Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005275.1 Hibiscus syriacus cultivar Beakdansim tig00011926_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: 131275
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:642 original size:49 final size:50
Alignment explanation
Indices: 589--774 Score: 170
Period size: 49 Copynumber: 3.8 Consensus size: 50
579 AATATATAGT
* *
589 ACTTAACACATACTTACATCAATATAATGAA-AAATAAAAAAATTATAGC
1 ACTTAACACATACTTACATCGATATAATGAATAAATAAAAAAATTATAAC
* * ** *
638 ACTTAATA-ATACTT--ATCCGATGTGGTGAATAAA-ATAAAAATTATAAC
1 ACTTAACACATACTTACAT-CGATATAATGAATAAATAAAAAAATTATAAC
* *
685 ACTTAACACATA-TTACATCGGTATAAATGAATAAAT-AAAAAAGTATAAC
1 ACTTAACACATACTTACATCGATAT-AATGAATAAATAAAAAAATTATAAC
* * * *
734 AATTAACATATACTTACATTGATGTAAGTGAATAAAATAAA
1 ACTTAACACATACTTACATCGATATAA-TGAAT-AAATAAA
775 TATATATAAT
Statistics
Matches: 107, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
46 2 0.02
47 29 0.27
48 16 0.15
49 40 0.37
50 14 0.13
51 4 0.04
52 2 0.02
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.29
Consensus pattern (50 bp):
ACTTAACACATACTTACATCGATATAATGAATAAATAAAAAAATTATAAC
Found at i:1045 original size:48 final size:47
Alignment explanation
Indices: 956--1046 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 47
946 CAAATTTTAT
* *
956 TAAAAATATATAAATTATAAATAATAAGAAATTTTATTTTATTTGTG
1 TAAAAATATATAAATTAGAAATAATAAGAAATTTTAATTTATTTGTG
* *
1003 TAAAAATATAATAAATTAGAATATAATTATAAA-TTTAATTTATT
1 TAAAAATAT-ATAAATTAGAA-ATAATAAGAAATTTTAATTTATT
1047 AACGTTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
47 9 0.24
48 20 0.53
49 9 0.24
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (47 bp):
TAAAAATATATAAATTAGAAATAATAAGAAATTTTAATTTATTTGTG
Found at i:1574 original size:27 final size:27
Alignment explanation
Indices: 1537--1588 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1527 TCGTTTACAT
1537 TATGTCATTGAGCCAA-TTCTTAAAACA
1 TATGTCATTGAG-CAAGTTCTTAAAACA
* *
1564 TATGTCGTTGAGTAAGTTCTTAAAA
1 TATGTCATTGAGCAAGTTCTTAAAA
1589 GCAACGGCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (27 bp):
TATGTCATTGAGCAAGTTCTTAAAACA
Found at i:3627 original size:27 final size:27
Alignment explanation
Indices: 3597--3649 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
3587 ATTCTCCCTC
* * *
3597 CCCTTTGCATGTGCTTTCCCCATCATT
1 CCCTTCGCATGTGCTCTCCACATCATT
*
3624 CCCTTCGCCTGTGCTCTCCACATCAT
1 CCCTTCGCATGTGCTCTCCACATCAT
3650 CCCATGCTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.11, C:0.42, G:0.11, T:0.36
Consensus pattern (27 bp):
CCCTTCGCATGTGCTCTCCACATCATT
Found at i:4043 original size:20 final size:20
Alignment explanation
Indices: 3989--4070 Score: 60
Period size: 20 Copynumber: 4.2 Consensus size: 20
3979 TTCATCCGAA
* *
3989 AAAAAAACCCAGTTTTTT-A
1 AAAAAAATCCAGTTTTTTCC
**
4008 AAAAAAAT-TGGATTTTTTCC
1 AAAAAAATCCAG-TTTTTTCC
* **
4028 GAAAAAATCCAGTTTTTTTT
1 AAAAAAATCCAGTTTTTTCC
* *
4048 AAAAAAATCGAGTTTTTTGC
1 AAAAAAATCCAGTTTTTTCC
4068 AAA
1 AAA
4071 CCGAAACCGG
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
18 1 0.02
19 13 0.28
20 32 0.68
21 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.37
Consensus pattern (20 bp):
AAAAAAATCCAGTTTTTTCC
Found at i:4064 original size:39 final size:39
Alignment explanation
Indices: 3990--4064 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
3980 TCATCCGAAA
* *
3990 AAAAAACCCAGTTTTTTAAAAAAAATTGGATTTTTTCCG
1 AAAAAACCCAGTTTTTTAAAAAAAATTCGAGTTTTTCCG
* *
4029 AAAAAATCCAGTTTTTTTTAAAAAAA-TCGAGTTTTT
1 AAAAAACCCAG-TTTTTTAAAAAAAATTCGAGTTTTT
4065 TGCAAACCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 18 0.58
40 13 0.42
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (39 bp):
AAAAAACCCAGTTTTTTAAAAAAAATTCGAGTTTTTCCG
Found at i:4357 original size:21 final size:21
Alignment explanation
Indices: 4331--4371 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
4321 TTTAAGATTT
4331 AAAAAAAAAGATTATTTTTTCA
1 AAAAAAAAAG-TTATTTTTTCA
4353 AAAAAAAAAGTTATTTTTT
1 AAAAAAAAAGTTATTTTTT
4372 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
AAAAAAAAAGTTATTTTTTCA
Found at i:16655 original size:39 final size:39
Alignment explanation
Indices: 16577--16669 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 39
16567 TACCGAGTCA
* * *
16577 AAGAC-TCTAAGCTTACCTGGCGTCTTCAACCCAACTAGG
1 AAGACTTC-AAGCTTACCTGACGTCTTCAACCAAAATAGG
**
16616 AAGACTTCAAGCTTACCTGACGTCTTCAAGTAAAATAGG
1 AAGACTTCAAGCTTACCTGACGTCTTCAACCAAAATAGG
*
16655 AA-ACTACAAGCTTAC
1 AAGACTTCAAGCTTAC
16670 TTGATTTTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 12 0.26
39 33 0.70
40 2 0.04
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (39 bp):
AAGACTTCAAGCTTACCTGACGTCTTCAACCAAAATAGG
Found at i:19211 original size:2 final size:2
Alignment explanation
Indices: 19204--19237 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19194 TTCCTAATTA
19204 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
19238 TGAATTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19797 original size:22 final size:24
Alignment explanation
Indices: 19769--19812 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
19759 GAACAAAGAC
19769 AAATGATAAAATT-TTT-AAATGT
1 AAATGATAAAATTATTTCAAATGT
*
19791 AAATGATTAAATTATTTCAAAT
1 AAATGATAAAATTATTTCAAAT
19813 TACAACCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 3 0.16
24 4 0.21
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (24 bp):
AAATGATAAAATTATTTCAAATGT
Found at i:20175 original size:31 final size:32
Alignment explanation
Indices: 20132--20192 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
20122 AGGGATAAAT
20132 TATGTTTTTAGTACCTAAACTATCAATTTTGA
1 TATGTTTTTAGTACCTAAACTATCAATTTTGA
* * *
20164 TATG-TTTTAGTATCTAATCTTTCAATTTT
1 TATGTTTTTAGTACCTAAACTATCAATTTT
20193 TTCAAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.28, C:0.11, G:0.08, T:0.52
Consensus pattern (32 bp):
TATGTTTTTAGTACCTAAACTATCAATTTTGA
Found at i:21445 original size:65 final size:65
Alignment explanation
Indices: 21326--21555 Score: 217
Period size: 65 Copynumber: 3.6 Consensus size: 65
21316 TTTTTCAGAG
* * *
21326 TGATGCACCGATGCAC-CAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATCGAATG
1 TGATGCATCGATGCACTC-ATCCATGCACCGATGCACTCAGGATATT---TTGAAACATCGAATG
21387 CATT
62 CATT
* * *
21391 TCATGCATCGATGCACTTA-CCATGCACCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCA
1 TGATGCATCGATGCACTCATCCATGCACCGATGCACTCAGGATATTT-TG-AAACATCGAATGCA
21454 TT
64 TT
* * * * *
21456 TGATGCATCGATGCAC-CATCTATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACTCATCCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
* *
21520 TGATGCATCAATGCACTC-T-TAGTGCACCGATGCACT
1 TGATGCATCGATGCACTCATCCA-TGCACCGATGCACT
21556 AAGGGTCCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 60 0.43
65 71 0.51
66 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (65 bp):
TGATGCATCGATGCACTCATCCATGCACCGATGCACTCAGGATATTTTGAAACATCGAATGCATT
Found at i:27326 original size:20 final size:20
Alignment explanation
Indices: 27303--27364 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
27293 TGTGCATTGG
27303 TGCACGGGGTCATGCATCGA
1 TGCACGGGGTCATGCATCGA
*
27323 TGCATGGGGTCATGCAT--A
1 TGCACGGGGTCATGCATCGA
*
27341 TGCACGGGGTCATGTATCGA
1 TGCACGGGGTCATGCATCGA
27361 TGCA
1 TGCA
27365 TCCGTCGGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 16 0.43
20 21 0.57
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (20 bp):
TGCACGGGGTCATGCATCGA
Found at i:35327 original size:16 final size:17
Alignment explanation
Indices: 35296--35329 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
35286 CCATGGGCAT
*
35296 TATTCTTGTGTTTCATG
1 TATTCATGTGTTTCATG
35313 TATTCATGT-TTTCATG
1 TATTCATGTGTTTCATG
35329 T
1 T
35330 CATTTCTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.59
Consensus pattern (17 bp):
TATTCATGTGTTTCATG
Found at i:36762 original size:64 final size:65
Alignment explanation
Indices: 36636--36762 Score: 177
Period size: 64 Copynumber: 2.0 Consensus size: 65
36626 CAATGCACTT
* *
36636 ACCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCA
1 ACCATGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTGATGCATCGATGCACCA
* * * *
36701 ACCATGCATCGATGCACTCTGGCTATTT-TG-AAACATCGAATGCACTTGATGCATCGTTGCAC
1 ACCATGCACCGATGCACTCAGGAT-TTTATGAAAACATCGAATGCACTTGATGCATCGATGCAC
36763 TCTTAGTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
64 30 0.55
65 22 0.40
66 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (65 bp):
ACCATGCACCGATGCACTCAGGATTTTATGAAAACATCGAATGCACTTGATGCATCGATGCACCA
Found at i:41145 original size:2 final size:2
Alignment explanation
Indices: 41138--41167 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
41128 TTGCATATTC
41138 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
41168 TACCAATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46611 original size:16 final size:16
Alignment explanation
Indices: 46579--46618 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
46569 GATCGAGAAA
**
46579 ACATACATCAATGCAT
1 ACATACATCAACACAT
46595 ACATACATCAACACAT
1 ACATACATCAACACAT
*
46611 ATATACAT
1 ACATACAT
46619 ATTACATGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (16 bp):
ACATACATCAACACAT
Found at i:47223 original size:107 final size:103
Alignment explanation
Indices: 46964--47279 Score: 400
Period size: 107 Copynumber: 3.0 Consensus size: 103
46954 ATTTTGAGAA
* * * *
46964 TTTTAAAACAAATTTCATCTCACTTGAGACATTTTTCCTTTAAGATACAAAATTTGAATTTGTTT
1 TTTTAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGTTT
*
47029 CACATTAAACAAAGTTGATCTCAGTTGAGATCGCTTTC
66 CACATTAAACAAAGTTGATCTCACTTGAGATCGCTTTC
* * * * *
47067 TCTTAAAACAAACTTCGTCTTGCTTGAGACATTTTTTCCTTTGATATACAAATTTTGAATTTGAT
1 TTTTAAAACAAATTTCGTCTCGCTTGAGACA-TTTTTCCTTTGAGATACAAATTTTGAATTTGTT
* * * * *
47132 TCAC-TTGAAACAAAAATTAATCTCACTTGAGATTGTTATTT
65 TCACATT-AAAC-AAAGTTGATCTCACTTGAGATCGCT-TTC
* *
47173 TTTTCAAAACAAATTTCGTCTCGTTTGAGACATTTTTCCTTTGAGAATACAAATTTCGAATTTGT
1 TTTT-AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAG-ATACAAATTTTGAATTTG-
*
47238 TTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTC
63 TTTCACATTAAACAAAGTTGATCTCACTTGAGATCGCTTTC
47279 T
1 T
47280 CAAAACCAAA
Statistics
Matches: 179, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
103 28 0.16
104 37 0.21
105 20 0.11
106 20 0.11
107 63 0.35
108 9 0.05
109 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (103 bp):
TTTTAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGTTT
CACATTAAACAAAGTTGATCTCACTTGAGATCGCTTTC
Found at i:47333 original size:36 final size:36
Alignment explanation
Indices: 47293--47384 Score: 139
Period size: 36 Copynumber: 2.6 Consensus size: 36
47283 AACCAAACAA
* *
47293 TGTCTCGCTTGAGACAATTTCTCTAAAAACAACTTT
1 TGTCTCGCTTGAGACAATTTCTCTAAAAACAAATGT
* *
47329 TGTCTCGTTTGAGACAATTTCTCTAAAAATAAATGT
1 TGTCTCGCTTGAGACAATTTCTCTAAAAACAAATGT
*
47365 TGTCTCACTTGAGACAATTT
1 TGTCTCGCTTGAGACAATTT
47385 TCCAAATTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (36 bp):
TGTCTCGCTTGAGACAATTTCTCTAAAAACAAATGT
Found at i:47723 original size:33 final size:33
Alignment explanation
Indices: 47684--47746 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
47674 TAAAACAAAC
*
47684 ATCTTTGAGATTGTTTCACTTGAAATAAAACCT
1 ATCTTTGAGATTGTTTCACTTGAAACAAAACCT
* * *
47717 ATCTTTGTGTTTGTTTCTCTTGAAACAAAA
1 ATCTTTGAGATTGTTTCACTTGAAACAAAA
47747 GTCTGTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (33 bp):
ATCTTTGAGATTGTTTCACTTGAAACAAAACCT
Found at i:47791 original size:29 final size:29
Alignment explanation
Indices: 47667--47831 Score: 120
Period size: 29 Copynumber: 5.6 Consensus size: 29
47657 TTTGAGACAA
* *
47667 TTTCTCTTAAAACAAACATCTTTGAGATTG
1 TTTCTCTTGAAACAAAAATCTTTGAG-TTG
* * *
47697 TTTCACTTGAAATAAAACCTATCTTTGTGTTTG
1 TTTCTCTTGAAACAAAA---ATCTTTGAG-TTG
* * *
47730 TTTCTCTTGAAACAAAAGTCTGTGATTTG
1 TTTCTCTTGAAACAAAAATCTTTGAGTTG
* * *
47759 TTTCTTTTGAAATAAAAATCTTTGAGTTA
1 TTTCTCTTGAAACAAAAATCTTTGAGTTG
*
47788 TTTCT-TATG-AA-AAAATTCTTTGAGTCTG
1 TTTCTCT-TGAAACAAAAATCTTTGAGT-TG
* *
47816 TTTCTTTTGAACCAAA
1 TTTCTCTTGAAACAAA
47832 GTTTTGTCTC
Statistics
Matches: 106, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
27 13 0.12
28 11 0.10
29 35 0.33
30 21 0.20
33 26 0.25
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.44
Consensus pattern (29 bp):
TTTCTCTTGAAACAAAAATCTTTGAGTTG
Found at i:47810 original size:27 final size:27
Alignment explanation
Indices: 47772--47826 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
47762 CTTTTGAAAT
47772 AAAAATCTTTGAGT-TATTTCTTATGA
1 AAAAATCTTTGAGTCTATTTCTTATGA
* *
47798 AAAAATTCTTTGAGTCTGTTTCTTTTGA
1 AAAAA-TCTTTGAGTCTATTTCTTATGA
47826 A
1 A
47827 CCAAAGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 9 0.36
28 11 0.44
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (27 bp):
AAAAATCTTTGAGTCTATTTCTTATGA
Found at i:47916 original size:30 final size:28
Alignment explanation
Indices: 47858--47930 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
47848 GACAATTTCA
*
47858 TGAAAAAAAATCTTTGAGTCATTTCTTT
1 TGAAACAAAATCTTTGAGTCATTTCTTT
*
47886 TGAAACCAAAATCTTTGAGT-TTGCTTCTTT
1 TGAAA-CAAAATCTTTGAGTCAT--TTCTTT
47916 TGAAACAAAAT-TTTG
1 TGAAACAAAATCTTTG
47931 TCTCTCTTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
28 10 0.25
29 19 0.47
30 11 0.28
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (28 bp):
TGAAACAAAATCTTTGAGTCATTTCTTT
Found at i:47932 original size:93 final size:92
Alignment explanation
Indices: 47766--47970 Score: 261
Period size: 93 Copynumber: 2.2 Consensus size: 92
47756 TTGTTTCTTT
* * * *
47766 TGAAATAAAAATCTTTGAGTTATTTCTTATGAAAAAATTCTTTGAGTCTGTTTCTTTTGAACCAA
1 TGAAA-AAAAATCTTTGAGTCATTTCTTATGAAAAAAATCTTTGAGTCTGCTTCTTTTGAAACAA
*
47831 AGTTTTGTCTCTCTTAAGACA-ATTTCA
65 AATTTTGTCTCTCTTAAGACAGATTTCA
* *
47858 TGAAAAAAAATCTTTGAGTCATTTCTTTTGAAACCAAAATCTTTGAGTTTGCTTCTTTTGAAACA
1 TGAAAAAAAATCTTTGAGTCATTTCTTATGAAA--AAAATCTTTGAGTCTGCTTCTTTTGAAACA
* * *
47923 AAATTTTGTCTCTCTTGAGACAGTTTTTCT
64 AAATTTTGTCTCTCTTAAGACAG-ATTTCA
*
47953 TG-AGAAAAATCTTTGAGT
1 TGAAAAAAAATCTTTGAGT
47971 ATGTTCCGTT
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
91 26 0.27
92 5 0.05
93 46 0.47
94 15 0.15
95 6 0.06
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (92 bp):
TGAAAAAAAATCTTTGAGTCATTTCTTATGAAAAAAATCTTTGAGTCTGCTTCTTTTGAAACAAA
ATTTTGTCTCTCTTAAGACAGATTTCA
Found at i:48288 original size:39 final size:38
Alignment explanation
Indices: 48218--48292 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 38
48208 CTAAAGATGG
* *
48218 CCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCGA
1 CCAGAACTCTTCATCACGTATGAGCCCTGTCA-CCCCGA
*
48257 CCAGATCTCTTCATCACGTATGAGCCCTGTCACCCC
1 CCAGAACTCTTCATCACGTATGAGCCCTGTCACCCC
48293 TAGATAACCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 4 0.12
39 29 0.88
ACGTcount: A:0.21, C:0.37, G:0.16, T:0.25
Consensus pattern (38 bp):
CCAGAACTCTTCATCACGTATGAGCCCTGTCACCCCGA
Found at i:48454 original size:133 final size:133
Alignment explanation
Indices: 48207--48564 Score: 509
Period size: 133 Copynumber: 2.7 Consensus size: 133
48197 AATCATTATC
* *
48207 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGTCGTGTCATCCCCGACCAGATCTCTTCATC
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCGACCAGATCTCCTCATC
* * * *
48272 ACGTATGAGCCCTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCAAGTTATCACC
66 ACGTAGGAGCCATGTCACCCCTAGATAACCACCCATCCTCATCACGTAGGAACCAAGTTATCACC
48337 CTT
131 CTT
* * *
48340 CCTAAAGATGACCAGAACTCTTCATCACGTATGAACCGTGTCATCCCCGACTAGATCTCCTCATC
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCGACCAGATCTCCTCATC
* * * ** *
48405 GCGTAGGAGCCGTGTCACCCCTAGATAACCACCCATCCTTATCGTGTAGGAACCGAGTTATCACC
66 ACGTAGGAGCCATGTCACCCCTAGATAACCACCCATCCTCATCACGTAGGAACCAAGTTATCACC
48470 CTT
131 CTT
** * *
48473 CCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAATGTCATCCCTCGACCATATTTCCTCA
1 CCTAAAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTGTCATCCC-CGACCAGATCTCCTCA
* *
48538 TCACGTAGGAACCATGTCACCCTTAGA
64 TCACGTAGGAGCCATGTCACCCCTAGA
48565 CGACCCGAAC
Statistics
Matches: 198, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
133 131 0.66
134 31 0.16
135 36 0.18
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (133 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCGACCAGATCTCCTCATC
ACGTAGGAGCCATGTCACCCCTAGATAACCACCCATCCTCATCACGTAGGAACCAAGTTATCACC
CTT
Found at i:48768 original size:3 final size:3
Alignment explanation
Indices: 48762--48799 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
48752 ATTTTATTTA
48762 TAT TAT TAT T-T ATAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA
48800 ATTACAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 31 0.94
4 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:48772 original size:12 final size:12
Alignment explanation
Indices: 48755--48795 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
48745 TTTTTTCATT
48755 TTATTTATATTA
1 TTATTTATATTA
48767 TTATTTATATTA
1 TTATTTATATTA
48779 TTA-TTATTATTA
1 TTATTTA-TATTA
48791 TTATT
1 TTATT
48796 ATTAATTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 3 0.11
12 23 0.85
13 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:54040 original size:4 final size:4
Alignment explanation
Indices: 54031--54061 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
54021 AAGAAAAGAA
54031 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
54062 GGTTTTCTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:54852 original size:136 final size:136
Alignment explanation
Indices: 54642--55778 Score: 1289
Period size: 136 Copynumber: 8.4 Consensus size: 136
54632 AAGTTTTTCA
* * * * **
54642 CATTATGAACTTCTTTTCCCTC-CTCGAATGCGTTCTTCTCATTATGAACTCTCCATCAGAAA-C
1 CATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAAATC
* ** ** ** * ** ** *
54705 GTCAATTCCTCAAATGAGGTGTTGCTGATTCAAAGTGTTGTGAATCGAGCAATAGGTTGAACAAG
66 -TCAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTGATAGGTCGAACAAG
54770 CTCTTCT
130 CTCTTCT
* * **
54777 CATTATGAACTTCTTCTTCCTCTGTCGGATGAGTTCTTCTTATTATGAACTCTCCATAGGAAATC
1 CATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAAATC
* * * * *
54842 TAAATCCCTCAAGCGAGGCATCTCTGATTCAAAATACTGTGAATCGAGTGATAGGTCAAACAAGC
66 TCAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTGATAGGTCGAACAAGC
54907 TCTTCT
131 TCTTCT
* * * * *
54913 AATTATGAACTTCTTCTCCCTCTTTCAGATGAGTTCTTCTCATTATGAACTATCCATTTGAAATG
1 CATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAAATC
* * * * * *
54978 TCAATCCATCAAGCGAGGCGTCACTGATTCGAAATACCGTGAATCGAGTAATAGGTCGAACAACC
66 TCAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTGATAGGTCGAACAAGC
55043 TCTTCT
131 TCTTCT
* *
55049 TATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCA-TCGAAAAT
1 CATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTTG-AAAT
* *
55113 GC-CAATCCCTCAAGTGAGGCATCACTGATTCAAAATGCTGTGAATCGAGTGATAGGTCGAACAA
65 -CTCAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTGATAGGTCGAACAA
* *
55177 ACTCTTAT
129 GCTCTTCT
* * * * * *
55185 TATTATGAACTTGTTCTCCCTCTGTCGAATGAGTTCTTCTCATAATGAATTCTCCATTTGAAATG
1 CATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAAATC
* * * ** ** * * *
55250 TTAATCTCTAAAGCGAGGTGTCACTGATTTGAAATACTGTGAATCGAGTGATAGGTCGTACAAGC
66 TCAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTGATAGGTCGAACAAGC
55315 TCTTCT
131 TCTTCT
* * * * ** ** * *
55321 CGTTATGAACTTCTTCTCCATTTTTCGGATGAGTTCTTCTCATTACAAACTCTTAATTTGGAATA
1 CATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAAATC
* *
55386 TCAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCATGAATTGAGTGATAGGTCGAACAAGC
66 TCAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTGATAGGTCGAACAAGC
55451 TCTTCT
131 TCTTCT
* * ** * * *
55457 CATTATGAACTTCTTCTACCTCTTTTAGA-CATGTTCTTCTCATTATGAACTCTCTATTTAAAAT
1 CATTATGAACTTCTTCTCCCTCTGTCGGATGA-GTTCTTCTCATTATGAACTCTCCATTTGAAAT
* ** * * *
55521 GTCAATCCCTCAAGCGAGGCATCGTTGATT-ATAAATGTCATGAATCGAGCGATAGGTCGAACAA
65 CTCAATCCCTCAAGCGAGGCATCACTGATTCA-AAATGCCGTGAATCGAGTGATAGGTCGAACAA
*
55585 GCTATTCT
129 GCTCTTCT
* ** * *
55593 CATTATGAACTTCTTCTTCCTCTGTCATATGAGTTCTTCTCATTATGAACTCTCCATTTGAGATG
1 CATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAAATC
* * * *
55658 TTAATCCCTCAAGCGAGGCATCGCTGGTTCAAAATGTCGTGAATCGAGTGATAGGTCGAACAAGC
66 TCAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTGATAGGTCGAACAAGC
55723 TCTTCT
131 TCTTCT
* * *
55729 CATTATGAACTCCCTCTCCCT-TGTCAGATGAGTTCTTCTCATTATGAACT
1 CATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACT
55779 TTCAATTGGA
Statistics
Matches: 853, Mismatches: 139, Indels: 20
0.84 0.14 0.02
Matches are distributed among these distances:
135 52 0.06
136 796 0.93
137 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (136 bp):
CATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATTTGAAATC
TCAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTGATAGGTCGAACAAGC
TCTTCT
Found at i:55442 original size:408 final size:405
Alignment explanation
Indices: 54642--55791 Score: 1428
Period size: 408 Copynumber: 2.8 Consensus size: 405
54632 AAGTTTTTCA
* * * *
54642 CATTATGAACTTCTTTTCCCTC-CTCGAATGCGTTCTTCTCATTATGAACTCTCCATCAGAAACG
1 CATTATGAACTTCTTCTCCCTCTCTCGGATGAGTTCTTCTCATTATGAACTCTCCATCA-AAATG
* * ** * * * *
54706 TCAATTCCTCAAATGAGGTGTTGCTGATTCAAAGTGTTGTGAATCGAGCAATAGGTTGAACAAGC
65 TCAATCCCTCAAGTGAGGCATCGCTGATTCAAAATG-TGTGAATCGAGCGATAGGTCGAACAAGC
* * **
54771 TCTTCTCATTATGAACTTCTTCTTCCTCTGTCGGATGAGTTCTTCTTATTATGAACTCTCCATAG
129 TCTTCTCATTATGAACTTCTTCTTCCTCTGTCGAATGAGTTCTTCTCATTATGAACTCTCCATTT
* * * *
54836 GAAATCTAAATCCCTCAAGCGAGGCATCTCTGATTCAAAATACTGTGAATCGAGTGATAGGTCAA
194 GAAATGTTAATCCCTCAAGCGAGGCATCACTGATTCAAAATACTGTGAATCGAGTGATAGGTCGA
* * **
54901 ACAAGCTCTTCTAATTATGAACTTCTTCTCCCTCTTTCAGATGAGTTCTTCTCATTATGAACTAT
259 ACAAGCTCTTCTCATTATGAACTTCTTCT-CCTTTTTCAGATGAGTTCTTCTCATTACAAACTAT
* * * * *
54966 CCATTTGAAATGTCAATCCATCAAGCGAGGCGTCACTGATTCGAAATACCGTGAATCGAGTAATA
323 CAATTTGAAATATCAATCCATCAAGCGAGGCATCACTGATTCAAAATACCATGAATCGAGTAATA
55031 GGTCGAACAACCTCTTCT
388 GGTCGAACAACCTCTTCT
* *
55049 TATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTATGAACTCTCCATCGAAAATG
1 CATTATGAACTTCTTCTCCCTCTCTCGGATGAGTTCTTCTCATTATGAACTCTCCATC-AAAATG
* * * *
55114 CCAATCCCTCAAGTGAGGCATCACTGATTCAAAATGCTGTGAATCGAGTGATAGGTCGAACAAAC
65 TCAATCCCTCAAGTGAGGCATCGCTGATTCAAAATG-TGTGAATCGAGCGATAGGTCGAACAAGC
* * * * * *
55179 TCTTATTATTATGAACTTGTTCTCCCTCTGTCGAATGAGTTCTTCTCATAATGAATTCTCCATTT
129 TCTTCTCATTATGAACTTCTTCTTCCTCTGTCGAATGAGTTCTTCTCATTATGAACTCTCCATTT
* * ** ** *
55244 GAAATGTTAATCTCTAAAGCGAGGTGTCACTGATTTGAAATACTGTGAATCGAGTGATAGGTCGT
194 GAAATGTTAATCCCTCAAGCGAGGCATCACTGATTCAAAATACTGTGAATCGAGTGATAGGTCGA
* * *
55309 ACAAGCTCTTCTCGTTATGAACTTCTTCTCCATTTTTCGGATGAGTTCTTCTCATTACAAACTCT
259 ACAAGCTCTTCTCATTATGAACTTCTTCTCC-TTTTTCAGATGAGTTCTTCTCATTACAAACTAT
* * * * * *
55374 TAATTTGGAATATCAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCATGAATTGAGTGATA
323 CAATTTGAAATATCAATCCATCAAGCGAGGCATCACTGATTCAAAATACCATGAATCGAGTAATA
*
55439 GGTCGAACAAGCTCTTCT
388 GGTCGAACAACCTCTTCT
* * ** * * *
55457 CATTATGAACTTCTTCTACCTCTTTTAGA-CATGTTCTTCTCATTATGAACTCTCTATTTAAAAT
1 CATTATGAACTTCTTCTCCCTCTCTCGGATGA-GTTCTTCTCATTATGAACTCTCCA-TCAAAAT
* * *
55521 GTCAATCCCTCAAGCGAGGCATCGTTGATT-ATAAATGTCATGAATCGAGCGATAGGTCGAACAA
64 GTCAATCCCTCAAGTGAGGCATCGCTGATTCA-AAATGT-GTGAATCGAGCGATAGGTCGAACAA
*
55585 GCTATTCTCATTATGAACTTCTTCTTCCTCTGTC-ATATGAGTTCTTCTCATTATGAACTCTCCA
127 GCTCTTCTCATTATGAACTTCTTCTTCCTCTGTCGA-ATGAGTTCTTCTCATTATGAACTCTCCA
* * * *
55649 TTTGAGATGTTAATCCCTCAAGCGAGGCATCGCTGGTTCAAAAT-GTCGTGAATCGAGTGATAGG
191 TTTGAAATGTTAATCCCTCAAGCGAGGCATCACTGATTCAAAATACT-GTGAATCGAGTGATAGG
* * * * **
55713 TCGAACAAGCTCTTCTCATTATGAACTCCCTCTCCCTTGTCAGATGAGTTCTTCTCATTATGAAC
255 TCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCTTTTTCAGATGAGTTCTTCTCATTACAAAC
* *
55778 TTTCAATTGGAAAT
320 TATCAATTTGAAAT
55792 GATGATCGGT
Statistics
Matches: 630, Mismatches: 104, Indels: 18
0.84 0.14 0.02
Matches are distributed among these distances:
407 62 0.10
408 566 0.90
409 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (405 bp):
CATTATGAACTTCTTCTCCCTCTCTCGGATGAGTTCTTCTCATTATGAACTCTCCATCAAAATGT
CAATCCCTCAAGTGAGGCATCGCTGATTCAAAATGTGTGAATCGAGCGATAGGTCGAACAAGCTC
TTCTCATTATGAACTTCTTCTTCCTCTGTCGAATGAGTTCTTCTCATTATGAACTCTCCATTTGA
AATGTTAATCCCTCAAGCGAGGCATCACTGATTCAAAATACTGTGAATCGAGTGATAGGTCGAAC
AAGCTCTTCTCATTATGAACTTCTTCTCCTTTTTCAGATGAGTTCTTCTCATTACAAACTATCAA
TTTGAAATATCAATCCATCAAGCGAGGCATCACTGATTCAAAATACCATGAATCGAGTAATAGGT
CGAACAACCTCTTCT
Found at i:57268 original size:18 final size:18
Alignment explanation
Indices: 57245--57286 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
57235 GTGACGTACC
57245 TATTATAT-ATAATAATAT
1 TATTATATGAT-ATAATAT
*
57263 TATTATATGATATATTAT
1 TATTATATGATATAATAT
57281 TATTAT
1 TATTAT
57287 TATTATTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TATTATATGATATAATAT
Found at i:57293 original size:15 final size:15
Alignment explanation
Indices: 57245--57294 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
57235 GTGACGTACC
*
57245 TATTA-TATATAATAA
1 TATTATTATATGAT-A
57260 TATTATTATATGATA
1 TATTATTATATGATA
57275 TATTATTAT-T-AT-
1 TATTATTATATGATA
57287 TATTATTA
1 TATTATTA
57295 CAATTACAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 8 0.24
13 2 0.06
14 1 0.03
15 15 0.45
16 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
TATTATTATATGATA
Found at i:58347 original size:13 final size:13
Alignment explanation
Indices: 58329--58367 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
58319 TTCTTATTCG
58329 TTTTAATTTTATC
1 TTTTAATTTTATC
*
58342 TTTTAATTTTATT
1 TTTTAATTTTATC
58355 TATTTATATTTTA
1 T-TTTA-ATTTTA
58368 GTTTATACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 13 0.57
14 4 0.17
15 6 0.26
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTAATTTTATC
Found at i:58535 original size:22 final size:23
Alignment explanation
Indices: 58507--58550 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
58497 TATTATAAAT
*
58507 CTATAT-ATTTTTATAATTTAAC
1 CTATATAATTTTAATAATTTAAC
*
58529 CTATATAATTTTAATATTTTAA
1 CTATATAATTTTAATAATTTAA
58551 ATAAATATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (23 bp):
CTATATAATTTTAATAATTTAAC
Found at i:67512 original size:40 final size:39
Alignment explanation
Indices: 67453--67561 Score: 155
Period size: 40 Copynumber: 2.8 Consensus size: 39
67443 ATTTCCCACA
*
67453 AATTTGTAAAACCTCCGGGTAATTTGTAAAACCTCTGGGT
1 AATTTGTAAAACCTTCGGGTAATTTGTAAAACCTCT-GGT
* * **
67493 AATTTGTAAAGCCTTCGGGTCATTTACAAAACCTCTGGT
1 AATTTGTAAAACCTTCGGGTAATTTGTAAAACCTCTGGT
*
67532 AATTTGTAAAACCTTCAGGTAATTTGTAAA
1 AATTTGTAAAACCTTCGGGTAATTTGTAAA
67562 TCCTTCGAGT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
39 28 0.47
40 31 0.53
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (39 bp):
AATTTGTAAAACCTTCGGGTAATTTGTAAAACCTCTGGT
Found at i:67566 original size:20 final size:20
Alignment explanation
Indices: 67453--67568 Score: 137
Period size: 20 Copynumber: 5.8 Consensus size: 20
67443 ATTTCCCACA
*
67453 AATTTGTAAAACCTCCGGGT
1 AATTTGTAAAACCTTCGGGT
67473 AATTTGTAAAACC-TCTGGGT
1 AATTTGTAAAACCTTC-GGGT
*
67493 AATTTGTAAAGCCTTCGGGT
1 AATTTGTAAAACCTTCGGGT
* ** *
67513 CATTTACAAAACC-TCTGGT
1 AATTTGTAAAACCTTCGGGT
*
67532 AATTTGTAAAACCTTCAGGT
1 AATTTGTAAAACCTTCGGGT
*
67552 AATTTGTAAATCCTTCG
1 AATTTGTAAAACCTTCG
67569 AGTGAAATGG
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 16 0.20
20 62 0.77
21 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (20 bp):
AATTTGTAAAACCTTCGGGT
Found at i:67795 original size:35 final size:35
Alignment explanation
Indices: 67742--68087 Score: 415
Period size: 35 Copynumber: 9.9 Consensus size: 35
67732 CAGATTCTTC
*
67742 TCAATTTAACCTTCACGTAAGAGTAGTGAAGTGAT
1 TCAATTCAACCTTCACGTAAGAGTAGTGAAGTGAT
* * *
67777 TCGATTCAACCTTCACGTAAGAGTAGTGAATTCAT
1 TCAATTCAACCTTCACGTAAGAGTAGTGAAGTGAT
** * *
67812 TTGATTCAACCTTCACGGAAGAGTAGTGAAGTAAT
1 TCAATTCAACCTTCACGTAAGAGTAGTGAAGTGAT
*
67847 TAAATTCAACCTTCACGTAAGAGTAGTGAAGTGAT
1 TCAATTCAACCTTCACGTAAGAGTAGTGAAGTGAT
* * * * *
67882 TCAATCCAACCTTCATGCAAGAGTAGTGAAATAAT
1 TCAATTCAACCTTCACGTAAGAGTAGTGAAGTGAT
* ** *
67917 TCAATTTAACAATCATGTAAGAGTAGTGAAGTGAT
1 TCAATTCAACCTTCACGTAAGAGTAGTGAAGTGAT
*
67952 TCGATTCAACCTTCACGTAAGAGTAGTGAAGTGAT
1 TCAATTCAACCTTCACGTAAGAGTAGTGAAGTGAT
* ** * **
67987 TCGATTCAGTCTTCACGGAAGAGTAGTGAAGCAAT
1 TCAATTCAACCTTCACGTAAGAGTAGTGAAGTGAT
*
68022 TCAATTCAACCTTCATGTAAGAGTAGTGAAGTGAT
1 TCAATTCAACCTTCACGTAAGAGTAGTGAAGTGAT
* * *
68057 TCAATCCAGCCTTAACAG-AAGAGTAGTGAAG
1 TCAATTCAACCTTCAC-GTAAGAGTAGTGAAG
68088 CAAGATCAGA
Statistics
Matches: 264, Mismatches: 46, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
35 263 1.00
36 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (35 bp):
TCAATTCAACCTTCACGTAAGAGTAGTGAAGTGAT
Found at i:68287 original size:3 final size:3
Alignment explanation
Indices: 68281--68327 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
68271 TATATAATAA
*
68281 TAT TAT TA- TAT GAT ATAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
68326 TA
1 TA
68328 CAAGACCCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:68289 original size:18 final size:18
Alignment explanation
Indices: 68266--68325 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
68256 GTGACGTATC
*
68266 TATTATATATAATAATAT
1 TATTATATATAATATTAT
68284 TATTATATGAT-ATATTAT
1 TATTATAT-ATAATATTAT
*
68302 TATTAT-TATTATTATTAT
1 TATTATATA-TAATATTAT
68320 TATTAT
1 TATTAT
68326 TACAAGACCC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
16 1 0.03
17 2 0.05
18 32 0.86
19 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TATTATATATAATATTAT
Found at i:71892 original size:16 final size:16
Alignment explanation
Indices: 71855--71890 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
71845 TTTCTTTTTC
71855 TTTTTCATTTTTCGTT
1 TTTTTCATTTTTCGTT
*
71871 TTTTTCGTTTTT-GTT
1 TTTTTCATTTTTCGTT
71886 TTTTT
1 TTTTT
71891 TCTATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.03, C:0.08, G:0.08, T:0.81
Consensus pattern (16 bp):
TTTTTCATTTTTCGTT
Found at i:74420 original size:18 final size:18
Alignment explanation
Indices: 74397--74431 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
74387 GTTCTTAAGG
74397 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
**
74415 AGTGGTTTTTCGGGACA
1 AGTGGTCCTTCGGGACA
74432 AATTCTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.17, G:0.34, T:0.31
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:75927 original size:15 final size:15
Alignment explanation
Indices: 75907--75937 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
75897 CCTGCGAGTA
75907 GCTGGGTACTGCATC
1 GCTGGGTACTGCATC
75922 GCTGGGTACTGCATC
1 GCTGGGTACTGCATC
75937 G
1 G
75938 TCTTCAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.35, T:0.26
Consensus pattern (15 bp):
GCTGGGTACTGCATC
Found at i:79818 original size:2 final size:2
Alignment explanation
Indices: 79811--79835 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
79801 TTCTAGCCCT
79811 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
79836 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:79840 original size:2 final size:2
Alignment explanation
Indices: 79835--79893 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
79825 ACACACACAC
79835 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
79877 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
79894 AAAGTACACA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:82257 original size:17 final size:18
Alignment explanation
Indices: 82226--82268 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
82216 ATATGAATTT
82226 TATAAGAAAATTAATATAAA
1 TATAA-AAAA-TAATATAAA
*
82246 T-TAAAAAATAATCTAAA
1 TATAAAAAATAATATAAA
82263 TATAAA
1 TATAAA
82269 TCAATCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.43
18 8 0.38
19 3 0.14
20 1 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
TATAAAAAATAATATAAA
Found at i:86244 original size:106 final size:106
Alignment explanation
Indices: 86109--87246 Score: 1971
Period size: 106 Copynumber: 10.8 Consensus size: 106
86099 TCCTCCGTCA
* *
86109 TGAAATTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
86174 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
66 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
86215 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
*
86280 AAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
66 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
86321 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
*
86386 AAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
66 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
86427 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATT-AG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA-
*
86491 GAAGTT-TTTTTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
65 GAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
86532 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
* *
86597 AA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
66 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
86637 TGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTTAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
*
86702 AAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
66 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
86743 TGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
* *
86808 AA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
66 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * * *
86848 TGAACTTGTGTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
*
86913 AA-ATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
66 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
86953 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
*
87018 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
66 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * * *
87059 TGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
* *
87124 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
66 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
87165 TGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
*
87230 AAGTTGTTTGTTGACAA
66 AAGTTGTTTATTGACAA
87247 ACAACTTTTC
Statistics
Matches: 986, Mismatches: 41, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
104 1 0.00
105 396 0.40
106 589 0.60
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
Found at i:86706 original size:316 final size:318
Alignment explanation
Indices: 86109--87246 Score: 1980
Period size: 316 Copynumber: 3.6 Consensus size: 318
86099 TCCTCCGTCA
* * *
86109 TGAAATTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAG
* *
86174 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
86239 ATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGG
131 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTATTGACAACCAGCGG
86304 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
196 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
86369 TTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
261 TTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
86427 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATT-AG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGA-
* *
86491 GAAGTT-TTTTTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
65 GAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
*
86555 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCG
130 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTATTGACAACCAGCG
*
86619 GTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
195 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
* *
86684 ATTGGCTCTGAAATTTAGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
260 ATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
86743 TGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAG
*
86808 AAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
66 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
86872 ATACCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAA-ATGTTTATTGACAACCAGCGG
131 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTATTGACAACCAGCGG
86936 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
196 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
87001 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
261 TTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* * *
87059 TGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAG
*
87124 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCA
66 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
87189 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
131 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTATTGACAA
87247 ACAACTTTTC
Statistics
Matches: 778, Mismatches: 37, Indels: 10
0.94 0.04 0.01
Matches are distributed among these distances:
315 1 0.00
316 499 0.64
317 201 0.26
318 77 0.10
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (318 bp):
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGAG
AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGATGTTTATTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
TTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
Found at i:87028 original size:422 final size:423
Alignment explanation
Indices: 86109--87246 Score: 2010
Period size: 422 Copynumber: 2.7 Consensus size: 423
86099 TCCTCCGTCA
* *
86109 TGAAATTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
*
86174 AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
86239 ATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGG
131 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
86304 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
196 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
* *
86369 TTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
261 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
* * * *
86434 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTAGGAAGTTTT
326 GCGTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTCCAAAATTAGGAAATGTT
*
86499 TTTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
391 TATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
86532 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
* *
86597 AA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
66 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
86661 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTTAGAAGTTATTTATTGACAACCAGCGG
131 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
*
86726 TCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
196 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
86791 TTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
261 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
* * *
86855 GTGTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAAATGTT
326 GCGTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTCCAAAATTAGGAAATGTT
86920 TATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
391 TATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
86953 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
1 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
*
87018 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCA
66 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * *
87083 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGG
131 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
*
87148 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
196 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
87213 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
261 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
87247 ACAACTTTTC
Statistics
Matches: 679, Mismatches: 34, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
421 199 0.29
422 402 0.59
423 78 0.11
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (423 bp):
TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
GCGTTGTCTGGAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTCCAAAATTAGGAAATGTT
TATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
Found at i:89375 original size:26 final size:26
Alignment explanation
Indices: 89328--89377 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
89318 TGAGACATGT
*
89328 GAATGTAAAAAAAGGAAAAATAATGC
1 GAATGTAAAAAAAAGAAAAATAATGC
* *
89354 GAATGTAAAAAAAATAATAATAAT
1 GAATGTAAAAAAAAGAAAAATAAT
89378 AATAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.64, C:0.02, G:0.14, T:0.20
Consensus pattern (26 bp):
GAATGTAAAAAAAAGAAAAATAATGC
Found at i:91002 original size:6 final size:6
Alignment explanation
Indices: 91002--91030 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
90992 GAAAATTAAA
91002 AAATTT AAATTT AAATTT AAATTT AAATT
1 AAATTT AAATTT AAATTT AAATTT AAATT
91031 ACCCGATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:97889 original size:19 final size:19
Alignment explanation
Indices: 97865--97906 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
97855 TAAAATTATC
*
97865 ATTCATTAACATCACGTTA
1 ATTCATTAACATCACATTA
97884 ATTCATTAACATCACATTA
1 ATTCATTAACATCACATTA
97903 ATTC
1 ATTC
97907 TTTGATTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.38
Consensus pattern (19 bp):
ATTCATTAACATCACATTA
Found at i:103075 original size:5 final size:5
Alignment explanation
Indices: 103065--103116 Score: 54
Period size: 5 Copynumber: 10.0 Consensus size: 5
103055 AATAAATAAT
103065 TAAAA TAAAATA TAAAA TAAAA T-AAA TAAAA TAAAA TATAAA -AGAAA
1 TAAAA T-AAA-A TAAAA TAAAA TAAAA TAAAA TAAAA TA-AAA TA-AAA
103112 TAAAA
1 TAAAA
103117 GAAATTTAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
4 4 0.10
5 25 0.61
6 10 0.24
7 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:103075 original size:14 final size:13
Alignment explanation
Indices: 103054--103107 Score: 69
Period size: 12 Copynumber: 4.2 Consensus size: 13
103044 AAAATAAAGC
103054 AAAT-AAATAATTA
1 AAATAAAATAA-TA
103067 AAATAAAAT-ATA
1 AAATAAAATAATA
103079 AAATAAAATAAATA
1 AAATAAAAT-AATA
103093 AAATAAAAT-ATA
1 AAATAAAATAATA
103105 AAA
1 AAA
103108 GAAATAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
12 17 0.45
13 5 0.13
14 16 0.42
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAATAATA
Found at i:103094 original size:26 final size:25
Alignment explanation
Indices: 103054--103115 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 25
103044 AAAATAAAGC
*
103054 AAATAAATAATTAAAATAAAATATA
1 AAATAAATAAATAAAATAAAATATA
103079 AAATAAAATAAATAAAATAAAATATA
1 AAAT-AAATAAATAAAATAAAATATA
*
103105 AAAGAAATAAA
1 AAATAAATAAA
103116 AGAAATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 11 0.32
26 23 0.68
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.23
Consensus pattern (25 bp):
AAATAAATAAATAAAATAAAATATA
Found at i:108586 original size:68 final size:68
Alignment explanation
Indices: 107837--108568 Score: 1007
Period size: 68 Copynumber: 10.8 Consensus size: 68
107827 AAATATTAAT
** * * * *
107837 AGGCCTAACTACGCATTTAACAAAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTACCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
107902 TTG
66 TTG
* * ** * * * *
107905 AGGCCTAACTTTGCATTTGACAGAAATGCATCATTTGTACCAGTTAGATTAAAGACTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
107970 TTG
66 TTG
* * * * *
107973 AGGCTTAACTATGCATTTTACAGAAAGATGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
108038 TTG
66 TTG
* * *
108041 AGGCCTAACTGTGCATTTGACAGAAAGTTGTCATTTGA-GTCAGTTAGATGAAAGGCTAAGTTCC
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTT-ATGCCAGTTAGATGAAAGGCTAAGTGCC
108105 TTTG
65 TTTG
* * * * *
108109 AGGCCTAACTGTGCATTTGACAGAAAGGTGTGATTTGTTCTAATTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
108174 TTG
66 TTG
* * * * * * * *
108177 AGGCCTAAATGTGTATTTGACAAAAAGGTGTCAATTATGCTAGCTAGATGAAAGGCGAAGGGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
108242 TTG
66 TTG
* * **
108245 AGGCCTAACTGTACATTTGACAGAAATGTGTCATTTATGTTAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
108310 TTG
66 TTG
* *
108313 AGGCCTAAATGTGCATTTGACTGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
108378 TTG
66 TTG
* * *
108381 AGGCCTAACTGTGCATTTGACAGAAAGGTGTTATTTGTTCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
108446 TTG
66 TTG
* *
108449 AGGCCTAACTGTGCATTTTACATAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
108514 TTG
66 TTG
* * *
108517 AGGCCTAATTGTGCATTTGGCAGAAAGATGTCATTTATGCCAGTTAGATGAA
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
108569 CGGTTAAATA
Statistics
Matches: 582, Mismatches: 80, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
68 581 1.00
69 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
TTG
Found at i:108660 original size:81 final size:79
Alignment explanation
Indices: 108518--109157 Score: 726
Period size: 81 Copynumber: 7.9 Consensus size: 79
108508 GTGCCTTTGA
* * *
108518 GGCCTAATTGTGCATTTGGCAGAAAGATGTCATTTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
108583 TGAGTAATATAATAAT
66 TGAGTAA-A-AATAAT
* * * *
108599 GGTCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATACCAGTTTGATGAACGATTAAATACCGT
1 GGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
108664 TGAGTAAAAGAATAAT
66 TGAGT-AAA-AATAAT
** * * * * * * *
108680 GGCCTAACTGTGAATTTGGCAAAAATGTGCCAATTATACCAGTTAGATGAACAGTTAAATACCAT
1 GGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
108745 TGAGTAAAAGATGAAT
66 TGAGTAAAA-AT-AAT
* * * * * * * *
108761 GGCCTAGTTGTGTATTCGGTAGAAAGATATCAATTATGCCAGTTGGATGAATGGTTAAATACAGT
1 GGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
108826 TGAGTAAAAGAATAAT
66 TGAGT-AAA-AATAAT
* * * * *
108842 GGTCTAGTTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATGAATGGGTAAATACCTT
1 GGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
108907 TGAGTAAAAGATGAAT
66 TGAGTAAAA-AT-AAT
* * * * *
108923 GGCCTAGTTATGCATTTGGGAGAAATGTGTCAATTATGCTAGTTAGATGAAAGGTTAAATACCGT
1 GGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
108988 TGAGTAAAAGATGAAT
66 TGAGTAAAA-AT-AAT
* **
109004 GGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACATTGT
1 GGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
109069 TGAGTAAAAAAATAAT
66 TGAGT--AAAAATAAT
* * * * * * *
109085 GGACTAGATGTGCATTTGACAGAAA-GTGTCAAATATG-CAGGTTAGATGAAAGGCTAAATACCT
1 GGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCA-GTTAGATGAACGGTTAAATACCG
*
109148 TTGGGTAAAA
65 TTGAGTAAAA
109158 GAATAAAAGA
Statistics
Matches: 475, Mismatches: 74, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
78 4 0.01
79 4 0.01
80 43 0.09
81 410 0.86
82 9 0.02
83 5 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (79 bp):
GGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGT
TGAGTAAAAATAAT
Found at i:108969 original size:243 final size:242
Alignment explanation
Indices: 108518--109159 Score: 867
Period size: 243 Copynumber: 2.6 Consensus size: 242
108508 GTGCCTTTGA
* * *
108518 GGCCTAATTGTGCATTTGGCAGAAAGATGTCATTTATGCCAGTTAGATGAACGGTTAAATACCGT
1 GGCCTAGTTGTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACGGTTAAATACAGT
* * * *
108583 TGAGTAATATAATAATGGTCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATACCAGTTTGATG
66 TGAGTAAAAAAATAATGGTCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATG
* ** * *
108648 AACGATTAAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGAATTTGGCAAAAATGTGCCAA
131 AAAGGCTAAATACCTTTGAGTAAAAG-ATAATGGCCTAACTATGAATTTGGCAAAAATGTGCCAA
108713 TTATACCAGTTAGATGAACA-GTTAAATACCATTGAGTAAAAGATGAAT
195 TTATACCAGTTAGATGAA-AGGTTAAATACCATTGAGTAAAAGATGAAT
* * * * * *
108761 GGCCTAGTTGTGTATTCGGTAGAAAGATATCAATTATGCCAGTTGGATGAATGGTTAAATACAGT
1 GGCCTAGTTGTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACGGTTAAATACAGT
* *
108826 TGAGTAAAAGAATAATGGTCTAGTTGTGCATTTGGCATAAAGGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAAAATAATGGTCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATG
* * ** * * * *
108891 AATGGGTAAATACCTTTGAGTAAAAGATGAATGGCCTAGTTATGCATTTGGGAGAAATGTGTCAA
131 AAAGGCTAAATACCTTTGAGTAAAAGAT-AATGGCCTAACTATGAATTTGGCAAAAATGTGCCAA
* * *
108956 TTATGCTAGTTAGATGAAAGGTTAAATACCGTTGAGTAAAAGATGAAT
195 TTATACCAGTTAGATGAAAGGTTAAATACCATTGAGTAAAAGATGAAT
* * **
109004 GGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACATTGT
1 GGCCTAGTTGTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACGGTTAAATACAGT
* * * *
109069 TGAGTAAAAAAATAATGGACTAGATGTGCATTTGACAGAAA-GTGTCAAATATG-CAGGTTAGAT
66 TGAGTAAAAAAATAATGGTCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCA-GTTAGAT
*
109132 GAAAGGCTAAATACCTTTGGGTAAAAGA
130 GAAAGGCTAAATACCTTTGAGTAAAAGA
109160 ATAAAAGAAT
Statistics
Matches: 349, Mismatches: 47, Indels: 7
0.87 0.12 0.02
Matches are distributed among these distances:
241 2 0.01
242 46 0.13
243 301 0.86
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (242 bp):
GGCCTAGTTGTGCATTTGGCAGAAAGATGTCAATTATGCCAGTTAGATGAACGGTTAAATACAGT
TGAGTAAAAAAATAATGGTCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATG
AAAGGCTAAATACCTTTGAGTAAAAGATAATGGCCTAACTATGAATTTGGCAAAAATGTGCCAAT
TATACCAGTTAGATGAAAGGTTAAATACCATTGAGTAAAAGATGAAT
Found at i:112768 original size:81 final size:79
Alignment explanation
Indices: 112672--113209 Score: 720
Period size: 81 Copynumber: 6.7 Consensus size: 79
112662 GTAAAGGGGG
112672 AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGATGAATGGCCTTA
1 AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATA-CGTTGAGTAAAAGAT-AATGGCC-TA
112737 -CTGTGCATTTGGCAGA
63 GCTGTGCATTTGGCAGA
*
112753 AAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACTGTTGAGTAAAAGAATAATGGCCTAG
1 AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATAC-GTTGAGTAAAAG-ATAATGGCCTAG
* *
112818 TTTTGCATTTGGCAGA
64 CTGTGCATTTGGCAGA
* * *
112834 AATGTGTCAATTATACTAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGAATAATGGCCTAG
1 AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATA-CGTTGAGTAAAAG-ATAATGGCCTAG
*
112899 CTGTGCATTTGACAGA
64 CTGTGCATTTGGCAGA
* * *
112915 AAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGACTAAAAGATGAATGGTCTAG
1 AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATA-CGTTGAGTAAAAGAT-AATGGCCTAG
*
112980 CTGTGTATTTGGCAGA
64 CTGTGCATTTGGCAGA
* *
112996 ACGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGCAAAAGATGAATGGCCTAG
1 AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATAC-GTTGAGTAAAAGAT-AATGGCCTAG
113061 CTGTGCATTTGGCAGA
64 CTGTGCATTTGGCAGA
* * * *
113077 AAGGTGTCAATTATGGCAATTAGATGAACGGTTAAACACTGTTGAGTAAAAGAATAATGGACTAG
1 AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATAC-GTTGAGTAAAAG-ATAATGGCCTAG
*
113142 CTGTGCATTTGACAGA
64 CTGTGCATTTGGCAGA
* * * * * *
113158 AA-GTGTCAAATATGCAAGTTAGATGAAAGGCTAAATACCTTTGGGTAAAAGA
1 AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATA-CGTTGAGTAAAAGA
113210 ATAAAGAAAT
Statistics
Matches: 408, Mismatches: 41, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
79 1 0.00
80 44 0.11
81 358 0.88
82 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (79 bp):
AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACGTTGAGTAAAAGATAATGGCCTAGCT
GTGCATTTGGCAGA
Found at i:113102 original size:243 final size:243
Alignment explanation
Indices: 112672--113184 Score: 802
Period size: 243 Copynumber: 2.1 Consensus size: 243
112662 GTAAAGGGGG
* * *
112672 AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATATCGTTGAGTAAAAGATGAATGGCCTTA
1 AAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGACTAAAAGATGAATGGCCTTA
*
112737 CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACTGTTGAGTAA
66 CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACTGTTGAGCAA
* * * *
112802 AAGAATAATGGCCTAGTTTTGCATTTGGCAGAAATGTGTCAATTATACTAGTTAGATGAACGGTT
131 AAGAATAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATACTAATTAGATGAACGGTT
* *
112867 AAATA-TCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGA
196 AAACACT-GTTGAGTAAAAGAATAATGGACTAGCTGTGCATTTGACAGA
*
112915 AAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGACTAAAAGATGAATGGTC-TA
1 AAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGACTAAAAGATGAATGGCCTTA
* * *
112979 GCTGTGTATTTGGCAGAACGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGCA
66 -CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACTGTTGAGCA
*
113044 AAAG-ATGAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATGGC-AATTAGATGAACG
130 AAAGAAT-AATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTAT-ACTAATTAGATGAACG
113107 GTTAAACACTGTTGAGTAAAAGAATAATGGACTAGCTGTGCATTTGACAGA
193 GTTAAACACTGTTGAGTAAAAGAATAATGGACTAGCTGTGCATTTGACAGA
* *
113158 AA-GTGTCAAATATGCAAGTTAGATGAA
1 AAGGTGTCAATTATGCCAGTTAGATGAA
113185 AGGCTAAATA
Statistics
Matches: 249, Mismatches: 17, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
242 27 0.11
243 220 0.88
244 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (243 bp):
AAGGTGTCAATTATGCCAGTTAGATGAACGATTAAATACCGTTGACTAAAAGATGAATGGCCTTA
CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACTGTTGAGCAA
AAGAATAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATTATACTAATTAGATGAACGGTT
AAACACTGTTGAGTAAAAGAATAATGGACTAGCTGTGCATTTGACAGA
Found at i:115309 original size:10 final size:10
Alignment explanation
Indices: 115294--115319 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
115284 ATCTCATAAA
115294 ATTTTTATTT
1 ATTTTTATTT
115304 ATTTTTATTT
1 ATTTTTATTT
115314 ATTTTT
1 ATTTTT
115320 CCAAGAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:117305 original size:11 final size:12
Alignment explanation
Indices: 117289--117318 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
117279 TATACAAATG
117289 CCTAACTC-TCA
1 CCTAACTCTTCA
117300 CCTAACTCTTCA
1 CCTAACTCTTCA
117312 CCTAACT
1 CCTAACT
117319 AAATTAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.27, C:0.43, G:0.00, T:0.30
Consensus pattern (12 bp):
CCTAACTCTTCA
Found at i:120741 original size:24 final size:24
Alignment explanation
Indices: 120709--120794 Score: 127
Period size: 24 Copynumber: 3.6 Consensus size: 24
120699 GTAATTACAG
120709 CCTCGTCCATGACCGCGACTTCCA
1 CCTCGTCCATGACCGCGACTTCCA
* *
120733 CCTCGTCCAAGACCGCGACTTTCA
1 CCTCGTCCATGACCGCGACTTCCA
* *
120757 CCTCGTCCACGACTGCGACTTCCA
1 CCTCGTCCATGACCGCGACTTCCA
*
120781 CCTTGTCCATGACC
1 CCTCGTCCATGACC
120795 TCTACCTCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.17, C:0.44, G:0.16, T:0.22
Consensus pattern (24 bp):
CCTCGTCCATGACCGCGACTTCCA
Found at i:122053 original size:12 final size:12
Alignment explanation
Indices: 122019--122072 Score: 76
Period size: 12 Copynumber: 4.7 Consensus size: 12
122009 ATATACAAAT
122019 ACCTAACTC-TC
1 ACCTAACTCTTC
122030 A-CTAACTCTTC
1 ACCTAACTCTTC
* *
122041 ACTTAATTCTTC
1 ACCTAACTCTTC
122053 ACCTAACTCTTC
1 ACCTAACTCTTC
122065 ACCTAACT
1 ACCTAACT
122073 AAATTGATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 7 0.19
11 4 0.11
12 26 0.70
ACGTcount: A:0.28, C:0.37, G:0.00, T:0.35
Consensus pattern (12 bp):
ACCTAACTCTTC
Found at i:124585 original size:36 final size:36
Alignment explanation
Indices: 124497--124603 Score: 189
Period size: 35 Copynumber: 3.0 Consensus size: 36
124487 TTTGTTGATA
124497 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
1 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
124533 ATGCT-AAATTAGGTTATCCCACTAGTATTAGAAAT
1 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
* *
124568 ATGCTCAAATTAGGTTATCCCATTAGTATTGGAAAT
1 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
124604 GATGATTTTA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
35 35 0.51
36 33 0.49
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (36 bp):
ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
Found at i:126158 original size:19 final size:19
Alignment explanation
Indices: 126131--126169 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
126121 TTCAGTCTTG
*
126131 AATAGTAAGTTGAAAATAA
1 AATAATAAGTTGAAAATAA
126150 AATAATAAGTTGAAAATAA
1 AATAATAAGTTGAAAATAA
126169 A
1 A
126170 TGTCAGCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (19 bp):
AATAATAAGTTGAAAATAA
Found at i:129276 original size:31 final size:31
Alignment explanation
Indices: 129238--129329 Score: 166
Period size: 31 Copynumber: 3.0 Consensus size: 31
129228 CAAGAGTTTG
129238 GGAGTTCCTAGTGAGAATGACATATTGAATA
1 GGAGTTCCTAGTGAGAATGACATATTGAATA
* *
129269 GGAGTTCCTAGTGAGAAGGACATATTGAATG
1 GGAGTTCCTAGTGAGAATGACATATTGAATA
129300 GGAGTTCCTAGTGAGAATGACATATTGAAT
1 GGAGTTCCTAGTGAGAATGACATATTGAAT
129330 TCACCGAATT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 58 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (31 bp):
GGAGTTCCTAGTGAGAATGACATATTGAATA
Found at i:129920 original size:34 final size:36
Alignment explanation
Indices: 129876--129980 Score: 171
Period size: 35 Copynumber: 3.0 Consensus size: 36
129866 GGGAATGTTA
129876 ATGCTCAAATTAGGTTAT-CCACTAGTATTAGAAAT
1 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
129911 ATGCT-AAATTAGGTTATCCCACTAGTA-TAGAAAT
1 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
* *
129945 ATGCTCAAATTAGGTTATCCCATTAGTATTGGAAAT
1 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
129981 GACTATTTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
34 24 0.37
35 35 0.54
36 6 0.09
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (36 bp):
ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
Done.