT
1 GAGGGAACCGATTCCCCC-TT
169850 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
169870 CACAGGGGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.26
20 6 0.18
21 3 0.09
22 1 0.03
23 15 0.44
ACGTcount: A:0.23, C:0.33, G:0.25, T:0.18
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCTT
Found at i:174462 original size:34 final size:33
Alignment explanation
Indices: 174422--174534 Score: 97
Period size: 34 Copynumber: 3.3 Consensus size: 33
174412 GTCAATTTAA
*
174422 AAAGATATTTGTTATCTTTTTAAATTCGAATATT
1 AAAGATATTTATTATCTTTTTAAATT-GAATATT
* * *
174456 AAAGATAATTATATAT-TTTTGTATATTTTAA-ATT
1 AAAGATATTTAT-TATCTTTT-TA-AATTGAATATT
*
174490 AAA-ATATATTATTATCTATTTAAAGTTGAATATT
1 AAAGATAT-TTATTATCTTTTTAAA-TTGAATATT
174524 AAAAGATATTT
1 -AAAGATATTT
174535 GGTTGGGTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
32 1 0.02
33 12 0.19
34 30 0.48
35 12 0.19
36 7 0.11
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (33 bp):
AAAGATATTTATTATCTTTTTAAATTGAATATT
Found at i:176470 original size:19 final size:19
Alignment explanation
Indices: 176448--176486 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
176438 CCAAACAACG
*
176448 TAATACAACATTCTTATAA
1 TAATACAACATTCTAATAA
* *
176467 TAATTCTACATTCTAATAA
1 TAATACAACATTCTAATAA
176486 T
1 T
176487 GTTATTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATACAACATTCTAATAA
Found at i:177127 original size:21 final size:21
Alignment explanation
Indices: 177103--177155 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
177093 ACACTTAGGG
177103 AACCGATTCCCTATGAGAGGA
1 AACCGATTCCCTATGAGAGGA
*
177124 AACCGATTCCCTATGAGAGGG
1 AACCGATTCCCTATGAGAGGA
*
177145 TACCGATTCCC
1 AACCGATTCCC
177156 CCACGCTCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (21 bp):
AACCGATTCCCTATGAGAGGA
Found at i:177372 original size:13 final size:13
Alignment explanation
Indices: 177351--177405 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
177341 AAGTTCGATA
*
177351 AATTCAAATACTT
1 AATTGAAATACTT
177364 AATTGAAATACTT
1 AATTGAAATACTT
* *
177377 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
177391 AATTGAAATACTT
1 AATTGAAATACTT
177404 AA
1 AA
177406 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:177487 original size:32 final size:33
Alignment explanation
Indices: 177391--177489 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
177381 AACTCAACAT
* * *
177391 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
177424 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
177457 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
177489 A
1 A
177490 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:177508 original size:21 final size:21
Alignment explanation
Indices: 177484--177523 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
177474 ACTTCAAGTT
177484 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
177505 CGATAATTGAAATAAAGTT
1 CGATAATTGAAACAAAGTT
177524 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:180493 original size:23 final size:22
Alignment explanation
Indices: 180472--180513 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
180462 ATTTATTTAA
180472 AATT-TAAAATTTTAACTTTTT
1 AATTATAAAATTTTAACTTTTT
180493 AATTAATAAAATTTTAACTTT
1 AATT-ATAAAATTTTAACTTT
180514 AAATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
23 15 0.79
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTATAAAATTTTAACTTTTT
Found at i:180514 original size:21 final size:22
Alignment explanation
Indices: 180476--180521 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
180466 ATTTAAAATT
*
180476 TAAAATTTTAACTTTTTAATTAA
1 TAAAATTTTAAC-TTTTAAATAA
180499 TAAAATTTTAAC-TTTAAATAA
1 TAAAATTTTAACTTTTAAATAA
180520 TA
1 TA
180522 TATATGACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
23 12 0.55
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAAATTTTAACTTTTAAATAA
Found at i:186026 original size:346 final size:345
Alignment explanation
Indices: 185391--186053 Score: 1071
Period size: 346 Copynumber: 1.9 Consensus size: 345
185381 ATTTGACACG
*
185391 TTTTTTATAATTTGAAGTGATAATGCAACACTGAAAAGTTTTCTGATTTAAGTTCATATTTCACT
1 TTTTTTATAATTTGAAGTGATAATCCAACACTGAAAAGTTTTCTGATTTAAGTTCATATTTCACT
* * * *
185456 GAAAAATAACTGGAATCGTGCATTATTTTGCCTGAGTTAAAAATACGTTTTTTGATTTGAGTTGA
66 GAAAAATAACTGAAATCGTGCATTATTTTGCCTAAGTTAAAAACAAGTTTTTTGATTTGAGTTGA
* *
185521 TATATCACTGAAAAGTTGCTAAAGATGATAATGCACCACTATTTCACCCGTTTTCTGAAAAGTTG
131 TATATAACTGAAAAGTTGCTAAAGATGATAATGCACCACTATTTCACCCGTTTTATGAAAAGTTG
* *
185586 CTTAAATTTTGCATTAAATGACCTTTAAAAAAGTCAACTGTTGCATTATTGTTGTAATAAATGAC
196 CTTAAATTTTGCATTAAATGACCTCTAAAAAAGTCAACTGTTGCATTATTGCTGTAATAAATGAC
* *
185651 CTCTAAAAAAGTTACTGAGAGGGTGCATTAATTGAGCACTGGAAAGT-GATTGAAACATTGAATA
261 CTCTAAAAAAGTTACTGAGAGGATGCATTAATTGAGCACTGAAAAGTAG-TTGAAACATTGAATA
185715 ATTTGGCATGGTAGAAATATT
325 ATTTGGCATGGTAGAAATATT
* * *
185736 TTTTTTATGATTTGAAGTGATAATCCAACACTGAAAAGTTTTTTTGATTTGAGTTCATATTTCAC
1 TTTTTTATAATTTGAAGTGATAATCCAACACTGAAAAG-TTTTCTGATTTAAGTTCATATTTCAC
* *
185801 TGAAAAATAGCTAGAAAT-GTGCATTATTTTGCCTAAGTTAAAAACAAGTTTTTTTATTTGAGTT
65 TGAAAAATAACT-GAAATCGTGCATTATTTTGCCTAAGTTAAAAACAAGTTTTTTGATTTGAGTT
* *
185865 GATATATAACTGAAAAGTTGCTGAAGATGATAATGCACCACTATTTCACCCGTTTTATGAAAATT
129 GATATATAACTGAAAAGTTGCTAAAGATGATAATGCACCACTATTTCACCCGTTTTATGAAAAGT
* *
185930 TGCTTAAATTTTGCATTAAATTACCTCTAAAAAAGTC-ATTGTTGCATTATTGCTGTAATAAATG
194 TGCTTAAATTTTGCATTAAATGACCTCTAAAAAAGTCAACTGTTGCATTATTGCTGTAATAAATG
* *
185994 ACCTCTGAAAAAAGTTTCTGAGAGGATGCATTAATTGAGGACTGAAAAGTAGTTGAAACA
259 ACCTCT-AAAAAAGTTACTGAGAGGATGCATTAATTGAGCACTGAAAAGTAGTTGAAACA
186054 GTGCGTACTG
Statistics
Matches: 292, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
345 67 0.23
346 220 0.75
347 5 0.02
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.37
Consensus pattern (345 bp):
TTTTTTATAATTTGAAGTGATAATCCAACACTGAAAAGTTTTCTGATTTAAGTTCATATTTCACT
GAAAAATAACTGAAATCGTGCATTATTTTGCCTAAGTTAAAAACAAGTTTTTTGATTTGAGTTGA
TATATAACTGAAAAGTTGCTAAAGATGATAATGCACCACTATTTCACCCGTTTTATGAAAAGTTG
CTTAAATTTTGCATTAAATGACCTCTAAAAAAGTCAACTGTTGCATTATTGCTGTAATAAATGAC
CTCTAAAAAAGTTACTGAGAGGATGCATTAATTGAGCACTGAAAAGTAGTTGAAACATTGAATAA
TTTGGCATGGTAGAAATATT
Found at i:188990 original size:331 final size:331
Alignment explanation
Indices: 188386--189018 Score: 1124
Period size: 331 Copynumber: 1.9 Consensus size: 331
188376 GTAGACCTCG
*
188386 TATCAATCAATACCATAACATGTTTATCAAACAATAGAAAGGTACCTATTACAATCTCTGGGTCA
1 TATCAATCAAAACCATAACATGTTTATCAAACAATAGAAAGGTACCTATTACAATCTCTGGGTCA
* * *
188451 TCCCGATCCTCATTGGTCTTGAGATTATACACTCAAGCAGTGGAACGTATCTCTTGTTGAGCAGA
66 TCCCGATCCTCATTGGTCTTGAGATTATACACTCAAGCAGTGGAACGCATCTCTTGTTAAGAAGA
* *
188516 GGACTCTGACTGATTTCTTCCTCTGCCTCTACCTCTTCCCCTTTGGCCTGCAGAAATAGACCTCT
131 GGACTATGACTGATTTCTTCCTCTGCCTCTACCTCTTCCCCTTTGGCATGCAGAAATAGACCTCT
* *
188581 CTAGTTGTGTAGAATCATCGGCTACCCTGAGACAATCCCGAACAAAATGTTCGGTCTCCCCACAT
196 CTAGTTGTGCAGAATCATCGGCTACCCTGAGACAATCCCGAACAAAATGTCCGGTCTCCCCACAT
* *
188646 CTAAAATAAGCTCCAGAAATTATCCTACATATCCCTGAATGATTCTTTCCACAATGTGGGCATTG
261 CTAAAACAAGCTCCAAAAATTATCCTACATATCCCTGAATGATTCTTTCCACAATGTGGGCATTG
188711 TCTGAC
326 TCTGAC
*
188717 TATCAATCAAAACCATAACATGTTTATCAAACAATAGAAAGTTACCTATTACAATCGT-TGGGTC
1 TATCAATCAAAACCATAACATGTTTATCAAACAATAGAAAGGTACCTATTACAATC-TCTGGGTC
*
188781 ATCCCGATCCTCATTGGTCTTGAGATTATACACTCGAGCAGTGGAACGCATCTCTTGTTAAGAAG
65 ATCCCGATCCTCATTGGTCTTGAGATTATACACTCAAGCAGTGGAACGCATCTCTTGTTAAGAAG
*
188846 AGGACTATGACTGATTTCTTCCTCTGCCTCTACCTCTTCCCCTTTGGCATGCAGAAATAGGCCTC
130 AGGACTATGACTGATTTCTTCCTCTGCCTCTACCTCTTCCCCTTTGGCATGCAGAAATAGACCTC
*
188911 TCTAGTTGTGCAGAATCATCGGCTACCCTGGGACAATCCCGAACAAAATGTCCGGTCTCCCCACA
195 TCTAGTTGTGCAGAATCATCGGCTACCCTGAGACAATCCCGAACAAAATGTCCGGTCTCCCCACA
188976 TCTAAAACAAGCTCCAAAAATTATCCTACATATCCCTGAATGA
260 TCTAAAACAAGCTCCAAAAATTATCCTACATATCCCTGAATGA
189019 GATTACGCTC
Statistics
Matches: 287, Mismatches: 14, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
331 286 1.00
332 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (331 bp):
TATCAATCAAAACCATAACATGTTTATCAAACAATAGAAAGGTACCTATTACAATCTCTGGGTCA
TCCCGATCCTCATTGGTCTTGAGATTATACACTCAAGCAGTGGAACGCATCTCTTGTTAAGAAGA
GGACTATGACTGATTTCTTCCTCTGCCTCTACCTCTTCCCCTTTGGCATGCAGAAATAGACCTCT
CTAGTTGTGCAGAATCATCGGCTACCCTGAGACAATCCCGAACAAAATGTCCGGTCTCCCCACAT
CTAAAACAAGCTCCAAAAATTATCCTACATATCCCTGAATGATTCTTTCCACAATGTGGGCATTG
TCTGAC
Found at i:195453 original size:23 final size:25
Alignment explanation
Indices: 195406--195466 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
195396 TATAATATTT
195406 TATAATATTTTATATTAATTATATA
1 TATAATATTTTATATTAATTATATA
195431 TATAATATTTTATATTAATTATATA
1 TATAATATTTTATATTAATTATATA
*
195456 TAAAATATTTT
1 TATAATATTTT
195467 CGGTTTTGGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATAATATTTTATATTAATTATATA
Found at i:201659 original size:20 final size:20
Alignment explanation
Indices: 201622--201659 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
201612 TCTCAGTCAT
*
201622 TCCTTCCTCCAAGGTCTGTA
1 TCCTTCCTCCAAGCTCTGTA
201642 TCCTTCCCTCC-AGCTCTG
1 TCCTT-CCTCCAAGCTCTG
201660 CTTTCTGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.11, C:0.42, G:0.13, T:0.34
Consensus pattern (20 bp):
TCCTTCCTCCAAGCTCTGTA
Found at i:209003 original size:134 final size:133
Alignment explanation
Indices: 208617--209006 Score: 501
Period size: 134 Copynumber: 2.9 Consensus size: 133
208607 AGACAACATG
* * * * * *
208617 GTTCTTACGTGATGAGGAAATCTAGTTATCTAAGGGTGACACTACTTCTACGTGATAAGGAGATC
1 GTTCTTACGTGATGAGGAGA-CTAGTTATCTAAGGTTGACGCAACTCCTACGTGATGAGGAGATC
* * *
208682 TGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGGTTGGCCATCTTTAGAGATGATTATAA
65 TGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGGCTGGCCATCTTTAGGGATGATGATAA
*
208747 CACG
130 CACA
* * * * * *
208751 GTTCCTACGTGCTAAGGATGACTGGTTATCTAAGGTTGACGCAGCTCCTAAGTGATGAGGAGATC
1 GTTCTTACGTGATGAGGA-GACTAGTTATCTAAGGTTGACGCAACTCCTACGTGATGAGGAGATC
* * *
208816 TGGTCGGTGGATGCCACGATTCCTACGTGATGAGGATAGCTGGCCATCTTTAGGGATGATGATAA
65 TGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGGCTGGCCATCTTTAGGGATGATGATAA
208881 CACA
130 CACA
* * *
208885 TTTCTTACATGATGAGGACGACTAGTTATCTAAGGTTGACGCAACTCCTACGTGATGAGGAGATT
1 GTTCTTACGTGATGAGGA-GACTAGTTATCTAAGGTTGACGCAACTCCTACGTGATGAGGAGATC
* * *** *
208950 TGGTTGGTGGATGATACGGTTCCTAAACGATGAGGATGGCTGGCCATATTTAGGGAT
65 TGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGGCTGGCCATCTTTAGGGAT
209007 AATGTTTTAA
Statistics
Matches: 217, Mismatches: 38, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
134 216 1.00
135 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (133 bp):
GTTCTTACGTGATGAGGAGACTAGTTATCTAAGGTTGACGCAACTCCTACGTGATGAGGAGATCT
GGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGGCTGGCCATCTTTAGGGATGATGATAAC
ACA
Found at i:209103 original size:65 final size:64
Alignment explanation
Indices: 209011--209143 Score: 187
Period size: 65 Copynumber: 2.1 Consensus size: 64
209001 AGGGATAATG
* * *
209011 TTTTAAGAGAAACTATCTTAAGAGAGACAAAATTTGTTTCGAGGAAAAC-ATACTCAAAGATGAT
1 TTTTAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGAAAACGAT-CTCAAAGATGAT
* * *
209075 TTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATGAT
1 TTTT-AAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGAAAACGATCTCAAAGATGAT
209140 TTTT
1 TTTT
209144 TTTATTCAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
64 4 0.07
65 55 0.90
66 2 0.03
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (64 bp):
TTTTAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGAAAACGATCTCAAAGATGAT
Found at i:209492 original size:36 final size:35
Alignment explanation
Indices: 209443--209596 Score: 119
Period size: 37 Copynumber: 4.2 Consensus size: 35
209433 TCAATCTCAA
*
209443 AGGAAAAATGTCTCAAGCGAGATGAAATTTGTTTTG
1 AGGAAAATTGTCTCAAGCGAGA-GAAATTTGTTTTG
* * * * *
209479 AGGGAAATTGTCTCAAGCGAGAAAAAAATTATTTTT
1 AGGAAAATTGTCTCAAGCGAG-AGAAATTTGTTTTG
** * *
209515 AGAGAAAACAGTCTCAAGCGAGACAAATTTTGTATTTT
1 AG-GAAAATTGTCTCAAGCGAGAGAAA-TTTGT-TTTG
** *
209553 AGGAAAATTGTCTTTAGCGAGACGACACTTTGTTTTG
1 AGGAAAATTGTCTCAAGCGAGA-GA-AATTTGTTTTG
209590 AGAGAAA
1 AG-GAAA
209597 CAATCTCAAT
Statistics
Matches: 92, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
36 34 0.37
37 41 0.45
38 16 0.17
39 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (35 bp):
AGGAAAATTGTCTCAAGCGAGAGAAATTTGTTTTG
Found at i:211357 original size:18 final size:19
Alignment explanation
Indices: 211334--211377 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
211324 AGTAGGATTA
211334 AGGGTTCTTG-TTTTTTCC
1 AGGGTTCTTGTTTTTTTCC
211352 AGGGTTCTTGTTTTTTTCC
1 AGGGTTCTTGTTTTTTTCC
211371 AGGGTTC
1 AGGGTTC
211378 AATCTTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.07, C:0.16, G:0.25, T:0.52
Consensus pattern (19 bp):
AGGGTTCTTGTTTTTTTCC
Found at i:213748 original size:20 final size:20
Alignment explanation
Indices: 213723--213764 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
213713 TTTATTATTG
213723 ATAAGTATTAATTTCATTTT
1 ATAAGTATTAATTTCATTTT
* *
213743 ATAAGTTTTATTTTCATTTT
1 ATAAGTATTAATTTCATTTT
213763 AT
1 AT
213765 TAGGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (20 bp):
ATAAGTATTAATTTCATTTT
Found at i:213772 original size:20 final size:20
Alignment explanation
Indices: 213734--213772 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
213724 TAAGTATTAA
*
213734 TTTCATTTTATAAGTTTTAT
1 TTTCATTTTATAAGGTTTAT
*
213754 TTTCATTTTATTAGGTTTA
1 TTTCATTTTATAAGGTTTA
213773 AATTATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.05, G:0.08, T:0.64
Consensus pattern (20 bp):
TTTCATTTTATAAGGTTTAT
Found at i:214955 original size:685 final size:684
Alignment explanation
Indices: 213625--214994 Score: 2103
Period size: 685 Copynumber: 2.0 Consensus size: 684
213615 AATCTGCAAA
** *
213625 AGTTAAAGGATTGATGATGGAAATAAATATTTATGGAATTTAACGAGTATTTTGAGAAGTTTGAA
1 AGTTAAAGGATTGATGATAAAAATAAATATTTATGAAATTTAACGAGTATTTTGAGAAGTTTGAA
*
213690 TTTATGATGGGAGTACGGCTTAGTTTATTATTGATAAGTATTAATTTCATTTTATAAGTTTTATT
66 TTTATGATGGGAGTACGACTTAGTTTATTATTGATAAGTATTAATTTCATTTTATAAGTTTTATT
* ** ** *
213755 TTCATTTTATTAGGTTTAAATTATGTTAGTACGATACTAACATATAGTTGAATATTTTATGTTAT
131 TTCATATTATTAAATTTAAATTATGACAGTACGATACTAACATATAGTTGAATAATTTATGTTAT
*** * * * * * *
213820 TATATGGTGTTGTCAGATCATGATAAACCTAGCAAATCGAGTGATCCGAAAGGAAATAACAAATC
196 TATATCACGTTATCAAATCATAATAAACCTAACAAATCGAGTGATCCAAAAGGAAAGAACAAATC
* *
213885 ACAAGAGTAAGAAGTATTATATAAAAGTTCAATAGTGAGGCAAAGGTGAGTGCAGTTTACTTATT
261 ACAAGAGTAAGAAGTATTATATAAAAGTTCAATAGTGAAGCAAAGGTGAGTGCAATTTACTTATT
* * **
213950 TAATTATTCTGATCGAGGGCGACTTGCGATAAGCCAATTTCATATTATTTTTAAAGTATGATTTA
326 TAATTATTCTGATCGAGGACGACTTGCAATAAGCCAACCTCATATTATTTTTAAAGTATGATTTA
* * * * * *
214015 TTATTTTAGTTGTGTATTATTTCCTTAATATTTTCATAAAGTTTTATGAATGATTTATGGTATGA
391 TTATTTTAATTGTGGATTATTTCCATAATATTTTCATAAAATTTTACGAATGATTTAGGGTATGA
* *
214080 ACTACCCAAGTTTATGTTTTACGATGATGAATTAAAATGATTCTGATTTTGATATGTTGATCATT
456 ACTACCCAAGTTTATGTTTTACGACGATAAATTAAAATGATTCTGATTTTGATATGTTGATCATT
* * * **
214145 AAATGATTGTGATATAGTTTAAAAGCCCATTGCATGTTGCATTGAGAGTCATAGGTACAATCGGC
521 AAATGATTATGATATAGTTTAAAAGCCCATTGCATGTTACATTGAGAGTCACAGGTACAATCAAC
* * *
214210 ATGCCATGAGATGGAGTAATTCTGATTATAAATTGGTATATTTGTATACATTTGTGTAGCACCGT
586 ATGCCATGAGATGGAGTAATTCTAATTATAAATTGGTATATTTGTATACATATATGTAGCACCGT
*
214275 TGGTGTAGATTATATGATTGCACTTGGAGTGCAT
651 TGGTGCAGATTATATGATTGCACTTGGAGTGCAT
* *
214309 AGTTGAAGGGTTGATGATAAAAATAAATATTTATGAAATTTAACGAGTATTTTGAGAAGTTTGAA
1 AGTTAAAGGATTGATGATAAAAATAAATATTTATGAAATTTAACGAGTATTTTGAGAAGTTTGAA
* * *
214374 TTTATGATGGGAGTGCGACTTAGTTTATTATTGAGTAAGTATTGATTTCATTTTATAGATTTTTA
66 TTTATGATGGGAGTACGACTTAGTTTATTATTGA-TAAGTATTAATTTCATTTTATA-AGTTTTA
*
214439 TTTTTATATTATTAAATTTAAATTATGACAGTACGATACTAACATATAGTTGAATAATTTATGTT
129 TTTTCATATTATTAAATTTAAATTATGACAGTACGATACTAACATATAGTTGAATAATTTATGTT
* *
214504 ATTTTATCACGTTATCAAATCATAATAAACCTAACGAATCGAGTGATCCAAAAGGAAAGAACAAA
194 ATTATATCACGTTATCAAATCATAATAAACCTAACAAATCGAGTGATCCAAAAGGAAAGAACAAA
* *
214569 TCACAAGAGTAAGGAGTATTATATAAAAGTTCAATAGTGAAGCAAAGGTGAGTGTAATTTACTTA
259 TCACAAGAGTAAGAAGTATTATATAAAAGTTCAATAGTGAAGCAAAGGTGAGTGCAATTTACTTA
* * * *
214634 TTTAATTATTCTGATCGAGGACGATTTGTAATAGGTCAACCTCATATTA-TTTTAAAGTATGATT
324 TTTAATTATTCTGATCGAGGACGACTTGCAATAAGCCAACCTCATATTATTTTTAAAGTATGATT
214698 TATTATTTTAATTGTGGATTATTTCCATAATATTTTCATAAAATTTTACGAATGATTTAGGGTAT
389 TATTATTTTAATTGTGGATTATTTCCATAATATTTTCATAAAATTTTACGAATGATTTAGGGTAT
**
214763 GAACTACCCAAGTTTATGTTTTGTGACGATAAATTAAAATGATTCTGATTTTGATATGTTGATCA
454 GAACTACCCAAGTTTATGTTTTACGACGATAAATTAAAATGATTCTGATTTTGATATGTTGATCA
* * * *
214828 TTAATTGATTATGATATAGTTTAAAAGCCCATTGTATGTTACATTGAGAGTCACATGTACAATTA
519 TTAAATGATTATGATATAGTTTAAAAGCCCATTGCATGTTACATTGAGAGTCACAGGTACAATCA
* * * * * *
214893 ACATGTCATGAGGTGGAGTGATTCTAATTCTAATTTGGTATATTTGTGTACATATATGTAGCACC
584 ACATGCCATGAGATGGAGTAATTCTAATTATAAATTGGTATATTTGTATACATATATGTAGCACC
214958 GTTGGTGCAGATTATATGATTGCACTTGGAGTGCAT
649 GTTGGTGCAGATTATATGATTGCACTTGGAGTGCAT
214994 A
1 A
214995 ATCTGATTTG
Statistics
Matches: 616, Mismatches: 68, Indels: 3
0.90 0.10 0.00
Matches are distributed among these distances:
684 92 0.15
685 304 0.49
686 220 0.36
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (684 bp):
AGTTAAAGGATTGATGATAAAAATAAATATTTATGAAATTTAACGAGTATTTTGAGAAGTTTGAA
TTTATGATGGGAGTACGACTTAGTTTATTATTGATAAGTATTAATTTCATTTTATAAGTTTTATT
TTCATATTATTAAATTTAAATTATGACAGTACGATACTAACATATAGTTGAATAATTTATGTTAT
TATATCACGTTATCAAATCATAATAAACCTAACAAATCGAGTGATCCAAAAGGAAAGAACAAATC
ACAAGAGTAAGAAGTATTATATAAAAGTTCAATAGTGAAGCAAAGGTGAGTGCAATTTACTTATT
TAATTATTCTGATCGAGGACGACTTGCAATAAGCCAACCTCATATTATTTTTAAAGTATGATTTA
TTATTTTAATTGTGGATTATTTCCATAATATTTTCATAAAATTTTACGAATGATTTAGGGTATGA
ACTACCCAAGTTTATGTTTTACGACGATAAATTAAAATGATTCTGATTTTGATATGTTGATCATT
AAATGATTATGATATAGTTTAAAAGCCCATTGCATGTTACATTGAGAGTCACAGGTACAATCAAC
ATGCCATGAGATGGAGTAATTCTAATTATAAATTGGTATATTTGTATACATATATGTAGCACCGT
TGGTGCAGATTATATGATTGCACTTGGAGTGCAT
Found at i:216406 original size:19 final size:20
Alignment explanation
Indices: 216382--216427 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
216372 CAAAATGACC
*
216382 CAATTTC-ACATTCTAACAT
1 CAATTTCAACACTCTAACAT
216401 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
216421 TAATTTC
1 CAATTTC
216428 CAGCATAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:217626 original size:30 final size:31
Alignment explanation
Indices: 217581--217647 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
217571 CCAAACACCT
* *
217581 ACTTTTTAGAAATTACATTTTTGGCTCCTAA
1 ACTTTTGAGAAATTACATTTTTGGCCCCTAA
*
217612 ACTTTTGA-AAATTACCTTTTTGGCCCCTAA
1 ACTTTTGAGAAATTACATTTTTGGCCCCTAA
217642 ACTTTT
1 ACTTTT
217648 ATAAACTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 26 0.79
31 7 0.21
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.45
Consensus pattern (31 bp):
ACTTTTGAGAAATTACATTTTTGGCCCCTAA
Found at i:247568 original size:8 final size:8
Alignment explanation
Indices: 247555--247607 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
247545 TTATTTAATT
247555 TTAAAAAA
1 TTAAAAAA
247563 TTAAAAAA
1 TTAAAAAA
**
247571 TTATTTAAA
1 TTA-AAAAA
247580 TT-AAAAA
1 TTAAAAAA
*
247587 TATAAAATA
1 T-TAAAAAA
247596 TTAAAAAA
1 TTAAAAAA
247604 TTAA
1 TTAA
247608 GATATTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
7 4 0.11
8 22 0.61
9 10 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
TTAAAAAA
Found at i:247598 original size:16 final size:16
Alignment explanation
Indices: 247579--247634 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
247569 AATTATTTAA
247579 ATTAAAAATATAAAAT
1 ATTAAAAATATAAAAT
*
247595 ATTAAAAA-ATTAAGAT
1 ATTAAAAATA-TAAAAT
* * *
247611 ATTAAATACATCAAAT
1 ATTAAAAATATAAAAT
247627 A-TAAAAAT
1 ATTAAAAAT
247635 TCTACAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
15 6 0.19
16 25 0.78
17 1 0.03
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (16 bp):
ATTAAAAATATAAAAT
Found at i:255685 original size:32 final size:32
Alignment explanation
Indices: 255649--255825 Score: 187
Period size: 32 Copynumber: 5.5 Consensus size: 32
255639 ACTCATCTGT
*
255649 ATTATCTGAATGCAATATTAACTCTATTGTGC
1 ATTATCTGAATGCAATACTAACTCTATTGTGC
* *
255681 ATTATCTGAATGTC-ATGCTAACTCTGTTGTGC
1 ATTATCTGAATG-CAATACTAACTCTATTGTGC
* * *
255713 ATTATCTAAATGCAATACTAATTATATTGTGC
1 ATTATCTGAATGCAATACTAACTCTATTGTGC
* * *
255745 ATTATCTGAATGTC-ATGCTAACTCAACTGTGC
1 ATTATCTGAATG-CAATACTAACTCTATTGTGC
* * * *
255777 ATTATCTCAATGCAATAATTACTCTAATGTGC
1 ATTATCTGAATGCAATACTAACTCTATTGTGC
* *
255809 ATTATTTGAATGAAATA
1 ATTATCTGAATGCAATA
255826 TTGACTATGT
Statistics
Matches: 118, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
31 2 0.02
32 114 0.97
33 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (32 bp):
ATTATCTGAATGCAATACTAACTCTATTGTGC
Found at i:255725 original size:64 final size:64
Alignment explanation
Indices: 255649--255820 Score: 238
Period size: 64 Copynumber: 2.7 Consensus size: 64
255639 ACTCATCTGT
* ***
255649 ATTATCTGAATGCAATATTAACTCTATTGTGCATTATCTGAATGTCATGCTAACTCTGTTGTGC
1 ATTATCTAAATGCAATATTAACTCTATTGTGCATTATCTGAATGTCATGCTAACTCAACTGTGC
* * *
255713 ATTATCTAAATGCAATACTAATTATATTGTGCATTATCTGAATGTCATGCTAACTCAACTGTGC
1 ATTATCTAAATGCAATATTAACTCTATTGTGCATTATCTGAATGTCATGCTAACTCAACTGTGC
* * *
255777 ATTATCTCAATGCAATAATT-ACTCTAATGTGCATTATTTGAATG
1 ATTATCTAAATGCAAT-ATTAACTCTATTGTGCATTATCTGAATG
255821 AAATATTGAC
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
64 92 0.98
65 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (64 bp):
ATTATCTAAATGCAATATTAACTCTATTGTGCATTATCTGAATGTCATGCTAACTCAACTGTGC
Done.