Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002120.1 Hibiscus syriacus cultivar Beakdansim tig00004345_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: 92603
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
Found at i:4016 original size:192 final size:190
Alignment explanation
Indices: 3653--4034 Score: 710
Period size: 192 Copynumber: 2.0 Consensus size: 190
3643 TATGACTCGG
3653 GGTAAATACCGGGAGATTGTTAGATCAAAGATGTACTTAAAATATTCGTAAAATGAAGCAGCTTA
1 GGTAAATACCGGGAGATTGTTAGATCAAAGATGTACTTAAAATATTCGTAAAATGAAGCAGCTTA
3718 TGTTGATTATTGTTCTCTGGTAAAAGATGTCCGATCCATTGACGGCTCTTGTGCATGCTGTTCAA
66 TGTTGATTATTGTTCTCTGGTAAAAGATGTCCGATCCATTGACGGCTCTTGTGCATGCTGTTCAA
*
3783 GTAATGAACTTACTCCAGACCTTGATCGTGAAAACACTGCGGGAACGTGAAGAGACTGCA
131 GTAATGAACTTACTCCAGACCTTGATCGTGAAAACACTGCGGAAACGTGAAGAGACTGCA
3843 GGTAAATATCCGGGAGATTGTTAGATCAAAGATGTACTTAAAATATTCGTAAAATGAAGCAGCTT
1 GGTAAATA-CCGGGAGATTGTTAGATCAAAGATGTACTTAAAATATTCGTAAAATGAAGCAGCTT
* *
3908 ATGTTGATTGTTGTTCTCTGGTAAACATATGTCCGATCCATTGACGGCTCTTGTGCATGCTGTTC
65 ATGTTGATTATTGTTCTCTGGTAAA-AGATGTCCGATCCATTGACGGCTCTTGTGCATGCTGTTC
*
3973 AAGTTATGAACTTACTCCAGACCTTGATCGTGAAAACACTGCGGAAACGTGAAGAGACTGCA
129 AAGTAATGAACTTACTCCAGACCTTGATCGTGAAAACACTGCGGAAACGTGAAGAGACTGCA
4035 AGTTCATCGT
Statistics
Matches: 186, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
190 8 0.04
191 80 0.43
192 98 0.53
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (190 bp):
GGTAAATACCGGGAGATTGTTAGATCAAAGATGTACTTAAAATATTCGTAAAATGAAGCAGCTTA
TGTTGATTATTGTTCTCTGGTAAAAGATGTCCGATCCATTGACGGCTCTTGTGCATGCTGTTCAA
GTAATGAACTTACTCCAGACCTTGATCGTGAAAACACTGCGGAAACGTGAAGAGACTGCA
Found at i:5455 original size:20 final size:18
Alignment explanation
Indices: 5427--5465 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
5417 GTATCTGGGG
*
5427 TTTTGTTTGATTCTCTTGGA
1 TTTTATTTG-TTCT-TTGGA
5447 TTTTATTTGTTCTTTGGA
1 TTTTATTTGTTCTTTGGA
5465 T
1 T
5466 ATAATATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.10, C:0.08, G:0.18, T:0.64
Consensus pattern (18 bp):
TTTTATTTGTTCTTTGGA
Found at i:7048 original size:29 final size:30
Alignment explanation
Indices: 6991--7048 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
6981 CCTACCCCTA
*
6991 AATTTTTAAAAAAATAATATTTCATCTTTC
1 AATTTTTAAAAAAATAATATTTCAACTTTC
* *
7021 AATTTTTCAAAAAA-AATATTTGAACTTT
1 AATTTTTAAAAAAATAATATTTCAACTTT
7049 TTCAAAAATT
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:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (30 bp):
AATTTTTAAAAAAATAATATTTCAACTTTC
Found at i:11857 original size:2 final size:2
Alignment explanation
Indices: 11850--11880 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11840 AATTTGAGAA
11850 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11881 GATTAGTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13335 original size:25 final size:26
Alignment explanation
Indices: 13274--13338 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 26
13264 CACATAAAGT
13274 AAATAA-AAATTATAATATTAAATAA
1 AAATAATAAATTATAATATTAAATAA
** *
13299 AAATTGTAAATT-TAATATTGAATAA
1 AAATAATAAATTATAATATTAAATAA
*
13324 AAATAATTAATTATA
1 AAATAATAAATTATA
13339 TTTAATTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (26 bp):
AAATAATAAATTATAATATTAAATAA
Found at i:18636 original size:3 final size:3
Alignment explanation
Indices: 18628--18695 Score: 127
Period size: 3 Copynumber: 22.3 Consensus size: 3
18618 TATTTATTTG
18628 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
18674 TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
18696 GGTGATTACA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 61 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:19096 original size:40 final size:40
Alignment explanation
Indices: 19041--19120 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
19031 TGAGTTTCTC
19041 ACAGTCATGCCTCGGTAAAGATTTTACCAATTTATTCAAT
1 ACAGTCATGCCTCGGTAAAGATTTTACCAATTTATTCAAT
*
19081 ACAGTCATGCCTCGGTAAGGATTTTACCAATTTATTCAAT
1 ACAGTCATGCCTCGGTAAAGATTTTACCAATTTATTCAAT
19121 TCTAAAAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (40 bp):
ACAGTCATGCCTCGGTAAAGATTTTACCAATTTATTCAAT
Found at i:22187 original size:66 final size:66
Alignment explanation
Indices: 22105--22237 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
22095 TATAGACTGA
22105 TCTTATATGACAAACTAAATATATATTTAGTGTTACTAATATTCTTTGAAATAATCTCATATTAC
1 TCTTATATGACAAACTAAATATATATTTAGTGTTACTAATATTCTTTGAAATAATCTCATATTAC
22170 C
66 C
22171 TCTTATATGACAAACTAAATATATATTTAGTGTTACTAATATTCTTTGAAATAATCTCATATTAC
1 TCTTATATGACAAACTAAATATATATTTAGTGTTACTAATATTCTTTGAAATAATCTCATATTAC
22236 C
66 C
22237 T
1 T
22238 GGATCTCGCC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.43
Consensus pattern (66 bp):
TCTTATATGACAAACTAAATATATATTTAGTGTTACTAATATTCTTTGAAATAATCTCATATTAC
C
Found at i:29637 original size:8 final size:8
Alignment explanation
Indices: 29624--29658 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
29614 ATATTGTTAG
29624 ATTTTAAT
1 ATTTTAAT
*
29632 ATTTTAAA
1 ATTTTAAT
*
29640 ATCTTAAT
1 ATTTTAAT
29648 ATTTTAAT
1 ATTTTAAT
29656 ATT
1 ATT
29659 ACTATTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (8 bp):
ATTTTAAT
Found at i:30082 original size:2 final size:2
Alignment explanation
Indices: 30075--30104 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
30065 TGCCAGCCAC
*
30075 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30105 CATTCTAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35999 original size:30 final size:31
Alignment explanation
Indices: 35948--36029 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 31
35938 TTTTTTTAAA
* *
35948 ATAATTATTATATTTTATATTAATATAAT-TAT
1 ATAAATATTAT-TTTT-TATTAAAATAATATAT
*
35980 ATAAATATTATTTTTTATTAAAATAATATTT
1 ATAAATATTATTTTTTATTAAAATAATATAT
36011 ATATAATACTTATTTTTTA
1 ATA-AATA-TTATTTTTTA
36030 AAATTTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
30 11 0.25
31 9 0.20
32 14 0.32
33 10 0.23
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (31 bp):
ATAAATATTATTTTTTATTAAAATAATATAT
Found at i:36008 original size:27 final size:26
Alignment explanation
Indices: 35933--36008 Score: 61
Period size: 27 Copynumber: 2.9 Consensus size: 26
35923 ATTTTTAAGT
*
35933 TATTA-TTTTT-TTAAAATAAT-TAT
1 TATTATTTTTTATTAAAATAATATAA
* *
35956 TA-TATTTTATATTAATATAATTATATAAA
1 TATTATTTTTTATT-A-A-AATAATAT-AA
35985 TATTATTTTTTATTAAAATAATAT
1 TATTATTTTTTATTAAAATAATAT
36009 TTATATAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
22 2 0.05
23 6 0.15
24 2 0.05
25 1 0.03
26 1 0.03
27 12 0.30
28 2 0.05
29 4 0.10
30 10 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TATTATTTTTTATTAAAATAATATAA
Found at i:36014 original size:27 final size:27
Alignment explanation
Indices: 35933--36014 Score: 66
Period size: 30 Copynumber: 3.1 Consensus size: 27
35923 ATTTTTAAGT
*
35933 TATTA-TTTTT-TTAAAATAAT-TAT-
1 TATTATTTTTTATTAAAATAATATTTA
* * *
35956 TA-TATTTTATATTAATATAATTATATAAA
1 TATTATTTTTTATTAAAATAA-TAT-T-TA
35985 TATTATTTTTTATTAAAATAATATTTA
1 TATTATTTTTTATTAAAATAATATTTA
36012 TAT
1 TAT
36015 AATACTTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
22 2 0.05
23 6 0.14
24 8 0.18
25 1 0.02
26 1 0.02
27 4 0.09
28 1 0.02
29 5 0.11
30 16 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TATTATTTTTTATTAAAATAATATTTA
Found at i:37564 original size:89 final size:89
Alignment explanation
Indices: 37445--37625 Score: 353
Period size: 89 Copynumber: 2.0 Consensus size: 89
37435 TGGATAGTAA
37445 GGAACAAAGTGAAAGCAAATACCTCCTTGTTTTCTTTTTCTCCTTGTAACGTGAGATTGCAGAGT
1 GGAACAAAGTGAAAGCAAATACCTCCTTGTTTTCTTTTTCTCCTTGTAACGTGAGATTGCAGAGT
37510 CCCTCTCCTGGCTATTTAACTCAT
66 CCCTCTCCTGGCTATTTAACTCAT
*
37534 GGAACAAAGTGAAAGCAAATACCTCGTTGTTTTCTTTTTCTCCTTGTAACGTGAGATTGCAGAGT
1 GGAACAAAGTGAAAGCAAATACCTCCTTGTTTTCTTTTTCTCCTTGTAACGTGAGATTGCAGAGT
37599 CCCTCTCCTGGCTATTTAACTCAT
66 CCCTCTCCTGGCTATTTAACTCAT
37623 GGA
1 GGA
37626 CATCAACCAT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (89 bp):
GGAACAAAGTGAAAGCAAATACCTCCTTGTTTTCTTTTTCTCCTTGTAACGTGAGATTGCAGAGT
CCCTCTCCTGGCTATTTAACTCAT
Found at i:44036 original size:26 final size:25
Alignment explanation
Indices: 44007--44084 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
43997 AATTTTTGAC
44007 ATTCTATCTCTTTGAGACCTTGAAAT
1 ATTCT-TCTCTTTGAGACCTTGAAAT
* *
44033 A---TTCT-TTT-CGACCTTGAAAC
1 ATTCTTCTCTTTGAGACCTTGAAAT
*
44053 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTCTCTTTGAGACCTTGAAAT
44079 ATTCTT
1 ATTCTT
44085 TCTACCTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 11 0.28
21 3 0.08
22 3 0.08
23 1 0.03
24 3 0.08
25 5 0.12
26 14 0.35
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTCTTCTCTTTGAGACCTTGAAAT
Found at i:44045 original size:20 final size:20
Alignment explanation
Indices: 44022--44096 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
44012 ATCTCTTTGA
44022 GACCTTGAAATATTCTTTTC
1 GACCTTGAAATATTCTTTTC
* *
44042 GACCTTGAAACATTCCCTCTCTTTGA
1 GACCTTGAAATA-T---TCT-TTT-C
44068 GACCTTGAAATATTC-TTTC
1 GACCTTGAAATATTCTTTTC
*
44087 TACCTTGAAA
1 GACCTTGAAA
44097 CACTGCATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 9 0.20
20 14 0.32
21 1 0.02
22 2 0.05
24 3 0.07
25 4 0.09
26 11 0.25
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.39
Consensus pattern (20 bp):
GACCTTGAAATATTCTTTTC
Found at i:44703 original size:30 final size:31
Alignment explanation
Indices: 44667--44727 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
44657 GACGCAGAGT
**
44667 GCAAAGATCAAACCAAAG-AAAAAACAAAGA
1 GCAAAGAGAAAACCAAAGCAAAAAACAAAGA
* *
44697 GCAAAGAGAAAATCAAAGCAAAAATCAAAGA
1 GCAAAGAGAAAACCAAAGCAAAAAACAAAGA
44728 AAAAGCAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.66, C:0.15, G:0.15, T:0.05
Consensus pattern (31 bp):
GCAAAGAGAAAACCAAAGCAAAAAACAAAGA
Found at i:44720 original size:12 final size:11
Alignment explanation
Indices: 44698--44739 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
44688 AAACAAAGAG
44698 CAAAGAGAAAAT
1 CAAAGA-AAAAT
44710 CAAAGCAAAAAT
1 CAAAG-AAAAAT
*
44722 CAAAGAAAAAG
1 CAAAGAAAAAT
44733 CAAAGAA
1 CAAAGAA
44740 CAAAAAGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 12 0.43
12 15 0.54
13 1 0.04
ACGTcount: A:0.69, C:0.12, G:0.14, T:0.05
Consensus pattern (11 bp):
CAAAGAAAAAT
Found at i:45926 original size:4 final size:4
Alignment explanation
Indices: 45917--45966 Score: 68
Period size: 4 Copynumber: 13.0 Consensus size: 4
45907 AAAAGTATAC
* *
45917 ACAT ACAT ACAA ACTT ACAT ACAT ACAT ACAT ACAT AC-- ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
45963 ACAT
1 ACAT
45967 GATACATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
4 38 0.95
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:46562 original size:105 final size:102
Alignment explanation
Indices: 46435--46673 Score: 272
Period size: 105 Copynumber: 2.3 Consensus size: 102
46425 TGAGAATTTT
* * *
46435 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATAC-AAATTTTGAATCTGATTCAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGAT-CTAAATTTCGAATCTGATTCAC
*
46499 -TAAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
65 AT-AAAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
46540 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCTAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATCTAAATTTCGAATCTGATTCACA
* * *
46605 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
46642 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
46674 TCTAAAAACA
Statistics
Matches: 117, Mismatches: 12, Indels: 13
0.82 0.08 0.09
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 5 0.04
105 76 0.65
106 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATCTAAATTTCGAATCTGATTCACA
TAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:46647 original size:36 final size:36
Alignment explanation
Indices: 46619--46738 Score: 120
Period size: 36 Copynumber: 3.4 Consensus size: 36
46609 ACAAAGTTGA
**
46619 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
46655 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * * *
46691 TCTCATTTGAGACTATATCT-T-AAAGCAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
*
46725 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
46739 TCATTTTCTC
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
34 23 0.32
35 8 0.11
36 40 0.56
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:46725 original size:34 final size:36
Alignment explanation
Indices: 46637--46738 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 36
46627 GAGATCGTTT
* *
46637 TCTC-AAAAACAAACTTTGTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
** *
46672 TCTCTAAAAACAAATTTTGTCTCATTTGAGACTATA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
*
46708 TCT-T-AAAGCAAATTTTGTCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTTGTCTCGCTTGAGACA
46739 TCATTTTCTC
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 23 0.40
35 5 0.09
36 29 0.51
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTTGTCTCGCTTGAGACAATA
Found at i:47034 original size:29 final size:28
Alignment explanation
Indices: 46987--47333 Score: 160
Period size: 29 Copynumber: 11.9 Consensus size: 28
46977 ACAGTTTCTC
46987 TTGAAAAAAATCTTTGAGTTTGTTCATT
1 TTGAAAAAAATCTTTGAGTTTGTTCATT
* *
47015 TTGAATAAAAATCTTGGAGTTTGTTCCTT
1 TTGAA-AAAAATCTTTGAGTTTGTTCATT
*
47044 TTGAATAAATATCTTTGAG-TTGTTTC-TT
1 TTGAA-AAAAATCTTTGAGTTTG-TTCATT
* * *
47072 TTGAAAAAAATCTTTGAGTCTATTTATT
1 TTGAAAAAAATCTTTGAGTTTGTTCATT
* ** **
47100 TTGAAACAAAGT-TTTGTCTCTCTTGAGACAGTTTCT
1 TTGAAA-AAAATCTTTG--AGT-TTG-TTCA---T-T
*
47136 CTTG-AAAAAATCTTTGAGTTTGTTCCTT
1 -TTGAAAAAAATCTTTGAGTTTGTTCATT
* * *
47164 TGGAATAAAAATCTTGGAGTTTGTTCCTT
1 TTGAA-AAAAATCTTTGAGTTTGTTCATT
47193 TT-AAATAAATATCTTTGAG-TTGTTTC-TT
1 TTGAAA-AAA-ATCTTTGAGTTTG-TTCATT
* * *
47221 TTG--AAAAATCTTTGAGTCTATTTATT
1 TTGAAAAAAATCTTTGAGTTTGTTCATT
** **
47247 TTGAAAACAAAGT-TTTGTCTCTCTTGAGACAATT
1 TTGAAAA-AAA-TCTTTG--AGT-TTG-TTC-ATT
*
47281 TCGTGAAAAAAATCTTTGAGATTGTTTC-TT
1 T--TGAAAAAAATCTTTGAGTTTG-TTCATT
47311 TTG-AAAAAATCTTTGAGTTTGTT
1 TTGAAAAAAATCTTTGAGTTTGTT
47334 TCTTTGGAAA
Statistics
Matches: 241, Mismatches: 43, Indels: 72
0.68 0.12 0.20
Matches are distributed among these distances:
25 11 0.05
26 11 0.05
27 35 0.15
28 46 0.19
29 87 0.36
30 5 0.02
31 2 0.01
32 7 0.03
33 3 0.01
34 6 0.02
35 12 0.05
36 13 0.05
37 3 0.01
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (28 bp):
TTGAAAAAAATCTTTGAGTTTGTTCATT
Found at i:47179 original size:149 final size:150
Alignment explanation
Indices: 46961--47458 Score: 632
Period size: 149 Copynumber: 3.3 Consensus size: 150
46951 AAACGATTTT
*
46961 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAAATCTTTGAGTTTGTTCATTTTGAATAAAAA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAA
47026 TCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAAATCTTTGAGT
66 TCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAAATCTTTGAGT
47091 CTATTTATTTTGAAACAAAG
131 CTATTTATTTTGAAACAAAG
*
47111 TTTTGTCTCTCTTGAGACAGTTTCTCTTG-AAAAAATCTTTGAGTTTGTTCCTTTGGAATAAAAA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAA
*
47175 TCTTGGAGTTTGTTCCTTTTAAATAAATATCTTTGAGTTGTTTCTTTTG--AAAAATCTTTGAGT
66 TCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAAATCTTTGAGT
47238 CTATTTATTTTGAAAACAAAG
131 CTATTTATTTTG-AAACAAAG
* * * *
47259 TTTTGTCTCTCTTGAGACA-ATT-TCGTGAAAAAAATCTTTGAGATTGTTTCTTTTG-A-AAAAA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAA
* * * * * * *
47320 TCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAGTTTCTTTTGAAACAAA
66 TCTTGGAGTTTGTTCCTTTTG-AA-TAAA-----TATCT-TTGAG-TTGTTTCTTTTG-AA-AAA
* * * * *
47385 AATCTTTGAGTTTGTTTCTTTGGAAACAAAA
120 AATCTTTGAGTCTATTTATTTTGAAACAAAG
* * * *
47416 TTTTGTCTCTCTTAAGATAATTTCTTTTGAAAAAAATCTTTGA
1 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAAATCTTTGA
47459 ATATGTTTCT
Statistics
Matches: 305, Mismatches: 26, Indels: 25
0.86 0.07 0.07
Matches are distributed among these distances:
145 22 0.07
146 7 0.02
147 55 0.18
148 27 0.09
149 81 0.27
150 29 0.10
152 4 0.01
153 4 0.01
154 11 0.04
157 24 0.08
158 24 0.08
159 17 0.06
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (150 bp):
TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAA
TCTTGGAGTTTGTTCCTTTTGAATAAATATCTTTGAGTTGTTTCTTTTGAAAAAAATCTTTGAGT
CTATTTATTTTGAAACAAAG
Found at i:47308 original size:26 final size:26
Alignment explanation
Indices: 47279--47336 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
47269 CTTGAGACAA
47279 TTTC-GTGAAAAAAATCTTTGAGATTG
1 TTTCTGTG-AAAAAATCTTTGAGATTG
* *
47305 TTTCTTTTGAAAAAATCTTTGAGTTTG
1 TTTC-TGTGAAAAAATCTTTGAGATTG
47332 TTTCT
1 TTTCT
47337 TTGGAAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.18
27 21 0.75
28 2 0.07
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.48
Consensus pattern (26 bp):
TTTCTGTGAAAAAATCTTTGAGATTG
Found at i:47339 original size:26 final size:27
Alignment explanation
Indices: 47287--47343 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
47277 AATTTCGTGA
47287 AAAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAAATCTTTGAGATTGTTTCTTTTG
* *
47314 AAAAAATCTTTGAGTTTGTTTCTTTGG
1 AAAAAATCTTTGAGATTGTTTCTTTTG
47341 AAA
1 AAA
47344 CAAAATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.46
Consensus pattern (27 bp):
AAAAAATCTTTGAGATTGTTTCTTTTG
Found at i:47381 original size:37 final size:37
Alignment explanation
Indices: 47331--47457 Score: 126
Period size: 37 Copynumber: 3.6 Consensus size: 37
47321 CTTTGAGTTT
47331 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
1 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
* * * * *
47368 GTTTCTTTTGAAACAAAA------ATCT-TTGAGTTT
1 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
47398 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
1 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
* *
47435 ATTTCTTTTGAAA-AAAATCTTTG
1 GTTTCTTTGGAAACAAAAT-TTTG
47458 AATATGTTTC
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
30 22 0.31
31 3 0.04
36 8 0.11
37 37 0.53
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.45
Consensus pattern (37 bp):
GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
Found at i:47394 original size:67 final size:65
Alignment explanation
Indices: 47299--47520 Score: 281
Period size: 67 Copynumber: 3.4 Consensus size: 65
47289 AAAATCTTTG
*
47299 AGATTGTTTCTTTTG-AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTA
1 AGATAGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTA
47363 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCT
1 AGATAGTTTCTTTTG-AA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCT
47428 TA
64 TA
* * * * *
47430 AGATAATTTCTTTTGAAAAAAATCTTTGAATATGTTTCTCTT--AAA-ATGAATTTTGTATCTCT
1 AGATAGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCT-TTGGAAACA-AAATTTTGTCTCTCT
*
47492 TG
64 TA
* * **
47494 AGACAGTTTCTCTTGAAGTAAATCTTT
1 AGATAGTTTCTTTTGAAAAAAATCTTT
47521 AAATATGTTC
Statistics
Matches: 141, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
63 1 0.01
64 53 0.38
65 20 0.14
66 5 0.04
67 62 0.44
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (65 bp):
AGATAGTTTCTTTTGAAAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTA
Found at i:47708 original size:120 final size:119
Alignment explanation
Indices: 47568--47792 Score: 269
Period size: 120 Copynumber: 1.9 Consensus size: 119
47558 CTTAACAAAA
* * * *
47568 TCATCTTTGAGTCTATTTCTTTAAAAAC-AAATGTTGTCTCTCTT-GAGACAGTTTCTAATGAAA
1 TCATCTTTGAGTATATTTCTTTAAAAACAAAAT-TT-TATCTCTTAAAGACAATTTCTAATGAAA
47631 AACTAA-CTTTTGAGATTGTTTCATTTGAAAC-AAATTTGGTCTCACTTAAGATGTGAT
64 AA--AATC-TTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTGAT
* ** **
47688 TCATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAA
1 TCATCTTTGAGTATATTTCTTTAAAAACAAAATTTTATCTCTTAAAGACAATTTCTAATGAAAAA
* * *
47753 AATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTC
66 AATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTC
47793 TCGAGACAAC
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
118 23 0.26
119 19 0.21
120 43 0.48
121 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (119 bp):
TCATCTTTGAGTATATTTCTTTAAAAACAAAATTTTATCTCTTAAAGACAATTTCTAATGAAAAA
AATCTTTGAGATTGTTTCATTTGAAACAAAATTTGGTCTCACTTAAGATGTGAT
Found at i:47769 original size:64 final size:63
Alignment explanation
Indices: 47690--47814 Score: 187
Period size: 64 Copynumber: 2.0 Consensus size: 63
47680 GATGTGATTC
* *
47690 ATCTTTGAGTATGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAAA
1 ATCTTTGAGTATGTTTCCTTTGAAACAAAATTTTATCTC-TAAAGACAACTTCTTTTGAAAAAA
* * **
47754 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTATGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAA
47815 TACCAACCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
63 19 0.35
64 36 0.65
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (63 bp):
ATCTTTGAGTATGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAAAA
Found at i:47994 original size:15 final size:15
Alignment explanation
Indices: 47971--48029 Score: 100
Period size: 15 Copynumber: 3.9 Consensus size: 15
47961 TTTTGAGTCG
*
47971 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
47986 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
48001 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
48016 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
48030 AGATCATCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.31, C:0.20, G:0.05, T:0.44
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:48436 original size:28 final size:28
Alignment explanation
Indices: 48365--48446 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
48355 TAAAAATATC
* * *
48365 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
48393 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
48421 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
48447 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:48710 original size:130 final size:133
Alignment explanation
Indices: 48503--48810 Score: 453
Period size: 135 Copynumber: 2.3 Consensus size: 133
48493 GTCATCCCCA
* * **
48503 GACCAGATCTCTTCATCACGTAGGAGCTGTGTCAACTGTAGATAACCAGCCGTCCTCATCACGTA
1 GACCAGATCTCCTCATCACGTAGGAGC-GTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTA
*
48568 GGAACCGTGTTATCA-CC-T-T-AAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCAAC
65 GGAACCGAGTTATCACCCTTCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCAAC
*
48629 CCTT
130 CCTC
48633 GACCAGATCTCCTCATCACGTAGGAGTCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTA
1 GACCAGATCTCCTCATCACGTAGGAG-CGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTA
*
48698 GGAACCGAGTTATCACCCTTCCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCAT
65 GGAACCGAGTTATCACCCTT-CTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCAA
48763 CCCTC
129 CCCTC
* * * *
48768 GACCATATTTCCTCATCACGTAGGAACCGTGTCACCCTTAGAT
1 GACCAGATCTCCTCATCACGTAGG-AGCGTGTCACCCCTAGAT
48811 GACCCGAACT
Statistics
Matches: 160, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
130 73 0.46
131 3 0.02
132 1 0.01
134 1 0.01
135 81 0.51
136 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (133 bp):
GACCAGATCTCCTCATCACGTAGGAGCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAG
GAACCGAGTTATCACCCTTCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCAACC
CTC
Found at i:48788 original size:135 final size:129
Alignment explanation
Indices: 48491--48810 Score: 453
Period size: 130 Copynumber: 2.4 Consensus size: 129
48481 TGTAGGAACC
* * **
48491 GTGTCATCCC-CAGACCAGATCTCTTCATCACGTAGGAGCTGTGTCAACTGTAGATAACCAGCCG
1 GTGTCATCCCTC-GACCAGATCTCCTCATCACGTAGGAGC-GTGTCACCCCTAGATAACCAGCCG
*
48555 TCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCTTCATCACGTATGAGC
64 TCCTCATCACGTAGGAACCGAGTTATCACCTTAAGATGGCCAAGAACTCTTCATCACGTATGAGC
48620 A
129 A
* *
48621 GTGTCAACCCTTGACCAGATCTCCTCATCACGTAGGAGTCGTGTCACCCCTAGATAACCAGCCGT
1 GTGTCATCCCTCGACCAGATCTCCTCATCACGTAGGAG-CGTGTCACCCCTAGATAACCAGCCGT
48686 CCTCATCACGTAGGAACCGAGTTATCACCCTTCCTAAAGATGGCCAAGAACTCTTCATCACGTAT
65 CCTCATCACGTAGGAACCGAGTTATCA-CC-T--T-AAGATGGCCAAGAACTCTTCATCACGTAT
48751 GAGCA
125 GAGCA
* * * *
48756 GTGTCATCCCTCGACCATATTTCCTCATCACGTAGGAACCGTGTCACCCTTAGAT
1 GTGTCATCCCTCGACCAGATCTCCTCATCACGTAGG-AGCGTGTCACCCCTAGAT
48811 GACCCGAACT
Statistics
Matches: 169, Mismatches: 13, Indels: 11
0.88 0.07 0.06
Matches are distributed among these distances:
130 82 0.49
131 3 0.02
132 1 0.01
134 1 0.01
135 81 0.48
136 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (129 bp):
GTGTCATCCCTCGACCAGATCTCCTCATCACGTAGGAGCGTGTCACCCCTAGATAACCAGCCGTC
CTCATCACGTAGGAACCGAGTTATCACCTTAAGATGGCCAAGAACTCTTCATCACGTATGAGCA
Found at i:58085 original size:15 final size:15
Alignment explanation
Indices: 58065--58107 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
58055 TTTCGCACCT
58065 CTGAATGATTCAGTG
1 CTGAATGATTCAGTG
58080 CTGAATGATTCAGTG
1 CTGAATGATTCAGTG
*
58095 CTGACTGATTCAG
1 CTGAATGATTCAG
58108 CAAAACAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (15 bp):
CTGAATGATTCAGTG
Found at i:58247 original size:15 final size:16
Alignment explanation
Indices: 58209--58248 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
58199 ACAGAGCCTC
*
58209 TGAATCATTCAGCATT
1 TGAATCATTCAGCACT
*
58225 TGAATCATTCAGCGCT
1 TGAATCATTCAGCACT
58241 T-AATCATT
1 TGAATCATT
58249 ATGAAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (16 bp):
TGAATCATTCAGCACT
Found at i:59735 original size:17 final size:17
Alignment explanation
Indices: 59715--59756 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
59705 AAAAGTTAAT
*
59715 ATATTATTAAATTATGG
1 ATATAATTAAATTATGG
59732 ATATAATTAAATTATGG
1 ATATAATTAAATTATGG
*
59749 GTATAATT
1 ATATAATT
59757 GTAATATCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (17 bp):
ATATAATTAAATTATGG
Found at i:71880 original size:25 final size:26
Alignment explanation
Indices: 71852--71901 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
71842 GACGATCTTA
*
71852 TTTAAAATGGT-TTTTCTATAAGATT
1 TTTAAAATGGTGTTTACTATAAGATT
* *
71877 TTTAAAGTTGTGTTTACTATAAGAT
1 TTTAAAATGGTGTTTACTATAAGAT
71902 AAAAGCTAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.32, C:0.04, G:0.14, T:0.50
Consensus pattern (26 bp):
TTTAAAATGGTGTTTACTATAAGATT
Found at i:80103 original size:260 final size:253
Alignment explanation
Indices: 79512--80131 Score: 778
Period size: 260 Copynumber: 2.4 Consensus size: 253
79502 CTTATTTATA
* * *
79512 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCAGGTCAGGTTTCTAATTCATATATTCGGTT
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTC--ATA--C-ATT
* ** * *
79577 CGGGTCGGGTGAAATTTTATTTTGGTCGCATCGGGTCGGTTTTTTAAGTGTGATATTCGGGTCGG
61 CGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGAGTCGGTTTTTTAAGTGTGATATTCGGGTCGA
* *
79642 GTCGAGTTCGGGTTTAGGGTGAAAAATACCCGATCCGAAAAATATATATATTTTACCTTATATAT
126 GTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAAAAATATATATTTTACCTTATATAT
* *
79707 TTAGGAATAATTACAATAATACCCCTCTATATATAATTTTTTTTTCAATTAAGTCACTGTTTT
191 TTAGGAATAATTACAATAATACCCCTCTATATATAATTATATTTTCAATTAAGTCACTGTTTT
* * * * *
79770 TATTGAATAAATATATTTTTATTATTATTTCGGCTCGTGTCGGATTTCTAATTCATATATTCAGG
1 TATTGAATAAAAATATTTTT-TTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATACATTC---
* *
79835 TTGGGTCGGGTGAAACTTTATTTTGGTCGGGTTGAGTCAGTTTTTTTAAGTGTGATATTCGGGTC
62 --GGGTCGGGTGAAACTTTATTTTGGTCGGGTCGAGTC-GGTTTTTTAAGTGTGATATTCGGGTC
* *
79900 GAGTCGGGTTTGGGTTTAGGGTGAAAAATACCCGACCCGACCCGTCTCAAAAAATATATAATTTT
124 GAGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCGA--------AAAAAATATAT-ATTTT
*
79965 ACCTTATATATTTAGGAATAATTATAATAATACCCCTCTATATAT-A-TATATTTT-AATTAAGT
180 ACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATAATTATATTTTCAATTAAGT
80027 CACTGTTTT
245 CACTGTTTT
* *
80036 TATTGAATAAAAATAATTTTTTATTATTTTGGGTCGGGTCGGGTTTCTAATTCATACATTCGGGT
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATACATTCGGGT
80101 CGGGTCGGTAAAACTTTATTTTGGTCGGGTC
66 CGGGT--G--AAACTTTATTTTGGTCGGGTC
80132 AGATCTCGGG
Statistics
Matches: 312, Mismatches: 30, Indels: 34
0.83 0.08 0.09
Matches are distributed among these distances:
254 3 0.01
257 3 0.01
258 19 0.06
259 59 0.19
260 70 0.22
262 1 0.00
264 20 0.06
265 36 0.12
266 35 0.11
267 6 0.02
268 11 0.04
269 49 0.16
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (253 bp):
TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTTTCTAATTCATACATTCGGGT
CGGGTGAAACTTTATTTTGGTCGGGTCGAGTCGGTTTTTTAAGTGTGATATTCGGGTCGAGTCGA
GTTCGGGTTTAGGGTGAAAAATACCCGACCCGAAAAAAATATATATTTTACCTTATATATTTAGG
AATAATTACAATAATACCCCTCTATATATAATTATATTTTCAATTAAGTCACTGTTTT
Found at i:83866 original size:15 final size:16
Alignment explanation
Indices: 83837--83870 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
83827 CTGTCACTAA
*
83837 TATTTTTATTCTTTTT
1 TATTTTTATTATTTTT
83853 TATTTTT-TTATTTTT
1 TATTTTTATTATTTTT
83868 TAT
1 TAT
83871 CTTGTATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TATTTTTATTATTTTT
Found at i:87156 original size:35 final size:35
Alignment explanation
Indices: 87106--87172 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
87096 AATCTGGGGC
*
87106 CAAATTATGTGTCGAAGAATAAGTTGCTTCAACAA
1 CAAATTATGTCTCGAAGAATAAGTTGCTTCAACAA
87141 CAAATTATGTCTCGAAGAATAAGTTGCTTCAA
1 CAAATTATGTCTCGAAGAATAAGTTGCTTCAA
87173 TAGTGTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (35 bp):
CAAATTATGTCTCGAAGAATAAGTTGCTTCAACAA
Done.