Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008979.1 Hibiscus syriacus cultivar Beakdansim tig00112339_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: 1115631
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 6
Found at i:7365 original size:32 final size:32
Alignment explanation
Indices: 7329--7391 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 32
7319 CTATTATTAA
*
7329 AATTC-AAAAATTCAAAAATATATTTAATTTAT
1 AATTCTAAAAATTCAAAAAAATATTT-ATTTAT
** *
7361 AATTCTATTATTTCAAAAAAATATTTATTTA
1 AATTCTAAAAATTCAAAAAAATATTTATTTA
7392 AAAATATCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 10 0.38
33 16 0.62
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.44
Consensus pattern (32 bp):
AATTCTAAAAATTCAAAAAAATATTTATTTAT
Found at i:8510 original size:13 final size:14
Alignment explanation
Indices: 8493--8531 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
8483 GTATTTTTTT
*
8493 GTTTCTGTCTCTTC
1 GTTTCTGTCTCTCC
8507 -TTTCTGTCTCTCC
1 GTTTCTGTCTCTCC
*
8520 GTCTCTGTCTCT
1 GTTTCTGTCTCT
8532 GTTTTCAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.00, C:0.33, G:0.13, T:0.54
Consensus pattern (14 bp):
GTTTCTGTCTCTCC
Found at i:8997 original size:3 final size:3
Alignment explanation
Indices: 8989--9128 Score: 235
Period size: 3 Copynumber: 46.7 Consensus size: 3
8979 TAATATAAAT
* *
8989 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9037 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
9085 TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9129 TGGATAAAAA
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 127 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:16781 original size:41 final size:41
Alignment explanation
Indices: 16731--16840 Score: 157
Period size: 41 Copynumber: 2.7 Consensus size: 41
16721 ATCATTATTT
*
16731 ACTAGAGCCAATTTTGGGCACCTCTAGCAAAGCTTTAGTCG
1 ACTAGAGCCAATTTTGGGCACCTCTAGCAAAGATTTAGTCG
* *
16772 ACTATAGCCAATTTTGGGAACCTCTAGCAAAGATTTAGTCG
1 ACTAGAGCCAATTTTGGGCACCTCTAGCAAAGATTTAGTCG
** **
16813 ACTAGAGCCTGTTTCAGGCACCTCTAGC
1 ACTAGAGCCAATTTTGGGCACCTCTAGC
16841 TATTCTTGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (41 bp):
ACTAGAGCCAATTTTGGGCACCTCTAGCAAAGATTTAGTCG
Found at i:16882 original size:47 final size:47
Alignment explanation
Indices: 16824--16935 Score: 156
Period size: 47 Copynumber: 2.4 Consensus size: 47
16814 CTAGAGCCTG
* *
16824 TTTCAGGCACCTCTAGC-TATTCTTGAATGTGTAACAACTAGAG-TCA
1 TTTCGGGCACCTCTAGCAT-TTCTTGAATGTATAACAACTAGAGCTCA
* *
16870 TTTTCGGGCACCTCTAGCATTTCTTTAATGTATAACAACTAGAGCTGA
1 -TTTCGGGCACCTCTAGCATTTCTTGAATGTATAACAACTAGAGCTCA
16918 TTTCGGGCACCTCTAGCA
1 TTTCGGGCACCTCTAGCA
16936 AGGAATTATT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
47 56 0.95
48 3 0.05
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (47 bp):
TTTCGGGCACCTCTAGCATTTCTTGAATGTATAACAACTAGAGCTCA
Found at i:17316 original size:84 final size:83
Alignment explanation
Indices: 17175--17340 Score: 260
Period size: 84 Copynumber: 2.0 Consensus size: 83
17165 AGTAATGGTA
* * *
17175 AGTAATATATGCAACTATATGCAATTATATTGGATGACTATATGAATGCAACTAATTATAAAACA
1 AGTAATATATGCAACTATATGAAATTATATTAGATGACTAAATGAATGCAACTAATTATAAAACA
17240 ACACCCCAAACTCAAGAGG
66 AC-CCCCAAACTCAAGAGG
***
17259 AGTAATATATGCTGTTATATGAAATTATATTAGATGACTAAATGAATGCAACTAATTATAAAACA
1 AGTAATATATGCAACTATATGAAATTATATTAGATGACTAAATGAATGCAACTAATTATAAAACA
*
17324 ACCCCCAAACTCGAGAG
66 ACCCCCAAACTCAAGAG
17341 AAGCATTGTC
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
83 14 0.19
84 61 0.81
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (83 bp):
AGTAATATATGCAACTATATGAAATTATATTAGATGACTAAATGAATGCAACTAATTATAAAACA
ACCCCCAAACTCAAGAGG
Found at i:26895 original size:16 final size:16
Alignment explanation
Indices: 26874--26911 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
26864 GTATTACCCA
*
26874 ACCTGTTTTCAACCTG
1 ACCTGTTATCAACCTG
*
26890 ACCTGTTATGAACCTG
1 ACCTGTTATCAACCTG
26906 ACCTGT
1 ACCTGT
26912 AATTGACTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (16 bp):
ACCTGTTATCAACCTG
Found at i:27045 original size:17 final size:17
Alignment explanation
Indices: 27023--27063 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
27013 TATAATAAAC
27023 TTATGATAATTAAATTA
1 TTATGATAATTAAATTA
27040 TTATGATAATTAAATTA
1 TTATGATAATTAAATTA
*
27057 ATATGAT
1 TTATGAT
27064 TATTTTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (17 bp):
TTATGATAATTAAATTA
Found at i:27066 original size:67 final size:68
Alignment explanation
Indices: 26985--27115 Score: 178
Period size: 67 Copynumber: 1.9 Consensus size: 68
26975 GTGAAGTTAC
* *
26985 AATTAATATAATTATGTTATTTT-AAA-TTTATAATAAA-CTTATGATAATTAAATTATTATGAT
1 AATTAATATAATTAT-TT-TTTTGAAATTTTATAATAAATATTATGATAATTAAATTAATATGAT
27047 AATTA
64 AATTA
* *
27052 AATTAATATGATTATTTTTTTGAAATTTTATCATAAATTATTATGATAATTAAATTAATATGAT
1 AATTAATATAATTATTTTTTTGAAATTTTATAATAAA-TATTATGATAATTAAATTAATATGAT
27116 TACTTTTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
65 4 0.07
66 5 0.09
67 24 0.43
69 23 0.41
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (68 bp):
AATTAATATAATTATTTTTTTGAAATTTTATAATAAATATTATGATAATTAAATTAATATGATAA
TTA
Found at i:27092 original size:52 final size:52
Alignment explanation
Indices: 27033--27131 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
27023 TTATGATAAT
*
27033 TAAATTATTATGATAATTAAATTAATATGATTATTTTTTTGAAATTTTATCA
1 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTTGAAATTTTATCA
27085 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTTGAAATTT
1 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTTGAAATTT
27132 AGTTTTATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (52 bp):
TAAATTATTATGATAATTAAATTAATATGATTACTTTTTTGAAATTTTATCA
Found at i:29592 original size:13 final size:12
Alignment explanation
Indices: 29557--29695 Score: 58
Period size: 13 Copynumber: 11.2 Consensus size: 12
29547 AATAAACTAC
29557 TTATAATTAATA
1 TTATAATTAATA
29569 TTAAAATAATTATATA
1 TT---ATAATTA-ATA
29585 TTATAATTAATA
1 TTATAATTAATA
*
29597 TTAATATAATTAATT
1 -T--TATAATTAATA
29612 TTA-ATATTAA-A
1 TTATA-ATTAATA
29623 TTAT-ATTAATA
1 TTATAATTAATA
* *
29634 TAAT-A-TAGT-
1 TTATAATTAATA
**
29643 TTATAATTTGTAA
1 TTATAATTAAT-A
*
29656 TTAAAATTAATA
1 TTATAATTAATA
*
29668 -TAAAATATAATA
1 TTATAAT-TAATA
*
29680 TATAAAATTAATA
1 T-TATAATTAATA
29693 TTA
1 TTA
29696 ATATAAACTA
Statistics
Matches: 101, Mismatches: 9, Indels: 34
0.70 0.06 0.24
Matches are distributed among these distances:
9 3 0.03
10 9 0.09
11 18 0.18
12 20 0.20
13 22 0.22
14 7 0.07
15 17 0.17
16 5 0.05
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (12 bp):
TTATAATTAATA
Found at i:29599 original size:6 final size:6
Alignment explanation
Indices: 29562--29699 Score: 56
Period size: 6 Copynumber: 22.3 Consensus size: 6
29552 ACTACTTATA
29562 ATTAAT ATTAAAAT AATTATAT ATT-AT AATTAAT ATTAAT A-T-A- ATTAAT
1 ATTAAT ATT--AAT -ATTA-AT ATTAAT -ATTAAT ATTAAT ATTAAT ATTAAT
* * * ** *
29611 TTTAAT ATTAA- ATT-AT ATTAAT ATAATAT AGTTTAT AATTTGT AATTAAA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTA-AT A-TTAAT -ATTAAT -ATTAAT
* *
29661 ATTAAT A-TAAA ATATAAT ATATAAA ATTAAT ATTAAT AT
1 ATTAAT ATTAAT AT-TAAT AT-TAAT ATTAAT ATTAAT AT
29700 AAACTATATG
Statistics
Matches: 102, Mismatches: 14, Indels: 32
0.69 0.09 0.22
Matches are distributed among these distances:
3 1 0.01
4 3 0.03
5 14 0.14
6 44 0.43
7 30 0.29
8 7 0.07
9 3 0.03
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (6 bp):
ATTAAT
Found at i:29632 original size:31 final size:33
Alignment explanation
Indices: 29582--29701 Score: 117
Period size: 31 Copynumber: 3.7 Consensus size: 33
29572 AAATAATTAT
*
29582 ATATTATAATTAATATTAATATAATTAATTTTA
1 ATATTAAAATTAATATTAATATAATTAATTTTA
*
29615 ATATT-AAATT-ATATTAATATAATATAGTTTATA
1 ATATTAAAATTAATATTAATATAAT-TAATTT-TA
** * *
29648 AT-TTGTAATTAAAATTAATATAA--AA-TATA
1 ATATTAAAATTAATATTAATATAATTAATTTTA
29677 ATATATAAAATTAATATTAATATAA
1 ATAT-TAAAATTAATATTAATATAA
29702 ACTATATGTT
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
29 4 0.06
30 2 0.03
31 31 0.43
32 11 0.15
33 13 0.18
34 11 0.15
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (33 bp):
ATATTAAAATTAATATTAATATAATTAATTTTA
Found at i:29647 original size:65 final size:65
Alignment explanation
Indices: 29585--29779 Score: 161
Period size: 65 Copynumber: 3.0 Consensus size: 65
29575 TAATTATATA
* *
29585 TTATAATTAATATTAATATAATTAATTTTAATAT-T-AAATT-ATATTAATATAATATAGTTTAT
1 TTATAATTAAAATTAATATAA--AA-TATAATATATAAAATTAATATTAATATAATATAGTTTAT
29647 AAT
63 AAT
*
29650 TTGTAATTAAAATTAATATAAAATATAATATATAAAATTAATATTAATATAAACTATA-TGTTAT
1 TTATAATTAAAATTAATATAAAATATAATATATAAAATTAATATTAATAT-AA-TATAGT-TTAT
*
29714 AAA
63 AAT
* * * * * * * *
29717 TTATATAGTATAGTT--TATAAACTATAGT-TAATATAATTACTATTAATATAGTATAGTTTATA
1 TTATA-ATTAAAATTAATATAAAATATAATAT-ATAAAATTAATATTAATATAATATAGTTTATA
29779 A
64 A
29780 ACATTATACT
Statistics
Matches: 108, Mismatches: 13, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
62 7 0.06
63 3 0.03
64 15 0.14
65 32 0.30
66 31 0.29
67 14 0.13
68 6 0.06
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (65 bp):
TTATAATTAAAATTAATATAAAATATAATATATAAAATTAATATTAATATAATATAGTTTATAAT
Found at i:29684 original size:14 final size:13
Alignment explanation
Indices: 29657--29693 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
29647 AATTTGTAAT
29657 TAAAATT-A-ATA
1 TAAAATTAATATA
29668 TAAAATATAATATA
1 TAAAAT-TAATATA
29682 TAAAATTAATAT
1 TAAAATTAATAT
29694 TAATATAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.26
12 1 0.04
13 7 0.30
14 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATTAATATA
Found at i:29702 original size:31 final size:31
Alignment explanation
Indices: 29562--29707 Score: 100
Period size: 31 Copynumber: 4.5 Consensus size: 31
29552 ACTACTTATA
* *
29562 ATTAATATTAAAATAATTATATATTATAATTAAT
1 ATTAATA-TAAAAT-ATAATATA-TAAAATTAAT
*
29596 ATTAATATAATTAATTTTAATAT-T-AAATT-AT
1 ATTAATATAA--AA-TATAATATATAAAATTAAT
* * * ** *
29627 ATTAATATAATATAGTTTATAATTTGTAATTAAA
1 ATTAATATAAAATA--TAAT-ATATAAAATTAAT
29661 ATTAATATAAAATATAATATATAAAATTAAT
1 ATTAATATAAAATATAATATATAAAATTAAT
*
29692 ATTAATATAAACTATA
1 ATTAATATAAAATATA
29708 TGTTATAAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
28 1 0.01
29 1 0.01
30 3 0.03
31 38 0.43
32 8 0.09
33 8 0.09
34 21 0.24
35 7 0.08
36 1 0.01
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (31 bp):
ATTAATATAAAATATAATATATAAAATTAAT
Found at i:29715 original size:31 final size:31
Alignment explanation
Indices: 29654--29766 Score: 88
Period size: 31 Copynumber: 3.5 Consensus size: 31
29644 TATAATTTGT
* * *
29654 AATTAAAATTAATATAAAATATAAT-ATATAA
1 AATTAATATTAATATAAACTAT-ATGTTATAA
29685 AATTAATATTAATATAAACTATATGTTAT-A
1 AATTAATATTAATATAAACTATATGTTATAA
* *
29715 AATTATATAGTATAGTTTATAAACTATA-GTTAATAT
1 AATTA-ATA-T-TA--ATATAAACTATATGTT-ATAA
*
29751 AATTACTATTAATATA
1 AATTAATATTAATATA
29767 GTATAGTTTA
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
30 8 0.12
31 30 0.45
32 1 0.01
33 4 0.06
34 4 0.06
35 15 0.22
36 5 0.07
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.42
Consensus pattern (31 bp):
AATTAATATTAATATAAACTATATGTTATAA
Found at i:29734 original size:14 final size:14
Alignment explanation
Indices: 29717--29778 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
29707 ATGTTATAAA
29717 TTATATAGTATAGT
1 TTATATAGTATAGT
* *
29731 TTATAAACTATAGT
1 TTATATAGTATAGT
* *
29745 TAATATAATTACTA-T
1 TTATAT-AGTA-TAGT
*
29760 TAATATAGTATAGT
1 TTATATAGTATAGT
29774 TTATA
1 TTATA
29779 AACATTATAC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
13 2 0.05
14 24 0.63
15 10 0.26
16 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (14 bp):
TTATATAGTATAGT
Found at i:29902 original size:21 final size:21
Alignment explanation
Indices: 29828--29902 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
29818 TTAACATTAA
* *
29828 TATAAACTATATAGTACATTAAG
1 TATAAACTATAT-GT-TATAAAG
*
29851 -AT-AACTATAAT-TTATAAAT
1 TATAAACTAT-ATGTTATAAAG
*
29870 TATATACTATATGTTATAAAG
1 TATAAACTATATGTTATAAAG
29891 TATAAACTATAT
1 TATAAACTATAT
29903 AGTACACTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
19 4 0.10
20 5 0.12
21 29 0.69
22 4 0.10
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (21 bp):
TATAAACTATATGTTATAAAG
Found at i:29950 original size:13 final size:13
Alignment explanation
Indices: 29934--30017 Score: 54
Period size: 13 Copynumber: 6.8 Consensus size: 13
29924 GTACTATAAG
29934 TTACATATATAGT
1 TTACATATATAGT
* *
29947 TTACATTTATACAT
1 TTACATATATA-GT
*
29961 ATAC-TATA-AGT
1 TTACATATATAGT
* * *
29972 TTATACATACA-T
1 TTACATATATAGT
*
29984 GTAC-TATA-AG-
1 TTACATATATAGT
29994 TTACATATATAGT
1 TTACATATATAGT
30007 TTACATATATA
1 TTACATATATA
30018 CATATATACT
Statistics
Matches: 52, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
10 4 0.08
11 10 0.19
12 9 0.17
13 25 0.48
14 4 0.08
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (13 bp):
TTACATATATAGT
Found at i:30089 original size:21 final size:21
Alignment explanation
Indices: 30064--30117 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
30054 TATGCATAGT
30064 GTTTATGATTTAGGGTTAACA
1 GTTTATGATTTAGGGTTAACA
* *
30085 TTTTATGATTTAGGGTTAATA
1 GTTTATGATTTAGGGTTAACA
30106 GTTTATG-TTTAG
1 GTTTATGATTTAG
30118 AGTTTAGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 5 0.17
21 25 0.83
ACGTcount: A:0.26, C:0.02, G:0.22, T:0.50
Consensus pattern (21 bp):
GTTTATGATTTAGGGTTAACA
Found at i:30230 original size:28 final size:28
Alignment explanation
Indices: 30188--30243 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
30178 ATATAAGTAA
* *
30188 TATATATATATATATATTACTTATATTAGT
1 TATACATAAATATATA-TAC-TATATTAGT
30218 TATACATAAATATATATACTATATTA
1 TATACATAAATATATATACTATATTA
30244 ATATAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 3 0.12
30 14 0.58
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (28 bp):
TATACATAAATATATATACTATATTAGT
Found at i:30336 original size:21 final size:21
Alignment explanation
Indices: 30298--30342 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
30288 TAAACTATAG
* * *
30298 TTTAGGGTTTATGATTTATGA
1 TTTAAGGTTTAGGATTTAGGA
*
30319 TTTAAGGTTTAGGGTTTAGGA
1 TTTAAGGTTTAGGATTTAGGA
30340 TTT
1 TTT
30343 CTATAAAACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (21 bp):
TTTAAGGTTTAGGATTTAGGA
Found at i:30784 original size:20 final size:21
Alignment explanation
Indices: 30759--30810 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
30749 TTTTCCCAAT
*
30759 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
30779 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
30800 TCGCAATGCGA
1 TCGCAATGCGA
30811 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:30823 original size:41 final size:42
Alignment explanation
Indices: 30778--30877 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 42
30768 GAATAAGTAA
** * *
30778 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGATATTGAAAAAATCGCAACGAGATACTGACT
* * *
30819 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGATATTGAAAAAATCGCAACGAGATACTGACT
*
30860 TTCGCAACGCGATATTGA
1 ATCGCAACGCGATATTGA
30878 CTTTCGCAAC
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
41 44 0.94
42 3 0.06
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (42 bp):
ATCGCAACGCGATATTGAAAAAATCGCAACGAGATACTGACT
Found at i:30824 original size:20 final size:20
Alignment explanation
Indices: 30799--30913 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
30789 AATTGGGAAA
* *
30799 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATAATGACT
* * **
30819 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATAAT-GACT
* * *
30840 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATAATGACT
* *
30860 TTCGCAACGCGATATTGACT
1 ATCGCAACGCGATAATGACT
*
30880 TTCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATAATGAC-T
*
30900 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
30914 TTTCAAAGCG
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
19 2 0.03
20 48 0.64
21 25 0.33
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATAATGACT
Found at i:31106 original size:22 final size:22
Alignment explanation
Indices: 31078--31121 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
31068 CACTCTCTCA
31078 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
* *
31100 CCCATCTCTGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
31122 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:31409 original size:20 final size:20
Alignment explanation
Indices: 31386--31428 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
31376 GATAGTCGAA
31386 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
31406 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
31426 TTC
1 TTC
31429 AAAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:32769 original size:18 final size:18
Alignment explanation
Indices: 32748--32792 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
32738 TCCACTTCGG
*
32748 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
32766 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
32784 GAGCCATCA
1 GAGCCATCA
32793 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:33256 original size:20 final size:21
Alignment explanation
Indices: 33231--33323 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
33221 TTTTCCCAAT
*
33231 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
33251 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
33272 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
33292 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
33313 TCGCAATGCGA
1 TCGCAATGCGA
33324 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:33288 original size:41 final size:41
Alignment explanation
Indices: 33231--33323 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
33221 TTTTCCCAAT
33231 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
33272 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
33313 TCGCAATGCGA
1 TCGCAATGCGA
33324 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:33336 original size:41 final size:41
Alignment explanation
Indices: 33250--33384 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
33240 GAATAAGTAA
* *
33250 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
33291 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
33332 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
33373 TTCGCAACGCGA
1 ATCGCAACGCGA
33385 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:33337 original size:20 final size:20
Alignment explanation
Indices: 33312--33406 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
33302 AATTGGGAAA
*
33312 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
33332 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
33353 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
33373 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
33393 TTCGCAACGCGATA
1 ATCGCAACGCGATA
33407 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:33622 original size:22 final size:22
Alignment explanation
Indices: 33594--33637 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
33584 CACTCTCTCA
*
33594 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
*
33616 CCCATCTCCGGCAAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
33638 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCCGTC
Found at i:33925 original size:20 final size:20
Alignment explanation
Indices: 33902--33944 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
33892 GATAGTCGAA
33902 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
33922 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
33942 TTC
1 TTC
33945 AAAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:34321 original size:4 final size:4
Alignment explanation
Indices: 34302--34576 Score: 532
Period size: 4 Copynumber: 68.8 Consensus size: 4
34292 TATAGTTTAT
*
34302 ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
34350 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
34398 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
34446 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
34494 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
34542 ATAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
34577 TAGAAAATTA
Statistics
Matches: 267, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 267 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:34816 original size:19 final size:19
Alignment explanation
Indices: 34765--34826 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
34755 ATAAAATCTC
*
34765 AATTCTCAATTTCCCTCCA
1 AATTCTCAATTTCCCTCTA
* * *
34784 TATTTTTCTA-TTCCCTCTA
1 -AATTCTCAATTTCCCTCTA
34803 AATTCTCAATTTCCCTCTA
1 AATTCTCAATTTCCCTCTA
34822 AATTC
1 AATTC
34827 CCAAATAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
18 6 0.18
19 22 0.65
20 6 0.18
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTCTCAATTTCCCTCTA
Found at i:34978 original size:15 final size:15
Alignment explanation
Indices: 34955--34993 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
34945 ATATACTTTT
34955 TATAGTTTATACATA
1 TATAGTTTATACATA
*
34970 TATA-ATT-TACATA
1 TATAGTTTATACATA
34983 TATAGTTTATA
1 TATAGTTTATA
34994 TATAGTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
13 10 0.50
14 4 0.20
15 6 0.30
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (15 bp):
TATAGTTTATACATA
Found at i:34978 original size:22 final size:22
Alignment explanation
Indices: 34923--34978 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
34913 TACTATATTA
*
34923 ATATAAATTATAGTTTATAACT
1 ATATAATTTATAGTTTATAACT
*
34945 ATATACTTTTTATAGTTTAT-ACAT
1 ATATA--ATTTATAGTTTATAAC-T
34969 ATATAATTTA
1 ATATAATTTA
34979 CATATATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 17 0.61
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (22 bp):
ATATAATTTATAGTTTATAACT
Found at i:34980 original size:13 final size:13
Alignment explanation
Indices: 34964--34997 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34954 TTATAGTTTA
34964 TACATATATAATT
1 TACATATATAATT
*
34977 TACATATATAGTT
1 TACATATATAATT
*
34990 TATATATA
1 TACATATA
34998 GTTCATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (13 bp):
TACATATATAATT
Found at i:35046 original size:28 final size:29
Alignment explanation
Indices: 35015--35077 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
35005 TAAACATAAT
*
35015 TTATATATAACTTATAATA-AT-TATATA
1 TTATATATAAATTATAATATATATATATA
*
35042 GTTATATATAAATTATATTATATATATATA
1 -TTATATATAAATTATAATATATATATATA
35072 TTATAT
1 TTATAT
35078 TTTTTTCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 17 0.55
29 8 0.26
30 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (29 bp):
TTATATATAAATTATAATATATATATATA
Found at i:35065 original size:18 final size:18
Alignment explanation
Indices: 35044--35078 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35034 ATTATATAGT
35044 TATATATAAATTATATTA
1 TATATATAAATTATATTA
*
35062 TATATATATATTATATT
1 TATATATAAATTATATT
35079 TTTTTCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATATAAATTATATTA
Found at i:36732 original size:3 final size:3
Alignment explanation
Indices: 36709--36749 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
36699 AAATTAAAAT
*
36709 ATA A-A ATA AAA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
36750 AGGTCTGGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:39552 original size:21 final size:21
Alignment explanation
Indices: 39522--39811 Score: 217
Period size: 21 Copynumber: 14.0 Consensus size: 21
39512 GATTTACATA
*
39522 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
39543 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
39564 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
39585 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * * *
39604 TTCGTGTTGCGATTATTCGAAA
1 TTCGCGTTGCGA-TAGTCCAAG
39626 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
39645 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
39668 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
39687 TTCGTGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
39710 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
39729 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
**
39752 TT--CGTTGCGATAGTTGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
39771 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
39794 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
39812 AATCGCAACG
Statistics
Matches: 210, Mismatches: 40, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
19 54 0.26
20 7 0.03
21 107 0.51
22 9 0.04
23 33 0.16
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:39574 original size:42 final size:41
Alignment explanation
Indices: 39547--39808 Score: 427
Period size: 42 Copynumber: 6.3 Consensus size: 41
39537 TCCAAGTTCG
39547 CGTTGCGATAGTCGAAGTTCGCGTTGCGATT-TTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
* *
39587 CGTTGCGATAGTCGAAGTTCGTGTTGCGATTATTCGAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
* *
39628 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
*
39670 CGTTGCGATAGTCGAAGTTCGTGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
39712 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
*
39754 CGTTGCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
39796 CGTTGCGATAGTC
1 CGTTGCGATAGTC
39809 CAAAATCGCA
Statistics
Matches: 208, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 30 0.14
41 35 0.17
42 143 0.69
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (41 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
Found at i:39912 original size:6 final size:6
Alignment explanation
Indices: 39901--39927 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
39891 GACACGTATT
39901 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
39928 CGAGACGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:40563 original size:21 final size:21
Alignment explanation
Indices: 40539--40692 Score: 81
Period size: 21 Copynumber: 7.4 Consensus size: 21
40529 ATTTTGGACT
*
40539 ATCGCAACGAATTTAGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
40560 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
40581 ATCGCAACGAATTTGGAAAAA
1 ATCGCAACGAATTTGGAATAA
* * *
40602 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
* *
40623 ATCGTAACTAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
* * *
40642 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
40663 ATCGCAACAAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
40684 ATCGCAACG
1 ATCGCAACG
40693 CGAACTTCGA
Statistics
Matches: 94, Mismatches: 25, Indels: 28
0.64 0.17 0.19
Matches are distributed among these distances:
19 29 0.31
21 48 0.51
23 17 0.18
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:40591 original size:42 final size:41
Alignment explanation
Indices: 40535--40753 Score: 325
Period size: 42 Copynumber: 5.3 Consensus size: 41
40525 TGCGATTTTG
*
40535 GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTAGAA-AAATCGCAACGCGAACTTC
*
40577 GACTATCGCAACGAATTTGGAAAAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTAG-AAAAATCGCAACGCGAACTTC
* * *
40619 GACTATCGTAACTAATTT-GGAAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTAGAAAAATCGCAACGCGAACTTC
* *
40659 GACTATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTAGAA-AAATCGCAACGCGAACTTC
*
40701 GACTATCACAACGAATTTAG-AAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTAGAAAAATCGCAACGCGAACTTC
40741 GACTATCGCAACG
1 GACTATCGCAACG
40754 CGAACTTCGA
Statistics
Matches: 162, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
40 67 0.41
41 4 0.02
42 89 0.55
43 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (41 bp):
GACTATCGCAACGAATTTAGAAAAATCGCAACGCGAACTTC
Found at i:40639 original size:61 final size:60
Alignment explanation
Indices: 40560--40835 Score: 279
Period size: 61 Copynumber: 4.5 Consensus size: 60
40550 TTTAGAATAA
40560 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAAAAATCGCAACGCGAACTTCGACT
1 ATCGCAAC-CGAACTTGGACTATCGCAACGAATTTGG--AAAATCGCAACGCGAACTTCGACT
* * * ** * * ** * * * *
40623 ATCGTAA-CTAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAA--CAAATTTGGAAT
1 ATCGCAACCGAACTTGGACTATCGCAA--CGAATTTGGAAAATCGCAACGCGAACTTCGACT
* * *
40682 AAATCGCAACGCGAACTTCGACTATCACAACGAATTTAGAAAATCGCAACGCGAACTTCGACT
1 --ATCGCAAC-CGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
* *
40745 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAAATCCCAACGCGAACTTCGACT
1 ATCGCAAC-CGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
40806 ATCGCAACGCGAACTTGGACTATCGCAACG
1 ATCGCAAC-CGAACTTGGACTATCGCAACG
40836 CGAATATGTA
Statistics
Matches: 173, Mismatches: 32, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
59 8 0.05
61 131 0.76
63 34 0.20
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (60 bp):
ATCGCAACCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
Found at i:40676 original size:82 final size:82
Alignment explanation
Indices: 40535--40752 Score: 346
Period size: 82 Copynumber: 2.6 Consensus size: 82
40525 TGCGATTTTG
* * *
40535 GACTATCGCAACGAATTTAGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAA
1 GACTATCGCAACGAATTT-GGA-AAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAAA
40600 AAATCGCAACGCGAACTTC
64 AAATCGCAACGCGAACTTC
* * *
40619 GACTATCGTAACTAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAATAA
1 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAAAAA
40684 ATCGCAACGCGAACTTC
66 ATCGCAACGCGAACTTC
* *
40701 GACTATCACAACGAATTTAGAAAATCGCAACGCGAACTTCGACTATCGCAAC
1 GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAAC
40753 GCGAACTTCG
Statistics
Matches: 124, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
82 106 0.85
83 2 0.02
84 16 0.13
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (82 bp):
GACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACAAATTTGGAAAAA
ATCGCAACGCGAACTTC
Found at i:40748 original size:21 final size:21
Alignment explanation
Indices: 40560--40839 Score: 220
Period size: 21 Copynumber: 13.6 Consensus size: 21
40550 TTTAGAATAA
*
40560 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
* * **
40581 ATCGCAA--CGAATTTGGAAAAA
1 ATCGCAACGCGAACTTCG--ACT
40602 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * * * **
40623 ATCGTAA--CTAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
40642 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * * *
40663 ATCGCAA--CAAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
40682 AAATCGCAACGCGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * * **
40705 ATCACAA--CGAATTTAGAAA
1 ATCGCAACGCGAACTTCGACT
40724 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
40745 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * **
40766 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
*
40785 ATCCCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
40806 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
40827 ATCGCAACGCGAA
1 ATCGCAACGCGAA
40840 TATGTAAATC
Statistics
Matches: 197, Mismatches: 48, Indels: 28
0.72 0.18 0.10
Matches are distributed among these distances:
19 57 0.29
21 125 0.63
23 15 0.08
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:40872 original size:21 final size:21
Alignment explanation
Indices: 40848--40900 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
40838 AATATGTAAA
*
40848 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
40869 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGT
*
40890 TCACGTTGCGA
1 TCGCGTTGCGA
40901 ATCTGGAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGT
Found at i:41601 original size:20 final size:20
Alignment explanation
Indices: 41576--41614 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
41566 AAAATTCAAA
*
41576 AAATAAATCTAATTGAATCC
1 AAATAAATCAAATTGAATCC
41596 AAATAAATCAAATTGAATC
1 AAATAAATCAAATTGAATC
41615 TCTTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (20 bp):
AAATAAATCAAATTGAATCC
Found at i:43700 original size:32 final size:31
Alignment explanation
Indices: 43615--43702 Score: 79
Period size: 32 Copynumber: 2.8 Consensus size: 31
43605 TAGGTAAACA
* *
43615 ATCCATATGTTCCTTAGAACATAGGTATACT
1 ATCCATATGTTCCGTAGAACATAGGAATACT
** * * *
43646 ATTGATATGTCCCG-AAAGACATAGGCAATTCT
1 ATCCATATGTTCCGTAGA-ACATAGG-AATACT
*
43678 GTCCATATGTTCCGTAGAACATAGG
1 ATCCATATGTTCCGTAGAACATAGG
43703 TAAACCCTTG
Statistics
Matches: 42, Mismatches: 12, Indels: 5
0.71 0.20 0.08
Matches are distributed among these distances:
30 2 0.05
31 17 0.40
32 21 0.50
33 2 0.05
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (31 bp):
ATCCATATGTTCCGTAGAACATAGGAATACT
Found at i:44062 original size:20 final size:20
Alignment explanation
Indices: 44037--44085 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
44027 TATCACTTTG
*
44037 TATCATATTCCACATATTCA
1 TATCATATTCCACATATACA
*
44057 TATCAT-TT-CACATGTACA
1 TATCATATTCCACATATACA
44075 TATCACTATTC
1 TATCA-TATTC
44086 ATATGTCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 13 0.54
19 3 0.12
20 8 0.33
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (20 bp):
TATCATATTCCACATATACA
Found at i:48730 original size:20 final size:20
Alignment explanation
Indices: 48705--48753 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
48695 TATCACTTTG
*
48705 TATCATATTCCACATATTCA
1 TATCATATTCCACATATACA
*
48725 TATCAT-TT-CACATGTACA
1 TATCATATTCCACATATACA
48743 TATCACTATTC
1 TATCA-TATTC
48754 ATATGATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 13 0.54
19 3 0.12
20 8 0.33
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (20 bp):
TATCATATTCCACATATACA
Found at i:49588 original size:19 final size:19
Alignment explanation
Indices: 49564--49613 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
49554 TAAGGGGTGT
49564 ATCGATGCACTCCCTATGC
1 ATCGATGCACTCCCTATGC
49583 ATCGATGCACTCCCTATGC
1 ATCGATGCACTCCCTATGC
49602 ATCGATGCACTC
1 ATCGATGCACTC
49614 ATTGAATTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.36, G:0.16, T:0.26
Consensus pattern (19 bp):
ATCGATGCACTCCCTATGC
Found at i:53149 original size:32 final size:32
Alignment explanation
Indices: 53049--53154 Score: 110
Period size: 31 Copynumber: 3.4 Consensus size: 32
53039 AGGTCATGAG
* *
53049 GAACCTAGGTAA-ACTGTCCATATGTTCCTTA
1 GAACATAGGTAATACTGTCCATATGTTCCGTA
* *
53080 GAACATAGGT-ATCCTGTCCATATGTCCCG-A
1 GAACATAGGTAATACTGTCCATATGTTCCGTA
* * * *
53110 AAGACATAGGTAATTCTGTCTATATGTTTCGTA
1 GA-ACATAGGTAATACTGTCCATATGTTCCGTA
53143 GAACATAGGTAA
1 GAACATAGGTAA
53155 ACCCTCGAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
30 3 0.05
31 31 0.51
32 25 0.41
33 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (32 bp):
GAACATAGGTAATACTGTCCATATGTTCCGTA
Found at i:53520 original size:20 final size:18
Alignment explanation
Indices: 53495--53537 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
53485 TATCAATCTG
*
53495 TATCATATTCTACATATTCA
1 TATCAT-TTC-ACATATACA
*
53515 TATCATTTCACATGTACA
1 TATCATTTCACATATACA
53533 TATCA
1 TATCA
53538 CTGTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 12 0.57
19 3 0.14
20 6 0.29
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (18 bp):
TATCATTTCACATATACA
Found at i:59592 original size:18 final size:18
Alignment explanation
Indices: 59566--59613 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
59556 AAAGGCGGTT
* *
59566 TTGACTCAAGCACCAGTG
1 TTGATTCAACCACCAGTG
59584 TTGATTCAACCACCAGTG
1 TTGATTCAACCACCAGTG
59602 TTGATTCAACCA
1 TTGATTCAACCA
59614 GAGTCCGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (18 bp):
TTGATTCAACCACCAGTG
Found at i:64669 original size:21 final size:21
Alignment explanation
Indices: 64596--64662 Score: 125
Period size: 21 Copynumber: 3.2 Consensus size: 21
64586 CAGAGAGCTT
*
64596 ATATCAATCTATTCTCTTAGG
1 ATATCAATTTATTCTCTTAGG
64617 ATATCAATTTATTCTCTTAGG
1 ATATCAATTTATTCTCTTAGG
64638 ATATCAATTTATTCTCTTAGG
1 ATATCAATTTATTCTCTTAGG
64659 ATAT
1 ATAT
64663 GCTTTTAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (21 bp):
ATATCAATTTATTCTCTTAGG
Found at i:64682 original size:8 final size:8
Alignment explanation
Indices: 64669--64756 Score: 50
Period size: 8 Copynumber: 9.9 Consensus size: 8
64659 ATATGCTTTT
64669 AATATTTC
1 AATATTTC
*
64677 AATATTTT
1 AATATTTC
64685 AATCATTTC
1 AAT-ATTTC
*
64694 AAAAGAATTTC
1 --AA-TATTTC
*
64705 AATATTTT
1 AATATTTC
64713 AATCATTTC
1 AAT-ATTTC
*
64722 AAAAGAATTTC
1 --AA-TATTTC
64733 AATATTTC
1 AATATTTC
64741 AATCATTTC
1 AAT-ATTTC
*
64750 ACTATTT
1 AATATTT
64757 TGATCATATC
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
8 29 0.47
9 19 0.31
11 14 0.23
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.45
Consensus pattern (8 bp):
AATATTTC
Found at i:64712 original size:28 final size:28
Alignment explanation
Indices: 64672--64750 Score: 149
Period size: 28 Copynumber: 2.8 Consensus size: 28
64662 TGCTTTTAAT
64672 ATTTCAATATTTTAATCATTTCAAAAGA
1 ATTTCAATATTTTAATCATTTCAAAAGA
64700 ATTTCAATATTTTAATCATTTCAAAAGA
1 ATTTCAATATTTTAATCATTTCAAAAGA
*
64728 ATTTCAATATTTCAATCATTTCA
1 ATTTCAATATTTTAATCATTTCA
64751 CTATTTTGAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.44
Consensus pattern (28 bp):
ATTTCAATATTTTAATCATTTCAAAAGA
Found at i:64763 original size:17 final size:17
Alignment explanation
Indices: 64672--64756 Score: 55
Period size: 17 Copynumber: 4.7 Consensus size: 17
64662 TGCTTTTAAT
*
64672 ATTTCAATATTTTAATC
1 ATTTCAATATTTCAATC
*
64689 ATTTCAAAAGAATTTCAAT-
1 ATTTC--AA-TATTTCAATC
* **
64708 ATTTTAATCATTTCAAAAGA
1 ATTTCAAT-ATTTC--AATC
64728 ATTTCAATATTTCAATC
1 ATTTCAATATTTCAATC
*
64745 ATTTCACTATTT
1 ATTTCAATATTT
64757 TGATCATATC
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
17 25 0.48
19 13 0.25
20 14 0.27
ACGTcount: A:0.39, C:0.13, G:0.02, T:0.46
Consensus pattern (17 bp):
ATTTCAATATTTCAATC
Found at i:65207 original size:31 final size:31
Alignment explanation
Indices: 65166--65246 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
65156 AATTATTTTT
*
65166 AATACTTATTATTAAAGGTTTAAAATTTTCA
1 AATATTTATTATTAAAGGTTTAAAATTTTCA
* ** *
65197 AATATTTATTATT-ATGAGTTTAATTTTTTCT
1 AATATTTATTATTAAAG-GTTTAAAATTTTCA
65228 AATATTTATTATTAAAGGT
1 AATATTTATTATTAAAGGT
65247 CTACTCTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
30 2 0.05
31 38 0.90
32 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (31 bp):
AATATTTATTATTAAAGGTTTAAAATTTTCA
Found at i:65458 original size:29 final size:30
Alignment explanation
Indices: 65420--65489 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 30
65410 ACTTCTTTTC
65420 TATTTGTTATTAGGAG-TCCAAT-TTTTTAG
1 TATTTGTTATTA-GAGCTCCAATCTTTTTAG
* *
65449 TATTTTTTATTAGAGCTCCAATCTTTTTCAT
1 TATTTGTTATTAGAGCTCCAATCTTTTT-AG
65480 TATTTGTTAT
1 TATTTGTTAT
65490 ACGAGCATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.09
29 17 0.49
30 5 0.14
31 10 0.29
ACGTcount: A:0.23, C:0.10, G:0.11, T:0.56
Consensus pattern (30 bp):
TATTTGTTATTAGAGCTCCAATCTTTTTAG
Found at i:68567 original size:22 final size:22
Alignment explanation
Indices: 68541--68591 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
68531 GTCAACGGTT
68541 AACGGTCAGA-CTGGTCAAAGTC
1 AACGGTCAGATC-GGTCAAAGTC
68563 AACGGTCAGATCGGTCAAAGTC
1 AACGGTCAGATCGGTCAAAGTC
*
68585 AATGGTC
1 AACGGTC
68592 GGGTCAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (22 bp):
AACGGTCAGATCGGTCAAAGTC
Found at i:77192 original size:23 final size:23
Alignment explanation
Indices: 77166--77211 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
77156 CACCACAGCT
*
77166 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
77189 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
77212 TATAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:77430 original size:149 final size:149
Alignment explanation
Indices: 77189--77493 Score: 592
Period size: 149 Copynumber: 2.0 Consensus size: 149
77179 CGAAGTGCCA
*
77189 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCTCATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
*
77254 CATATACATATACTAGGGATCACGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
77319 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
77338 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
77403 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
77468 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
77487 CGTAGAA
1 CGTAGAA
77494 CCCTCGACTC
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:78929 original size:64 final size:66
Alignment explanation
Indices: 78837--78958 Score: 196
Period size: 64 Copynumber: 1.9 Consensus size: 66
78827 TGAAGGTATA
*
78837 CATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTTAATGGGGAT
1 CATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAATGGGGAT
78901 G
66 G
*
78902 CATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAA
1 CATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAA
78959 ATTCATGCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
63 1 0.02
64 30 0.57
65 22 0.42
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.35
Consensus pattern (66 bp):
CATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAATGGGGAT
G
Found at i:82851 original size:3 final size:3
Alignment explanation
Indices: 82843--82872 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
82833 GCAAAATATG
82843 TAA TAA TAA TAA GTAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA
82873 TTTATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:82858 original size:13 final size:13
Alignment explanation
Indices: 82837--82872 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
82827 GGTGCTGCAA
*
82837 AATATGTAATAAT
1 AATAAGTAATAAT
82850 AATAAGTAATAAT
1 AATAAGTAATAAT
82863 AATAA-TAATA
1 AATAAGTAATA
82873 TTTATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
AATAAGTAATAAT
Found at i:83265 original size:113 final size:112
Alignment explanation
Indices: 83067--83587 Score: 781
Period size: 113 Copynumber: 4.6 Consensus size: 112
83057 ATCTATTCCA
* * * * * *
83067 TCTGAAGGGAATATCAAATCTTTGAGAAGAGAGACCTATTCCGCTTACTCTGAAGGGACTATCAG
1 TCTGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
* *
83132 ATCTGGGGAAGTTGATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
66 ATCTGGGGGAGTTAATCCATTGAATC-AAGCAGACTTGTTCCACTTAC
**
83180 TCTGAAGGGAATATCAAATCTCGGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
1 TCTGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
83245 ATCTGGGGGAGTTAATCCATTGAATCGAAGCAGACTTGTTCCACTTAC
66 ATCTGGGGGAGTTAATCCATTGAATC-AAGCAGACTTGTTCCACTTAC
* *
83293 TCTGAAGGGAATATCAAATCTTAGAAAAAAGAGATATGTTCCGCTTACTCTGAAGGGAATATCAT
1 TCTGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
* * * * * *
83358 GTATGGGGGAGTTGATCCATTGAATCAGGATAGACTTATTCCACTTAC
66 ATCTGGGGGAGTTAATCCATTGAATCAAG-CAGACTTGTTCCACTTAC
*
83406 TCTGAAGGGAATATCAAATCTTAGAAAAAAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
1 TCTGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
* *
83471 ATCTGGGGGAGTTAATCCATTGAATCAGGGTAGACTTGTTCCACTTAC
66 ATCTGGGGGAGTTAATCCATTGAATCA-AGCAGACTTGTTCCACTTAC
* * * *
83519 TCTGAAGGGAATATCAAATCTTGGATAAGAGAGACATGTTTCGCTTACTCTGAAGGGAATATCAA
1 TCTGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
83584 ATCT
66 ATCT
83588 TGGATAAGAG
Statistics
Matches: 377, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
112 2 0.01
113 373 0.99
114 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (112 bp):
TCTGAAGGGAATATCAAATCTTAGAAAAGAGAGACATGTTCCGCTTACTCTGAAGGGAATATCAT
ATCTGGGGGAGTTAATCCATTGAATCAAGCAGACTTGTTCCACTTAC
Found at i:83585 original size:48 final size:48
Alignment explanation
Indices: 83514--83630 Score: 218
Period size: 48 Copynumber: 2.4 Consensus size: 48
83504 ACTTGTTCCA
83514 CTTACTCTGAAGGGAATATCAAATCTTGGATAAGAGAGACATGTT-TCG
1 CTTACTCTGAAGGGAATATCAAATCTTGGATAAGAGAGACATGTTCT-G
83562 CTTACTCTGAAGGGAATATCAAATCTTGGATAAGAGAGACATGTTCTG
1 CTTACTCTGAAGGGAATATCAAATCTTGGATAAGAGAGACATGTTCTG
83610 CTTACTCTGAAGGGAATATCA
1 CTTACTCTGAAGGGAATATCA
83631 GATCAGGAGG
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
48 67 0.99
49 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (48 bp):
CTTACTCTGAAGGGAATATCAAATCTTGGATAAGAGAGACATGTTCTG
Found at i:84801 original size:15 final size:15
Alignment explanation
Indices: 84758--84843 Score: 54
Period size: 15 Copynumber: 5.8 Consensus size: 15
84748 ATCTTGAACC
84758 CTCATTTTATTT-TTT
1 CTCATTTT-TTTCTTT
84773 -TC-TTTTCTTT-TTT
1 CTCATTTT-TTTCTTT
84786 CTCATTTTTTTCTTT
1 CTCATTTTTTTCTTT
* * **
84801 CCTTATTCTTTAATTT
1 -CTCATTTTTTTCTTT
* *
84817 TTCATTTTTGTCTTT
1 CTCATTTTTTTCTTT
*
84832 TTCATTTTTTTC
1 CTCATTTTTTTC
84844 AGGCGAAATA
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
13 10 0.18
14 7 0.13
15 27 0.49
16 11 0.20
ACGTcount: A:0.09, C:0.16, G:0.01, T:0.73
Consensus pattern (15 bp):
CTCATTTTTTTCTTT
Found at i:84809 original size:22 final size:23
Alignment explanation
Indices: 84766--84809 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
84756 CCCTCATTTT
* *
84766 ATTTTTTTCTTTTCTTTTTTCTC
1 ATTTTTTTCTTTTCCTTATTCTC
84789 ATTTTTTTC-TTTCCTTATTCT
1 ATTTTTTTCTTTTCCTTATTCT
84810 TTAATTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (23 bp):
ATTTTTTTCTTTTCCTTATTCTC
Found at i:84825 original size:31 final size:28
Alignment explanation
Indices: 84758--84831 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 28
84748 ATCTTGAACC
*
84758 CTCATTTTATTT-TTTTCTTTTCTTTTTT
1 CTCATTTT-TTTCTTTCCTTTTCTTTTTT
84786 CTCATTTTTTTCTTTCCTTATTCTTTAATTT
1 CTCATTTTTTTCTTTCCTT-TTCTTT--TTT
* *
84817 TTCATTTTTGTCTTT
1 CTCATTTTTTTCTTT
84832 TTCATTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 3 0.08
28 14 0.36
29 6 0.15
31 16 0.41
ACGTcount: A:0.09, C:0.16, G:0.01, T:0.73
Consensus pattern (28 bp):
CTCATTTTTTTCTTTCCTTTTCTTTTTT
Found at i:92033 original size:11 final size:11
Alignment explanation
Indices: 92019--92048 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
92009 TGCAATGTAG
92019 ATGCAATATGA
1 ATGCAATATGA
*
92030 ATGCAAGATGA
1 ATGCAATATGA
92041 ATGCAATA
1 ATGCAATA
92049 CGAGGTGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (11 bp):
ATGCAATATGA
Found at i:98116 original size:3 final size:3
Alignment explanation
Indices: 98110--98139 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
98100 GCAAAATATG
98110 TAA TAA TAA TAA GTAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA
98140 TTTATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:98125 original size:13 final size:13
Alignment explanation
Indices: 98104--98139 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
98094 GGTGGTGCAA
*
98104 AATATGTAATAAT
1 AATAAGTAATAAT
98117 AATAAGTAATAAT
1 AATAAGTAATAAT
98130 AATAA-TAATA
1 AATAAGTAATA
98140 TTTATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (13 bp):
AATAAGTAATAAT
Found at i:100008 original size:69 final size:69
Alignment explanation
Indices: 99901--100030 Score: 235
Period size: 69 Copynumber: 1.9 Consensus size: 69
99891 TATCATAAGT
99901 CTCCCTCCTTAGTAGGCTATGGCATGTCATGTATCATATGCGGTCCACTTGGACCCCAAGTCTCC
1 CTCCCTCCTTAGTAGGCTATGGCATGTCATGTATCATATGCGGTCCACTTGGACCCCAAGTCTCC
99966 CTCC
66 CTCC
*
99970 CTCCCTTCC-TAGTAGGCTATGGCATGTCATTTATCATATGCGGTCCACTTGGACCCCAAGT
1 CTCCC-TCCTTAGTAGGCTATGGCATGTCATGTATCATATGCGGTCCACTTGGACCCCAAGT
100031 AGTATGAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
69 56 0.95
70 3 0.05
ACGTcount: A:0.18, C:0.32, G:0.19, T:0.30
Consensus pattern (69 bp):
CTCCCTCCTTAGTAGGCTATGGCATGTCATGTATCATATGCGGTCCACTTGGACCCCAAGTCTCC
CTCC
Found at i:103086 original size:22 final size:22
Alignment explanation
Indices: 103061--103103 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
103051 GCTAAAGTAT
103061 AAAATTAGGAAACA-TTTAGGGG
1 AAAATTAGGAAA-AGTTTAGGGG
103083 AAAATTAGGAAAAGTTTAGGG
1 AAAATTAGGAAAAGTTTAGGG
103104 ACCTAAGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.47, C:0.02, G:0.28, T:0.23
Consensus pattern (22 bp):
AAAATTAGGAAAAGTTTAGGGG
Found at i:116089 original size:138 final size:136
Alignment explanation
Indices: 115919--116307 Score: 428
Period size: 138 Copynumber: 2.8 Consensus size: 136
115909 CCTAGAGGAC
* * *
115919 TAAACCTGAATATGTAGGCTCTAATATTAATCCTAATAGATTTTAACCAATTATTGAATCGAACA
1 TAAACCT-AAAATGAAGGCTCTAATATTAATCCTAATAGATTTTAACCAATTATTGAATCGAATA
* *
115984 ATCGAAATGGAACCACTGGCATTAAGGCGAGGACAAAATTGAATATTCCATAAATTAAAGGACTA
65 ATCGAAATGGAACC-TTGGCATTAAGGCGAGGACAAAATTGAATATTCCATAAATTAAAGGAATA
116049 AAGTAA-AAA
129 AA--AAGAAA
* * *
116058 TAAACCTAAAATGAAGGCTATAATATTAATCCTAATTGATTTTAATCAATTATTGAATCGAATAA
1 TAAACCTAAAATGAAGGCTCTAATATTAATCCTAATAGATTTTAACCAATTATTGAATCGAATAA
** * * * *
116123 TCGAAATGGAACCTTAACATTAAGACGAGGACCAAATTGAATATTCCCTAAATTAAATGAATAAA
66 TCGAAATGGAACCTTGGCATTAAGGCGAGGACAAAATTGAATATTCCATAAATTAAAGGAATAAA
116188 AATGAAA
131 AA-GAAA
* * * * * * *
116195 TTAATCTAAAGT-ATAGGGTCTAGTAATTAACCCTAATTA-ATTTTAACCAATTACTT-AATCCA
1 TAAACCTAAAATGA-AGGCTCTAAT-ATTAATCCTAA-TAGATTTTAACCAATTA-TTGAATCGA
* * *
116257 ATAATCGAAATGG-ACCTTTGGACATTAAGGCGAGGGCTAAATCGAATATTC
62 ATAATCGAAATGGAACC-TTGG-CATTAAGGCGAGGACAAAATTGAATATTC
116308 TTCTAAATTT
Statistics
Matches: 212, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
135 2 0.01
136 1 0.00
137 66 0.31
138 108 0.51
139 35 0.17
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (136 bp):
TAAACCTAAAATGAAGGCTCTAATATTAATCCTAATAGATTTTAACCAATTATTGAATCGAATAA
TCGAAATGGAACCTTGGCATTAAGGCGAGGACAAAATTGAATATTCCATAAATTAAAGGAATAAA
AAGAAA
Found at i:117851 original size:23 final size:25
Alignment explanation
Indices: 117807--117857 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
117797 CATTAATAAC
* *
117807 ATAAATAATTTTGGTAATAAAAT-A
1 ATAAATAATTTTGATAAAAAAATGA
*
117831 ATAATTAA-TTTGATAAAAAAATGA
1 ATAAATAATTTTGATAAAAAAATGA
117855 ATA
1 ATA
117858 TTAGTATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (25 bp):
ATAAATAATTTTGATAAAAAAATGA
Found at i:118232 original size:19 final size:20
Alignment explanation
Indices: 118196--118240 Score: 83
Period size: 19 Copynumber: 2.3 Consensus size: 20
118186 AATTTTTTTA
118196 TTCCCTCTAAATTTCCCAAT
1 TTCCCTCTAAATTTCCCAAT
118216 TTCCCTCTAAA-TTCCCAAT
1 TTCCCTCTAAATTTCCCAAT
118235 TTCCCT
1 TTCCCT
118241 ATATTCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.40
Consensus pattern (20 bp):
TTCCCTCTAAATTTCCCAAT
Found at i:118357 original size:2 final size:2
Alignment explanation
Indices: 118350--118426 Score: 120
Period size: 2 Copynumber: 38.5 Consensus size: 2
118340 CTTTGAATAA
118350 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
118392 AT AT AT AT AT AT A- AGT AT AC AT AA AT AT AT AT AT A
1 AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A
118427 ATTAACATAA
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.01
2 67 0.97
3 1 0.01
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:118867 original size:2 final size:2
Alignment explanation
Indices: 118860--118924 Score: 105
Period size: 2 Copynumber: 32.5 Consensus size: 2
118850 TATGTTTAAT
*
118860 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118902 TA CT- TA TA TA TA TA TA TA TA TA T
1 TA -TA TA TA TA TA TA TA TA TA TA T
118925 TATTCAAAGT
Statistics
Matches: 59, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 1 0.02
2 57 0.97
3 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:119018 original size:19 final size:20
Alignment explanation
Indices: 118994--119031 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
118984 TTGATTTTAT
118994 TTGGG-AATCTAGAGGGAAA
1 TTGGGAAATCTAGAGGGAAA
*
119013 TTGGGAAATTTAGAGGGAA
1 TTGGGAAATCTAGAGGGAA
119032 TAGAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.37, C:0.03, G:0.37, T:0.24
Consensus pattern (20 bp):
TTGGGAAATCTAGAGGGAAA
Found at i:119271 original size:7 final size:7
Alignment explanation
Indices: 119260--119347 Score: 72
Period size: 7 Copynumber: 12.6 Consensus size: 7
119250 TATAGTTTAT
119260 ATAAACC
1 ATAAACC
*
119267 TTAAACC
1 ATAAACC
*
119274 CTAAACC
1 ATAAACC
* *
119281 CTAAACT
1 ATAAACC
*
119288 TTAAATCC
1 ATAAA-CC
119296 -TAAACC
1 ATAAACC
*
119302 CTAAACC
1 ATAAACC
*
119309 ATAAATC
1 ATAAACC
119316 ATAAA-C
1 ATAAACC
119322 ACTAAACC
1 A-TAAACC
*
119330 TTAAACC
1 ATAAACC
119337 ATAAACC
1 ATAAACC
119344 ATAA
1 ATAA
119348 TGTATGTATA
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
6 4 0.06
7 62 0.91
8 2 0.03
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (7 bp):
ATAAACC
Found at i:119291 original size:21 final size:21
Alignment explanation
Indices: 119261--119343 Score: 105
Period size: 21 Copynumber: 4.0 Consensus size: 21
119251 ATAGTTTATA
*
119261 TAAACCTTAAACCCTAAACCC
1 TAAACCTTAAACCATAAACCC
*
119282 TAAACTTTAAATCC-TAAACCC
1 TAAACCTTAAA-CCATAAACCC
* * *
119303 TAAACCATAAATCATAAACAC
1 TAAACCTTAAACCATAAACCC
119324 TAAACCTTAAACCATAAACC
1 TAAACCTTAAACCATAAACC
119344 ATAATGTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
20 1 0.02
21 49 0.94
22 2 0.04
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCTTAAACCATAAACCC
Found at i:119320 original size:28 final size:26
Alignment explanation
Indices: 119260--119347 Score: 95
Period size: 28 Copynumber: 3.2 Consensus size: 26
119250 TATAGTTTAT
*
119260 ATAAACCTTAAACCCTAAACCCTAAAC
1 ATAAACC-TAAACCCTAAACCATAAAC
*
119287 TTTAAATCCTAAACCCTAAACCATAAATC
1 -ATAAA-CCTAAACCCTAAACCATAAA-C
*
119316 ATAAACACTAAACCTTAAACCATAAACC
1 ATAAAC-CTAAACCCTAAACCATAAA-C
119344 ATAA
1 ATAA
119348 TGTATGTATA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
27 1 0.02
28 48 0.92
29 3 0.06
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (26 bp):
ATAAACCTAAACCCTAAACCATAAAC
Found at i:119400 original size:23 final size:24
Alignment explanation
Indices: 119365--119409 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
119355 ATAAACCATG
119365 TATAGTATATATAAACTATATATA
1 TATAGTATATATAAACTATATATA
119389 TATA-TATATATAAACTATATA
1 TATAGTATATATAAACTATATA
119410 AGTAAATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (24 bp):
TATAGTATATATAAACTATATATA
Found at i:119642 original size:18 final size:18
Alignment explanation
Indices: 119619--119661 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
119609 TATAATAATA
119619 TTTTATAAACTATATACT
1 TTTTATAAACTATATACT
***
119637 TTTTATAGTTTATATACT
1 TTTTATAAACTATATACT
119655 TTTTATA
1 TTTTATA
119662 TTTTATACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTTATAAACTATATACT
Found at i:119666 original size:18 final size:18
Alignment explanation
Indices: 119629--119686 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
119619 TTTTATAAAC
119629 TATATACTTTTTATAGTT
1 TATATACTTTTTATAGTT
119647 TATATACTTTTTATA-TT
1 TATATACTTTTTATAGTT
* *
119664 T-TATAC-ATATATAGTT
1 TATATACTTTTTATAGTT
119680 TATATAC
1 TATATAC
119687 ATAGTTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
15 5 0.14
16 8 0.22
17 8 0.22
18 15 0.42
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (18 bp):
TATATACTTTTTATAGTT
Found at i:119681 original size:15 final size:13
Alignment explanation
Indices: 119670--119826 Score: 84
Period size: 13 Copynumber: 11.4 Consensus size: 13
119660 TATTTTATAC
119670 ATATATAGTTTAT
1 ATATATAGTTTAT
*
119683 ATACATAGTTTAT
1 ATATATAGTTTAT
*
119696 ATATATAGTTCACAT
1 ATATATAGTT--TAT
* * *
119711 AAACATAATTTAT
1 ATATATAGTTTAT
119724 ATATATAGCTTATAAT
1 ATATATAG-TT-T-AT
119740 AATTATATAGTTTAT
1 -A-TATATAGTTTAT
**
119755 A-ATATA-AATAT
1 ATATATAGTTTAT
* *
119766 AGTTTATAATTTTAT
1 A-TATAT-AGTTTAT
*
119781 ATACATAGTTTAT
1 ATATATAGTTTAT
*
119794 ATATATAGTTCACAT
1 ATATATAGTT--TAT
* *
119809 AAATATAATTTAT
1 ATATATAGTTTAT
119822 ATATA
1 ATATA
119827 GTTTATGATA
Statistics
Matches: 107, Mismatches: 24, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
11 4 0.04
12 5 0.05
13 52 0.49
14 7 0.07
15 26 0.24
16 3 0.03
17 3 0.03
18 7 0.07
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (13 bp):
ATATATAGTTTAT
Found at i:119699 original size:26 final size:26
Alignment explanation
Indices: 119670--119738 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 26
119660 TATTTTATAC
* *
119670 ATATATAGTTTATATACATAGTTTAT
1 ATATATAGTTTATAAACATAATTTAT
*
119696 ATATATAGTTCACATAAACATAATTTAT
1 ATATATAGTT--TATAAACATAATTTAT
*
119724 ATATATAGCTTATAA
1 ATATATAGTTTATAA
119739 TAATTATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 14 0.39
28 22 0.61
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (26 bp):
ATATATAGTTTATAAACATAATTTAT
Found at i:119765 original size:18 final size:18
Alignment explanation
Indices: 119721--119873 Score: 116
Period size: 18 Copynumber: 8.2 Consensus size: 18
119711 AAACATAATT
*
119721 TATATATATAGCTTATAA
1 TATATATATAGTTTATAA
119739 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
119757 TATAAATATAGTTTATAA
1 TATATATATAGTTTATAA
*
119775 TTTTATATACATAGTTTATATA
1 ---TATATATATAGTTTATA-A
* **
119797 TATAGTTCACATA-AATATAA
1 TATA--T-ATATAGTTTATAA
* *
119817 TTTATATATAGTTTATGA
1 TATATATATAGTTTATAA
119835 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
119853 TATAAATATAGTTTAT-A
1 TATATATATAGTTTATAA
119870 TATA
1 TATA
119874 ATTTTATATT
Statistics
Matches: 109, Mismatches: 14, Indels: 25
0.74 0.09 0.17
Matches are distributed among these distances:
17 11 0.10
18 62 0.57
19 6 0.06
20 4 0.04
21 20 0.18
22 6 0.06
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (18 bp):
TATATATATAGTTTATAA
Found at i:119859 original size:96 final size:98
Alignment explanation
Indices: 119678--119869 Score: 343
Period size: 96 Copynumber: 2.0 Consensus size: 98
119668 ACATATATAG
119678 TTTATATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCTTATAATAAT
1 TTTATATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCTTATAATAAT
119743 TATATAGTTTATAATATAAATATAGTTTATAAT
66 TATATAGTTTATAATATAAATATAGTTTATAAT
* * *
119776 TTTATATACATAGTTTATATATATAGTTCACATAAATATAA-TT-TATATATAGTTTATGATAAT
1 TTTATATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCTTATAATAAT
119839 TATATAGTTTATAATATAAATATAGTTTATA
66 TATATAGTTTATAATATAAATATAGTTTATA
119870 TATAATTTTA
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
96 49 0.54
97 2 0.02
98 40 0.44
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (98 bp):
TTTATATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCTTATAATAAT
TATATAGTTTATAATATAAATATAGTTTATAAT
Found at i:128382 original size:14 final size:14
Alignment explanation
Indices: 128363--128430 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
128353 TGGTTTTCTG
128363 GAAATTGAATTATA
1 GAAATTGAATTATA
128377 GAAATTGAATT-TA
1 GAAATTGAATTATA
* *
128390 AAAAATGAATTACT-
1 GAAATTGAATTA-TA
* *
128404 GAAATTTGAATTCTG
1 GAAA-TTGAATTATA
*
128419 GAAAATGAATTA
1 GAAATTGAATTA
128431 CATTTCTGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
13 11 0.26
14 21 0.49
15 11 0.26
ACGTcount: A:0.49, C:0.03, G:0.15, T:0.34
Consensus pattern (14 bp):
GAAATTGAATTATA
Found at i:128399 original size:27 final size:29
Alignment explanation
Indices: 128368--128431 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
128358 TTCTGGAAAT
128368 TGAATTA-TAGAAA-TTGAATT-TAAAAAA
1 TGAATTACT-GAAATTTGAATTCTAAAAAA
**
128395 TGAATTACTGAAATTTGAATTCTGGAAAA
1 TGAATTACTGAAATTTGAATTCTAAAAAA
128424 TGAATTAC
1 TGAATTAC
128432 ATTTCTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 11 0.34
28 8 0.25
29 13 0.41
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (29 bp):
TGAATTACTGAAATTTGAATTCTAAAAAA
Found at i:128839 original size:24 final size:26
Alignment explanation
Indices: 128811--128988 Score: 90
Period size: 30 Copynumber: 6.7 Consensus size: 26
128801 TTAAATTATT
128811 ATATTA-A-TATTAAATATATAAATA
1 ATATTATATTATTAAATATATAAATA
128835 ATATTATTCATTATTAAATATATAAATA
1 ATATTA-T-ATTATTAAATATATAAATA
*
128863 ATTTATTATATATTATTAAA-ATAAAAATATA
1 A--TA-T-TATATTATTAAATAT-ATAA-ATA
*
128894 ATATCTTATATTATTATA-ATAT-AAT-
1 ATA--TTATATTATTAAATATATAAATA
* *
128919 -TGATTATTTTATTATAATATTAAAAATATA
1 AT-ATTATATTATTA-AATA-T-ATAA-ATA
*
128949 ATATTATATTATTAGAA-ATATTAATA
1 ATATTATATTATTA-AATATATAAATA
128975 A-A-TATATT-TTAAAT
1 ATATTATATTATTAAAT
128989 GTTTATTAAT
Statistics
Matches: 122, Mismatches: 11, Indels: 43
0.69 0.06 0.24
Matches are distributed among these distances:
22 2 0.02
23 13 0.11
24 14 0.11
25 3 0.02
26 7 0.06
27 5 0.04
28 21 0.17
29 20 0.16
30 28 0.23
31 7 0.06
32 2 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (26 bp):
ATATTATATTATTAAATATATAAATA
Found at i:128854 original size:28 final size:29
Alignment explanation
Indices: 128804--128916 Score: 117
Period size: 29 Copynumber: 3.8 Consensus size: 29
128794 ATCTTTATTA
*
128804 AATTATTATATTAATATTAAATATATAAAT
1 AATTATTATA-TATTATTAAATATATAAAT
128834 AA-TATTAT-TCATTATTAAATATATAAAT
1 AATTATTATAT-ATTATTAAATATATAAAT
*
128862 AATTTATTATATATTATTAAA-ATAAAAAT
1 AA-TTATTATATATTATTAAATATATAAAT
*
128891 ATAATATCT-TATATTATTATAATATA
1 A-ATTAT-TATATATTATTA-AATATA
128917 ATTGATTATT
Statistics
Matches: 72, Mismatches: 3, Indels: 15
0.80 0.03 0.17
Matches are distributed among these distances:
27 1 0.01
28 19 0.26
29 27 0.38
30 21 0.29
31 4 0.06
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
AATTATTATATATTATTAAATATATAAAT
Found at i:128870 original size:30 final size:28
Alignment explanation
Indices: 128807--128916 Score: 109
Period size: 30 Copynumber: 3.8 Consensus size: 28
128797 TTTATTAAAT
*
128807 TATTATATTAATATTAAATATATAAATAA
1 TATTATA-TATTATTAAATATATAAATAA
128836 TATTAT-TCATTATTAAATATATAAATAA
1 TATTATAT-ATTATTAAATATATAAATAA
*
128864 TTTATTATATATTATTAAA-ATAAAAATATAA
1 --TATTATATATTATTAAATAT-ATAA-ATAA
128895 TATCT-TATATTATTATAATATA
1 TAT-TATATATTATTA-AATATA
128917 ATTGATTATT
Statistics
Matches: 70, Mismatches: 2, Indels: 17
0.79 0.02 0.19
Matches are distributed among these distances:
27 1 0.01
28 19 0.27
29 21 0.30
30 22 0.31
31 7 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TATTATATATTATTAAATATATAAATAA
Found at i:128956 original size:22 final size:23
Alignment explanation
Indices: 128928--128974 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
128918 TTGATTATTT
128928 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
128950 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
128973 TA
1 TA
128975 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:128979 original size:22 final size:22
Alignment explanation
Indices: 128936--128979 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
128926 TTTATTATAA
*
128936 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
128958 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
128980 ATTTTAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:129263 original size:42 final size:43
Alignment explanation
Indices: 129203--129286 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
129193 ACCAAATATT
129203 GGAAAACATTTTCCGG-AAAACGAATTACGTAAAACAAACACG
1 GGAAAACATTTTCCGGAAAAACGAATTACGTAAAACAAACACG
* *
129245 GGAAAACATTTTCTGGAAAAACGAATTACGTGAAACAAACAC
1 GGAAAACATTTTCCGGAAAAACGAATTACGTAAAACAAACAC
129287 AAGATTTCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 15 0.38
43 24 0.62
ACGTcount: A:0.48, C:0.18, G:0.17, T:0.18
Consensus pattern (43 bp):
GGAAAACATTTTCCGGAAAAACGAATTACGTAAAACAAACACG
Found at i:134020 original size:51 final size:51
Alignment explanation
Indices: 133957--134075 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
133947 ATTTCTGTTT
* *
133957 ATGT-GCTATTTGTGTAAAATTTGGGTGTTATATTGATAAATATTTGCAGA
1 ATGTGGCTATTTGTGTAAAATTTGGGTGTTAGATTGATAAATATTTACAGA
* *
134007 ATGTGGCTATTTGTGTAACATTTGGGTGTTAGATTGGTAAATATTTACAGA
1 ATGTGGCTATTTGTGTAAAATTTGGGTGTTAGATTGATAAATATTTACAGA
134058 ATGTGGCTAATTTG-GTAA
1 ATGTGGCT-ATTTGTGTAA
134076 TTAATTTATG
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 4 0.06
51 54 0.86
52 5 0.08
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.42
Consensus pattern (51 bp):
ATGTGGCTATTTGTGTAAAATTTGGGTGTTAGATTGATAAATATTTACAGA
Found at i:134088 original size:51 final size:50
Alignment explanation
Indices: 133957--134089 Score: 146
Period size: 51 Copynumber: 2.6 Consensus size: 50
133947 ATTTCTGTTT
* * *
133957 ATGT-GCTATTTGTGTAAAATTTGGGTGTTATATTGATAAATATTTGCAGA
1 ATGTGGCTATTTGTGTAAAATTT-GATGTTAGATTGATAAATATTTACAGA
* * *
134007 ATGTGGCTATTTGTGTAACATTTGGGTGTTAGATTGGTAAATATTTACAGA
1 ATGTGGCTATTTGTGTAAAATTT-GATGTTAGATTGATAAATATTTACAGA
134058 ATGTGGCTAATTTG-GTAATTAATTT-ATGTTAG
1 ATGTGGCT-ATTTGTGTAA--AATTTGATGTTAG
134090 GGTGATATTT
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
50 4 0.05
51 60 0.82
52 5 0.07
53 4 0.05
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.44
Consensus pattern (50 bp):
ATGTGGCTATTTGTGTAAAATTTGATGTTAGATTGATAAATATTTACAGA
Found at i:136462 original size:24 final size:24
Alignment explanation
Indices: 136444--136562 Score: 177
Period size: 24 Copynumber: 5.0 Consensus size: 24
136434 TTTGATTTGA
136444 ATTCTGATATGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
*
136468 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATATGATACT-TGACATGG
*
136492 ATTCTGATATGATACTTGACTTGG
1 ATTCTGATATGATACTTGACATGG
* *
136516 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
136540 ATTTTGATATGATACTTGACATG
1 ATTCTGATATGATACTTGACATG
136563 TGACATGAAT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 83 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.39
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:136497 original size:12 final size:12
Alignment explanation
Indices: 136460--136522 Score: 51
Period size: 12 Copynumber: 5.2 Consensus size: 12
136450 ATATGATACT
136460 TGACATGGATTC
1 TGACATGGATTC
136472 TGATC-T-GATATC
1 TGA-CATGGAT-TC
136484 TGACATGGATTC
1 TGACATGGATTC
* *
136496 TGATAT-GATAC
1 TGACATGGATTC
*
136507 TTGACTTGGATTC
1 -TGACATGGATTC
136520 TGA
1 TGA
136523 TCTGATACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
11 8 0.20
12 24 0.60
13 8 0.20
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.38
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:136500 original size:48 final size:48
Alignment explanation
Indices: 136444--136562 Score: 195
Period size: 48 Copynumber: 2.5 Consensus size: 48
136434 TTTGATTTGA
136444 ATTCTGATATGATACTTGACATGGATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATATGATACTTGACATGGATTCTGATCTGATACT-TGACATGG
* *
136492 ATTCTGATATGATACTTGACTTGGATTCTGATCTGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGGATTCTGATCTGATACTTGACATGG
*
136540 ATTTTGATATGATACTTGACATG
1 ATTCTGATATGATACTTGACATG
136563 TGACATGAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
48 65 0.98
49 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.39
Consensus pattern (48 bp):
ATTCTGATATGATACTTGACATGGATTCTGATCTGATACTTGACATGG
Found at i:137490 original size:22 final size:22
Alignment explanation
Indices: 137465--137507 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
137455 AATATGATCA
137465 AATTTAA-ATAAAAATAAAAATT
1 AATTTAACA-AAAAATAAAAATT
*
137487 AATTTAACAAAAAATATAAAT
1 AATTTAACAAAAAATAAAAAT
137508 ATAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
AATTTAACAAAAAATAAAAATT
Found at i:144734 original size:64 final size:63
Alignment explanation
Indices: 144649--144789 Score: 158
Period size: 64 Copynumber: 2.2 Consensus size: 63
144639 TTGTTTAAGG
* * *
144649 TGCATCGATGCACATGCAGTGCATCAATGCAT-TAATTTAAAAAGAAAACATCAAATAGGATTTA
1 TGCATCGATGCATAAGCAGTGCATCAATGCATCCAA-TTAAAAA-AAAACATCAAATAGGATTTA
* * * * * *
144713 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGCAGTGCATCAATGCAT-CCAATTAAAAAAAAACATCAAATAGGATTTA
*
144777 TGCTTCGATGCAT
1 TGCATCGATGCAT
144790 GGTGTAGTGC
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
64 58 0.89
65 6 0.09
66 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGCAGTGCATCAATGCATCCAATTAAAAAAAAACATCAAATAGGATTTA
Found at i:145449 original size:103 final size:103
Alignment explanation
Indices: 145265--145482 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
145255 GTAGAGGGTC
*
145265 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
145330 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
145368 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
145433 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
145471 TATGTGGTCCTT
1 TATGTGGTCCTT
145483 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:145536 original size:23 final size:23
Alignment explanation
Indices: 145499--145561 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
145489 ATTATTATAT
*
145499 GGCACTACGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
* *
145522 GGTACTCCGGTGCAATTCTACGT
1 GGCACTCCGGTGCAATTCTACGC
**
145545 GGCACTTAGGTGCAATT
1 GGCACTCCGGTGCAATT
145562 ATATGAGCTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:151715 original size:64 final size:63
Alignment explanation
Indices: 151630--151790 Score: 173
Period size: 64 Copynumber: 2.5 Consensus size: 63
151620 TTGTTTAAGG
* * * *
151630 TGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGGATTTA
* * * *
151694 TGCATCGATGCATAAGGAGTGCATCGTTGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTTA
* *
151758 TGCTTCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
151791 ACCTCCATTA
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
63 1 0.01
64 60 0.73
65 20 0.24
66 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTTA
Found at i:152466 original size:103 final size:103
Alignment explanation
Indices: 152241--152458 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
152231 GTAGAGGGTC
*
152241 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
152306 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
152344 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
152409 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
152447 TATGTGGTCCTT
1 TATGTGGTCCTT
152459 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:152534 original size:23 final size:23
Alignment explanation
Indices: 152475--152537 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
152465 ATTATTATAT
152475 GGCACTACA-GTGCAATTCTACGC
1 GGCACT-CAGGTGCAATTCTACGC
* * *
152498 GGCACTCCGATGCAATTCTACGT
1 GGCACTCAGGTGCAATTCTACGC
*
152521 GGCACTTAGGTGCAATT
1 GGCACTCAGGTGCAATT
152538 ATATGAGCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (23 bp):
GGCACTCAGGTGCAATTCTACGC
Found at i:158626 original size:24 final size:25
Alignment explanation
Indices: 158581--158627 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
158571 TTTCTATAAA
**
158581 TATAATATTTGATGTATTATTAGCC
1 TATAATATTTGATGTACCATTAGCC
*
158606 TATAAT-TTTTATGTACCATTAG
1 TATAATATTTGATGTACCATTAG
158628 TAAGTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.49
Consensus pattern (25 bp):
TATAATATTTGATGTACCATTAGCC
Found at i:158957 original size:29 final size:30
Alignment explanation
Indices: 158907--158964 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
158897 ATAAATTATT
* *
158907 AAAAAGATTTTATAATTGATAATTTGATAA
1 AAAAAGATTTAATAATTCATAATTTGATAA
*
158937 AAAAATATTTAATAA-TCATAATTTGATA
1 AAAAAGATTTAATAATTCATAATTTGATA
158965 TATAAATTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.40
Consensus pattern (30 bp):
AAAAAGATTTAATAATTCATAATTTGATAA
Done.