Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 35 of 325
Found at i:8493436 original size:110 final size:110
Alignment explanation
Indices: 8493268--8493470 Score: 343
Period size: 110 Copynumber: 1.8 Consensus size: 110
8493258 GTCCTTCGCC
* * *
8493268 GTGTGGAAACAGGGCTGAAATTTCCCAAAAATCGACATGCACATAGCCTGCGATAAATCCACACG
1 GTGTGGAAACAGGGCTAAAATTTCCCAAAAATCGACATGCACACAGCCTACGATAAATCCACACG
*
8493333 GCCGTGGGAAGCACACGGCCTGGACATATGGGCGTGTCTTTGGCT
66 GCCGTGGGAAGCACACGGCCTAGACATATGGGCGTGTCTTTGGCT
** *
8493378 GTGTGGAAGTAGGGCTAAAATTTCCCAAAAATCGACATGCACACAGCCTACGATAAATCCACATG
1 GTGTGGAAACAGGGCTAAAATTTCCCAAAAATCGACATGCACACAGCCTACGATAAATCCACACG
8493443 GCCGTGGGAAGCACACGGCCTAGACATA
66 GCCGTGGGAAGCACACGGCCTAGACATA
8493471 CGGACCTGTC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 86 1.00
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.19
Consensus pattern (110 bp):
GTGTGGAAACAGGGCTAAAATTTCCCAAAAATCGACATGCACACAGCCTACGATAAATCCACACG
GCCGTGGGAAGCACACGGCCTAGACATATGGGCGTGTCTTTGGCT
Found at i:8493510 original size:110 final size:110
Alignment explanation
Indices: 8493265--8493496 Score: 313
Period size: 110 Copynumber: 2.1 Consensus size: 110
8493255 AGTGTCCTTC
* * * *
8493265 GCCGTGTGGAAAC-AGGGCTGAAATTTCCCAAAAATCGACATGCACATAGCCTGCGATAAATCCA
1 GCCGTGT-AAAACTAGGGCTAAAATTTCCCAAAAATCGACATGCACACAGCCTACGATAAATCCA
* * * * * *
8493329 CACGGCCGTGGGAAGCACACGGCCTGGACATATGGGCGTGTCTTTG
65 CACGGCCGTGGGAAGCACACGGCCTAGACATACGGACCTGTCCTAG
* ** *
8493375 GCTGTGTGGAAGTAGGGCTAAAATTTCCCAAAAATCGACATGCACACAGCCTACGATAAATCCAC
1 GCCGTGTAAAACTAGGGCTAAAATTTCCCAAAAATCGACATGCACACAGCCTACGATAAATCCAC
*
8493440 ATGGCCGTGGGAAGCACACGGCCTAGACATACGGACCTGTCCTAG
66 ACGGCCGTGGGAAGCACACGGCCTAGACATACGGACCTGTCCTAG
8493485 GCCGTGTAAAAC
1 GCCGTGTAAAAC
8493497 CTGGAGCTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
109 3 0.03
110 101 0.97
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (110 bp):
GCCGTGTAAAACTAGGGCTAAAATTTCCCAAAAATCGACATGCACACAGCCTACGATAAATCCAC
ACGGCCGTGGGAAGCACACGGCCTAGACATACGGACCTGTCCTAG
Found at i:8493948 original size:18 final size:18
Alignment explanation
Indices: 8493938--8493977 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
8493928 CTTCTTTCTT
8493938 TTCCTCATCTTTCCCTTC
1 TTCCTCATCTTTCCCTTC
8493956 TTCCTCATCTTTCCCTTC
1 TTCCTCATCTTTCCCTTC
8493974 TTCC
1 TTCC
8493978 CCTACGACGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.45, G:0.00, T:0.50
Consensus pattern (18 bp):
TTCCTCATCTTTCCCTTC
Found at i:8493950 original size:15 final size:16
Alignment explanation
Indices: 8493930--8493968 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
8493920 CCTATTTTCT
8493930 TCTTTCTT-TTCCTCA
1 TCTTTCTTCTTCCTCA
8493945 TCTTTCCCTTCTTCCTCA
1 TCTTT--CTTCTTCCTCA
8493963 TCTTTC
1 TCTTTC
8493969 CCTTCTTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.24
16 1 0.05
17 3 0.14
18 12 0.57
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (16 bp):
TCTTTCTTCTTCCTCA
Found at i:8495841 original size:12 final size:12
Alignment explanation
Indices: 8495826--8495851 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8495816 TTATTACTAC
8495826 TTTTATTTTTAA
1 TTTTATTTTTAA
8495838 TTTTATTTTTAA
1 TTTTATTTTTAA
8495850 TT
1 TT
8495852 CTCTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTTTTAA
Found at i:8500389 original size:18 final size:18
Alignment explanation
Indices: 8500363--8500397 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8500353 TCACACAAGT
8500363 TTCAAAGAATTCGCAACC
1 TTCAAAGAATTCGCAACC
*
8500381 TTCAGAGAATTCGCAAC
1 TTCAAAGAATTCGCAAC
8500398 ACATGTTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (18 bp):
TTCAAAGAATTCGCAACC
Found at i:8503651 original size:44 final size:47
Alignment explanation
Indices: 8503595--8503718 Score: 159
Period size: 44 Copynumber: 2.7 Consensus size: 47
8503585 ATTTATACGT
*
8503595 GCTGATGCATGTCCCAGACATGTCTTACACTAGC--ACGAA-A-CTTA-
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTAAC-AACATC-GAG
* * *
8503639 GCTGATGCATGTCCCAGACACGTCTTACACTGGCTAACATCATCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTAACAACATCGAG
8503686 GCTGATGCATGTCCCAGACATGTCTTACACTAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAG
8503719 TACTCACCTC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
44 32 0.46
45 1 0.01
46 4 0.06
47 32 0.46
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (47 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTAACAACATCGAG
Found at i:8503744 original size:47 final size:46
Alignment explanation
Indices: 8503553--8503812 Score: 178
Period size: 47 Copynumber: 5.6 Consensus size: 46
8503543 AGGCCGATAC
* * *
8503553 CATGTCCTAGACATGGTCTTACACTAGCT-CTCATTTATACGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTACTCA-CTCTA-GT-CTGATG
**
8503602 CATGTCCCAGACATGTCTTACACTAGC-ACGAAACT-TAG-CTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTAC-TCACTCTAGTCTGATG
* * * *
8503646 CATGTCCCAGACACGTCTTACACTGGCTAACATCA-TCGAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-AC-TCACTCTAGTCTGATG
8503693 CATGTCCCAGACATGTCTTACACTAG-TACTCACCTCTACGTC-GATG
1 CATGTCCCAGACATGTCTTACACTAGCTACTCA-CTCTA-GTCTGATG
* * ** * * *
8503739 CCATGTCCCAGACGTGGTTTTACACGGGCTA-TCA-TGATGCGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTACTCACT-CT-AGTCTGATG
* *
8503787 CATGTCCCAGGCATTTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
8503813 TCCTCGTCTC
Statistics
Matches: 169, Mismatches: 27, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
44 34 0.20
45 3 0.02
46 23 0.14
47 62 0.37
48 31 0.18
49 16 0.09
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTACTCACTCTAGTCTGATG
Found at i:8503806 original size:94 final size:92
Alignment explanation
Indices: 8503595--8503854 Score: 283
Period size: 94 Copynumber: 2.8 Consensus size: 92
8503585 ATTTATACGT
* **
8503595 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACGAAACT-TAGCTGATG-CATGTCCCAGAC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGTACTCAACTCTAGC-GATGCCATGTCCCAGAC
** *
8503658 ACGTCTTACACTGGCTAACATCATCGAG
65 TGGTCTTACACGGGCTAACATCATCGAG
*
8503686 GCTGATGCATGTCCCAGACATGTCTTACACTAGTACTCACCTCTACGTCGATGCCATGTCCCAGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGTACTCAACTCTA-G-CGATGCCATGTCCCAGA
* * * *
8503751 CGTGGTTTTACACGGGCTATCATGAT-GCG
64 C-TGGTCTTACACGGGCTAACATCATCGAG
* * * ** *
8503780 GCTGATGCATGTCCCAGGCATTTCTTACACTAGTCCTCGTCTCAATGCCGATGCCATGTCCCAGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGTACTCAACTCTA-G-CGATGCCATGTCCCAGA
8503845 CATGGTCTTA
64 C-TGGTCTTA
8503855 TACTGGCTCT
Statistics
Matches: 143, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
91 38 0.27
92 2 0.01
93 5 0.03
94 80 0.56
95 18 0.13
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (92 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGTACTCAACTCTAGCGATGCCATGTCCCAGACT
GGTCTTACACGGGCTAACATCATCGAG
Found at i:8521713 original size:3 final size:3
Alignment explanation
Indices: 8521705--8521741 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8521695 GTATTAAAAG
8521705 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8521742 ACCGGAGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8527216 original size:21 final size:21
Alignment explanation
Indices: 8527190--8527230 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8527180 GAAAATAATT
*
8527190 ATTTTAGCTTGATC-CATGACG
1 ATTTTACCTTGA-CACATGACG
8527211 ATTTTACCTTGACACATGAC
1 ATTTTACCTTGACACATGAC
8527231 ACTTTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (21 bp):
ATTTTACCTTGACACATGACG
Found at i:8528298 original size:124 final size:122
Alignment explanation
Indices: 8528087--8528342 Score: 388
Period size: 124 Copynumber: 2.1 Consensus size: 122
8528077 GTATCCTTTC
*
8528087 ATAGGCATTACATTGTTGATGAAAAAAGTAACGTGACCACAAGTAATTTGTCTAGAACAAATGAT
1 ATAGG-ATTACATGGTTGATGAAAAAAGTAACGTGACCACAAGTAATTTGTCTAGAACAAATGAT
*
8528152 TTAATTACGATTTGTTAATAATTGACATTTTCATAAAAGAAGATGTAATGGTTAATATGAG
65 TTAATTACGATTTGTTAATAATTGACATTTTCAT--AA-AAGATGTAATGGTTAACATGAG
* * * * *
8528213 ATAGGATTACATGGTTGATG-GAAAAGTAACGTGACCACAGGTCATTTGTCTAGGACAACTGATT
1 ATAGGATTACATGGTTGATGAAAAAAGTAACGTGACCACAAGTAATTTGTCTAGAACAAATGATT
* *
8528277 TAATTACTATTTGTTAGTAATTGACATTTTCATAAAAGATGTAATGGTTAACATGAG
66 TAATTACGATTTGTTAATAATTGACATTTTCATAAAAGATGTAATGGTTAACATGAG
8528334 ATAGGATTA
1 ATAGGATTA
8528343 TATTGGGTGA
Statistics
Matches: 121, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
121 30 0.25
122 2 0.02
124 70 0.58
125 14 0.12
126 5 0.04
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (122 bp):
ATAGGATTACATGGTTGATGAAAAAAGTAACGTGACCACAAGTAATTTGTCTAGAACAAATGATT
TAATTACGATTTGTTAATAATTGACATTTTCATAAAAGATGTAATGGTTAACATGAG
Found at i:8530034 original size:21 final size:22
Alignment explanation
Indices: 8530010--8530056 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
8530000 ATGAGTTTTT
8530010 TTTTGTTGAAA-TTGTTTATT-G
1 TTTTGTT-AAAGTTGTTTATTGG
*
8530031 TTTTGTTAAAGTTGTTTGTTGG
1 TTTTGTTAAAGTTGTTTATTGG
8530053 TTTT
1 TTTT
8530057 TTATGGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 3 0.13
21 15 0.65
22 5 0.22
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (22 bp):
TTTTGTTAAAGTTGTTTATTGG
Found at i:8530928 original size:51 final size:51
Alignment explanation
Indices: 8530856--8530957 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
8530846 CTTAACGGGA
*
8530856 GAGTGGTTTAGAGTAAAGTATAAGA-TCAAGGTTATGACTTGGTGAGTGAGT
1 GAGTGGTTTAGAGTAAAGTATAAGAGT-AAGGTTACGACTTGGTGAGTGAGT
* **
8530907 GAGTGGTTTAGAGTAAAGTATAATAGTGGGGTTACGACTTGGTGAGTGAGT
1 GAGTGGTTTAGAGTAAAGTATAAGAGTAAGGTTACGACTTGGTGAGTGAGT
8530958 CAAACTCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 45 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.35, T:0.31
Consensus pattern (51 bp):
GAGTGGTTTAGAGTAAAGTATAAGAGTAAGGTTACGACTTGGTGAGTGAGT
Found at i:8531507 original size:20 final size:20
Alignment explanation
Indices: 8531456--8531507 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
8531446 AGATAGGGCC
* *
8531456 ACATGCCCGTGTGGCTTGGG
1 ACATGCCCGTGTGGCCTGGA
*
8531476 ACACGCCCGTGTGGCCTGGA
1 ACATGCCCGTGTGGCCTGGA
*
8531496 ACATGCCTGTGT
1 ACATGCCCGTGT
8531508 ACTGCAGCCG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.13, C:0.29, G:0.35, T:0.23
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTGGA
Found at i:8531725 original size:17 final size:18
Alignment explanation
Indices: 8531700--8531733 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8531690 TGTACCTAAA
*
8531700 AATTTTTTC-AACCAAAC
1 AATTATTTCAAACCAAAC
8531717 AATTATTTCAAACCAAA
1 AATTATTTCAAACCAAA
8531734 ACATGTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTATTTCAAACCAAAC
Found at i:8534747 original size:20 final size:20
Alignment explanation
Indices: 8534704--8534748 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
8534694 CAAGGGGCAA
*
8534704 GTATCGATACTAAATCATAAG
1 GTATCGATACTAAA-CACAAG
8534725 GTATCGATACCTAAA-ACAAG
1 GTATCGATA-CTAAACACAAG
8534745 GTAT
1 GTAT
8534749 TTGTACCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (20 bp):
GTATCGATACTAAACACAAG
Found at i:8539732 original size:29 final size:30
Alignment explanation
Indices: 8539681--8539847 Score: 110
Period size: 29 Copynumber: 5.6 Consensus size: 30
8539671 CAGAGATAAT
* * *
8539681 CACAAAGGC-TTTCGTGTCTAGAGTTTTGC
1 CACAAAGGCATTTCCTTTCCAGAGTTTTGC
* * *
8539710 CACAGAGGCATTTCCTTT-CAGAGATTCGC
1 CACAAAGGCATTTCCTTTCCAGAGTTTTGC
* * * *
8539739 CGCATAGGC-TTACCTTTCCTGAGTTTTGC
1 CACAAAGGCATTTCCTTTCCAGAGTTTTGC
** * * *
8539768 CACAAAGGCA-TTCCTTAACATTTAGTACTCGC
1 CACAAAGGCATTTCCTTTCCA--GAGT-TTTGC
**
8539800 CACAAAGGC-TTTCCTTTCCAGAGTTTTTT
1 CACAAAGGCATTTCCTTTCCAGAGTTTTGC
*
8539829 CATAAAGGCATTTCCTTTC
1 CACAAAGGCATTTCCTTTC
8539848 GAAGGTTCGC
Statistics
Matches: 101, Mismatches: 29, Indels: 15
0.70 0.20 0.10
Matches are distributed among these distances:
28 7 0.07
29 53 0.52
30 18 0.18
31 3 0.03
32 20 0.20
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (30 bp):
CACAAAGGCATTTCCTTTCCAGAGTTTTGC
Found at i:8539770 original size:58 final size:58
Alignment explanation
Indices: 8539701--8539884 Score: 192
Period size: 58 Copynumber: 3.1 Consensus size: 58
8539691 TTCGTGTCTA
* *
8539701 GAGTTTTGCCACAGAGGCATTTCCTTTCAGAGATTCGCCGCATAGGCTTACCTTTCCT
1 GAGTTTTGCCACAAAGGCATTTCCTTTCAGAGATTCGCCACATAGGCTTACCTTTCCT
* * * * * *
8539759 GAGTTTTGCCACAAAGGCA-TTCCTTAACATTTAGTACTCGCCACAAAGGCTTTCCTTTCCA
1 GAGTTTTGCCACAAAGGCATTTCCTT-TCA--GAG-ATTCGCCACATAGGCTTACCTTTCCT
** * * *
8539820 GAGTTTTTTCATAAAGGCATTTCCTTTC-GAAGGTTCGCCACATAGGCTTACCTTTTCT
1 GAGTTTTGCCACAAAGGCATTTCCTTTCAG-AGATTCGCCACATAGGCTTACCTTTCCT
8539878 GAGTTTT
1 GAGTTTT
8539885 TCGAAGGCGT
Statistics
Matches: 101, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
57 6 0.06
58 47 0.47
59 2 0.02
60 2 0.02
61 38 0.38
62 6 0.06
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (58 bp):
GAGTTTTGCCACAAAGGCATTTCCTTTCAGAGATTCGCCACATAGGCTTACCTTTCCT
Found at i:8544924 original size:28 final size:29
Alignment explanation
Indices: 8544875--8544938 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
8544865 CTCCCTTAGC
* *
8544875 AAAAAATCTATTTATGTTGAAGAGAAGAA
1 AAAAAAACTATTTATGTAGAAGAGAAGAA
* * *
8544904 AAAAAAACTGTTTA-GTAGAAGGGGAGAA
1 AAAAAAACTATTTATGTAGAAGAGAAGAA
8544932 AAAAAAA
1 AAAAAAA
8544939 GAGTTAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.56, C:0.03, G:0.20, T:0.20
Consensus pattern (29 bp):
AAAAAAACTATTTATGTAGAAGAGAAGAA
Found at i:8545238 original size:21 final size:21
Alignment explanation
Indices: 8545214--8545259 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8545204 TTTTGTTGCT
* **
8545214 ATATTTTTTTAATATGAGCTA
1 ATATTTTTGTAATAAAAGCTA
8545235 ATATTTTTGTAATAAAAGCTA
1 ATATTTTTGTAATAAAAGCTA
8545256 ATAT
1 ATAT
8545260 ATATTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (21 bp):
ATATTTTTGTAATAAAAGCTA
Found at i:8546813 original size:190 final size:190
Alignment explanation
Indices: 8546449--8546813 Score: 478
Period size: 190 Copynumber: 1.9 Consensus size: 190
8546439 ATAACTACAT
* * * **** *
8546449 CATGCCACTGGTGAAAGACATGCCCACCATTCCTGTATCAGTCTTGATTGTTGACATGCAAGTCT
1 CATGCCACTAGTGAAAGACATGCCCACCATTCCTATATCAGTATTGATTACCAACATGCAAGCCT
* * * * * *
8546514 GGTTTTAGTACAGAGTGTCATATAGGAAAGCATGGTGGTCTAAACAGATTGCGATGGAATAGTTT
66 GATTTCAATACAGAGTGTCATATAGGAAAGCATGGTGGGCTAAACAGATTGCGATGGAACAGTTG
* ** ** * *
8546579 TATGGAGAATGGTATGCATTGTACAATGAATTTTAGGAGTGGTTATTCACGATGCAAAAG
131 TATGGAGAATGGGATGCATCATACAACAAACTTCAGGAGTGGTTATTCACGATGCAAAAG
* * *
8546639 CATGCCATTAGTGAAAGACATGCCCACCATTCCTATATCGGTATTGATTACCAATATGCAAGCCT
1 CATGCCACTAGTGAAAGACATGCCCACCATTCCTATATCAGTATTGATTACCAACATGCAAGCCT
*
8546704 GATTTCAATACAGAGTGTCATATAGGGAAGCATGGTGGGCTAAACAGATTGCGATGGAACAGTTG
66 GATTTCAATACAGAGTGTCATATAGGAAAGCATGGTGGGCTAAACAGATTGCGATGGAACAGTTG
* * *
8546769 TATGGATATTGGGATGCATCATACAACAAACTTCAGGGGTGGTTA
131 TATGGAGAATGGGATGCATCATACAACAAACTTCAGGAGTGGTTA
8546814 GTCGCAATGT
Statistics
Matches: 147, Mismatches: 28, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
190 147 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (190 bp):
CATGCCACTAGTGAAAGACATGCCCACCATTCCTATATCAGTATTGATTACCAACATGCAAGCCT
GATTTCAATACAGAGTGTCATATAGGAAAGCATGGTGGGCTAAACAGATTGCGATGGAACAGTTG
TATGGAGAATGGGATGCATCATACAACAAACTTCAGGAGTGGTTATTCACGATGCAAAAG
Found at i:8548480 original size:16 final size:16
Alignment explanation
Indices: 8548459--8548497 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
8548449 AAAGGAGGAG
8548459 CATGCATTGGGACGTT
1 CATGCATTGGGACGTT
8548475 CATGCATTGGGACGTT
1 CATGCATTGGGACGTT
8548491 CATGCAT
1 CATGCAT
8548498 GAAGGAGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (16 bp):
CATGCATTGGGACGTT
Found at i:8550318 original size:2 final size:2
Alignment explanation
Indices: 8550311--8550344 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
8550301 ATCTTTATTA
8550311 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8550345 AACACAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8550647 original size:121 final size:125
Alignment explanation
Indices: 8550425--8550663 Score: 351
Period size: 121 Copynumber: 1.9 Consensus size: 125
8550415 TAATTTTTAT
8550425 AATCTTAAAAATTAAATGTAAAATATTATAATATACAAATTATTATTACAAACTAAAAAAAACAA
1 AATCTTAAAAATTAAATGTAAAATATTATAATATACAAATTATTATTACAAACT-AAAAAAACAA
* *
8550490 TACATTAAAACTATCCTAATCTATCCCTACAACTTAAACATAAATATAATCTTAAAGATTA
65 TACATTAAAACTATCCTAATATATCCCTACAACTTAAACACAAATATAATCTTAAAGATTA
* * *
8550551 AATC-TAAATATTATATGTAAAATATTATAATA-A-AAATTATTATTACAAACT-AAAAAACCAT
1 AATCTTAAAAATTAAATGTAAAATATTATAATATACAAATTATTATTACAAACTAAAAAAACAAT
* ** * *
8550612 ACATTAGAACTATTTTAATATATCCCTACACCTTAAACACCAATATAATCTT
66 ACATTAAAACTATCCTAATATATCCCTACAACTTAAACACAAATATAATCTT
8550664 TACAAACAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
121 54 0.52
123 18 0.17
124 1 0.01
125 26 0.25
126 4 0.04
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (125 bp):
AATCTTAAAAATTAAATGTAAAATATTATAATATACAAATTATTATTACAAACTAAAAAAACAAT
ACATTAAAACTATCCTAATATATCCCTACAACTTAAACACAAATATAATCTTAAAGATTA
Found at i:8550738 original size:17 final size:17
Alignment explanation
Indices: 8550718--8550755 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8550708 AATAATTTAA
*
8550718 AATATAAACATT-TATAT
1 AATATAAAAATTAT-TAT
8550735 AATATAAAAATTATTAT
1 AATATAAAAATTATTAT
8550752 AATA
1 AATA
8550756 AACAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AATATAAAAATTATTAT
Found at i:8552369 original size:16 final size:17
Alignment explanation
Indices: 8552350--8552397 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
8552340 TACTTTATAA
8552350 TTTTAAAATTTTTTA-T
1 TTTTAAAATTTTTTACT
8552366 TTTTAAAATTTTTATACT
1 TTTTAAAATTTTT-TACT
*
8552384 TTTT-GAATTTTTTA
1 TTTTAAAATTTTTTA
8552398 AGAAATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 15 0.52
17 9 0.31
18 5 0.17
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTAAAATTTTTTACT
Found at i:8553621 original size:249 final size:249
Alignment explanation
Indices: 8553183--8553673 Score: 919
Period size: 249 Copynumber: 2.0 Consensus size: 249
8553173 GTTCTCCCAC
*
8553183 CATGCTAATTTCAAATTTCTATTGCATCACCTTCATAAAACCATCTTTTGCTTGTAAAGAAATAG
1 CATGCTAATTTCAAATTTCTATTGCATCACCTTCATAAAACCATCTTTTACTTGTAAAGAAATAG
8553248 AACTAAAGATGATGTCATCTACACAAATTTGAGCAATGGTATGTTCAATCTCTTAAAATGTAACA
66 AACTAAAGATGATGTCATCTACACAAATTTGAGCAATGGTATGTTCAATCTCTTAAAATGTAACA
*
8553313 GATACTTTTAAAAATATCAAAGTATTTGATAGCAAGCTTCATTCTTCTCCATATATCGTAGGGTG
131 GATACTTTTAAAAATATCAAAGTATTTGATAGCAAGCTTCATTCTTCTCCATATATCGTAGGGCG
8553378 TTATCCTTGTTTTGGCTTAAAGAGAGTTTGTTAATGCCATGAACATAAAACCAT
196 TTATCCTTGTTTTGGCTTAAAGAGAGTTTGTTAATGCCATGAACATAAAACCAT
*
8553432 CATGCTAATTTCAAATTTCTATTGCATCACCTTCATAAAACCATCTTTTACTTGTAAATAAATAG
1 CATGCTAATTTCAAATTTCTATTGCATCACCTTCATAAAACCATCTTTTACTTGTAAAGAAATAG
* * *
8553497 AACTAAATATGATGTCATCTACATAAATTTGAGCAATGGTATGTTCAATCTCTTAGAATGTAACA
66 AACTAAAGATGATGTCATCTACACAAATTTGAGCAATGGTATGTTCAATCTCTTAAAATGTAACA
8553562 GATACTTTTAAAAATATCAAAGTATTTGATAGCAAGCTTCATTCTTCTCCATATATCGTAGGGCG
131 GATACTTTTAAAAATATCAAAGTATTTGATAGCAAGCTTCATTCTTCTCCATATATCGTAGGGCG
*
8553627 TTATCCTTGTTTTGGCTTCAAGAGAGTTTGTTAATGCCATGAACATA
196 TTATCCTTGTTTTGGCTTAAAGAGAGTTTGTTAATGCCATGAACATA
8553674 TGTATTGATT
Statistics
Matches: 235, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
249 235 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (249 bp):
CATGCTAATTTCAAATTTCTATTGCATCACCTTCATAAAACCATCTTTTACTTGTAAAGAAATAG
AACTAAAGATGATGTCATCTACACAAATTTGAGCAATGGTATGTTCAATCTCTTAAAATGTAACA
GATACTTTTAAAAATATCAAAGTATTTGATAGCAAGCTTCATTCTTCTCCATATATCGTAGGGCG
TTATCCTTGTTTTGGCTTAAAGAGAGTTTGTTAATGCCATGAACATAAAACCAT
Found at i:8558319 original size:14 final size:15
Alignment explanation
Indices: 8558300--8558329 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8558290 GTTTATTATA
8558300 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
8558314 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
8558329 T
1 T
8558330 CTAAATTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:8559974 original size:29 final size:29
Alignment explanation
Indices: 8559941--8559998 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
8559931 TAATTAAGAA
8559941 GATGTTTGACTGTATATATATACATATGT
1 GATGTTTGACTGTATATATATACATATGT
*
8559970 GATGTTTGATTGTATATATATACATATGT
1 GATGTTTGACTGTATATATATACATATGT
8559999 TCCTTGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.47
Consensus pattern (29 bp):
GATGTTTGACTGTATATATATACATATGT
Found at i:8563733 original size:175 final size:175
Alignment explanation
Indices: 8563353--8563735 Score: 615
Period size: 175 Copynumber: 2.2 Consensus size: 175
8563343 GTAAACACGT
* * * *
8563353 GAAAGCCAAATCTGCTGTGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAAAATGCCAAATCATCTTGG
* * *
8563418 ATCTGCTCCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
66 ATCTGCTCCAGTAAAATCATCTAAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAG
*
8563483 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATCC
*
8563528 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTTCTTGTAAACACAAAAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAAAATGCCAAATCATCTTGG
* *
8563593 ATCTGCTTCAGTATAAAT-ATCTAAAGGTTAGACCTGCTATGTACCTGCTCTTCGTCGAAATGGA
66 ATCTGCTCCAGTA-AAATCATCTAAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGA
* * *
8563657 GATGCCAGGTTTGTTATCTTGGATCTGTTTTGATGTGAGAACATCC
130 GATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATCC
*
8563703 GAAAGTCAGATCTGCTATGTCTTCGATTTGTTC
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTC
8563736 TCCGTCGAAG
Statistics
Matches: 191, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
175 187 0.98
176 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAAAATGCCAAATCATCTTGG
ATCTGCTCCAGTAAAATCATCTAAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGATGTGAGAACATCC
Found at i:8569456 original size:18 final size:18
Alignment explanation
Indices: 8569435--8569717 Score: 144
Period size: 18 Copynumber: 15.3 Consensus size: 18
8569425 GAACAATTAT
*
8569435 TTATTCAGTAACAGTTAG
1 TTATTCAGTAACAGTCAG
* * *
8569453 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * *
8569471 TTATTCAATAATAGCCAG
1 TTATTCAGTAACAGTCAG
*
8569489 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* * *
8569515 TTATCCAGTAACAGTTAA
1 TTATTCAGTAACAGTCAG
*
8569533 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
8569550 ATATTCAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
8569569 TTATTCAGTAACAGTCA-
1 TTATTCAGTAACAGTCAG
* * *
8569586 TTCATTCAGTGACAATCAC
1 TT-ATTCAGTAACAGTCAG
* *
8569605 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
8569623 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
*
8569641 TTATTTAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* *
8569659 ATATCCAGTAACAGTCAAG
1 TTATTCAGTAACAGTC-AG
* * *
8569678 -TATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
8569695 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
8569713 TTATT
1 TTATT
8569718 TTATACCTTT
Statistics
Matches: 197, Mismatches: 51, Indels: 34
0.70 0.18 0.12
Matches are distributed among these distances:
17 16 0.08
18 145 0.74
19 19 0.10
21 2 0.01
22 1 0.01
23 2 0.01
25 1 0.01
26 11 0.06
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:8569475 original size:36 final size:36
Alignment explanation
Indices: 8569422--8569705 Score: 159
Period size: 36 Copynumber: 7.7 Consensus size: 36
8569412 TTATTAACAA
* *
8569422 TCAG-AACAATTATTTATTCAGTAACAGTTAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTTAGTTAT
* * * **
8569457 TCGGTAACAATCAATTATTCAATAATAGCCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTTAGTTAT
* * *
8569493 TCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTTAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAGTTAGTTAT
*
8569537 TCAGTAA-AATCAGA-TATTCAGTAACAATTAAGTTAT
1 TCAGTAACAATCA-ATTATTCAGTAACAGTT-AGTTAT
* * * * *
8569573 TCAGTAACAGTC-ATTCATTCAGTGACAATCACTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAGTTAGTTAT
** *
8569609 TCAGTAATGATCAATTATTCAGTAATA-TTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTT-AGTTAT
* * * *
8569645 TTAGTAACAGTCTAA-TATCCAGTAACAGTCAAG-TAT
1 TCAGTAACAATC-AATTATTCAGTAACAGT-TAGTTAT
* * *
8569681 CCGGTAACAGTCAATTATTCAGTAA
1 TCAGTAACAATCAATTATTCAGTAA
8569706 TAATCAGTTA
Statistics
Matches: 188, Mismatches: 41, Indels: 39
0.70 0.15 0.15
Matches are distributed among these distances:
35 17 0.09
36 119 0.63
37 25 0.13
42 2 0.01
43 6 0.03
44 19 0.10
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAGTTAGTTAT
Found at i:8569556 original size:17 final size:19
Alignment explanation
Indices: 8569520--8569581 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
8569510 ATCGGTTATC
* *
8569520 CAGTAACAGTTAA-TTATT
1 CAGTAACAATTAAGATATT
*
8569538 CAGTAA-AA-TCAGATATT
1 CAGTAACAATTAAGATATT
*
8569555 CAGTAACAATTAAGTTATT
1 CAGTAACAATTAAGATATT
8569574 CAGTAACA
1 CAGTAACA
8569582 GTCATTCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 2 0.06
17 11 0.31
18 8 0.22
19 15 0.42
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (19 bp):
CAGTAACAATTAAGATATT
Found at i:8569651 original size:72 final size:71
Alignment explanation
Indices: 8569516--8569718 Score: 203
Period size: 72 Copynumber: 2.8 Consensus size: 71
8569506 ATTGATCGGT
* * * * *
8569516 TATCCAGTAACAGTTAATTATTCAGTAAAATCAGA-TATTCAGTAACAATTAAGTTATTCAGTAA
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTTAGTAA
*
8569580 CAGTC-AT
64 CAGTCTAA
* * * *
8569587 TCATTCAGTGACAATCACTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTTAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTTAGTAA
8569652 CAGTCTAA
64 CAGTCTAA
* * * * * *
8569660 TATCCAGTAACAGTCAAGTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATTT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTT
8569719 TATACCTTTA
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
71 1 0.01
72 90 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTTAGTAACA
GTCTAA
Found at i:8569889 original size:53 final size:52
Alignment explanation
Indices: 8569828--8569993 Score: 211
Period size: 53 Copynumber: 3.2 Consensus size: 52
8569818 CCGAAACAAT
* * *
8569828 AACAGTAATAGTAGCTGTACGGTACACAGAGTAGCTCATCGGAACAAATTCGG
1 AACAGTAACAGTAGCT-TACGGTACACAGAGTACCTCATCGGAACAAATTCGA
*
8569881 AACAGT-A-A-TAGC--ACGGTACACAGAGTACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTAGCTTACGGTACACAGAGTACCTCATCGGAACAAATTCGA
8569928 AACAGTAACAGTCA-CATTACGGTACACAGAGTACCTCATCGGAACAAA-TCTGA
1 AACAGTAACAGT-AGC-TTACGGTACACAGAGTACCTCATCGGAACAAATTC-GA
8569981 AACAGTAACAGTA
1 AACAGTAACAGTA
8569994 ACGGTAACAG
Statistics
Matches: 101, Mismatches: 4, Indels: 17
0.83 0.03 0.14
Matches are distributed among these distances:
47 38 0.38
48 1 0.01
49 1 0.01
50 6 0.06
51 2 0.02
52 3 0.03
53 50 0.50
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (52 bp):
AACAGTAACAGTAGCTTACGGTACACAGAGTACCTCATCGGAACAAATTCGA
Found at i:8571628 original size:16 final size:16
Alignment explanation
Indices: 8571607--8571645 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
8571597 AAATTTCCCC
*
8571607 TTTTTCCTTCTTTCTT
1 TTTTTCCTTCCTTCTT
8571623 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
*
8571639 TCTTTCC
1 TTTTTCC
8571646 CCTGCTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTCCTTCCTTCTT
Found at i:8571720 original size:2 final size:2
Alignment explanation
Indices: 8571713--8571750 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8571703 CCTTTTACTT
8571713 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8571751 ATAACTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8579494 original size:26 final size:28
Alignment explanation
Indices: 8579444--8579498 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
8579434 ATAAAAGATG
*
8579444 AAATATATACACAATATAATAATATAAT
1 AAATATATACACAATATAAGAATATAAT
*
8579472 AAATA-ATACA-AATTTAAGAATATAAT
1 AAATATATACACAATATAAGAATATAAT
8579498 A
1 A
8579499 CTTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.60
27 5 0.20
28 5 0.20
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (28 bp):
AAATATATACACAATATAAGAATATAAT
Found at i:8581245 original size:43 final size:43
Alignment explanation
Indices: 8581162--8581317 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 43
8581152 TTCGAGCCTC
* * * *
8581162 GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTATCGGGCTTCG
1 GGCCTAGCAGGCTATAATGCCGGTG-A-AATAATATCGGGCTTCG
* *
8581206 GGCCTAGCAGGCTATAATACCGGTGAGATAATATCGGGCTTCG
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCTTCG
* *
8581249 GGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCA
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCTTCG
* * *
8581292 AGCCTTGCAGGCGA-AATGCCGGTGAA
1 GGCCTAGCAGGCTATAATGCCGGTGAA
8581318 TGAGTTCAGA
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
42 12 0.12
43 65 0.66
44 16 0.16
45 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (43 bp):
GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCTTCG
Found at i:8581398 original size:40 final size:41
Alignment explanation
Indices: 8581207--8581397 Score: 147
Period size: 43 Copynumber: 4.6 Consensus size: 41
8581197 CGGGCTTCGG
* ***
8581207 GCCTAGCAGGCTATAATACCGGTGAGAT-AATATCGGGCTTCGG
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCGGGCTTAAA
*
8581250 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * * *
8581293 GCCTTGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* ** * *
8581334 GTCTAGCAGGCCT-CGTGTCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGG-CTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
8581374 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
8581398 TTTGATAAAA
Statistics
Matches: 118, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
39 2 0.02
40 28 0.24
41 27 0.23
42 12 0.10
43 48 0.41
44 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:8585752 original size:6 final size:6
Alignment explanation
Indices: 8585734--8585790 Score: 78
Period size: 6 Copynumber: 9.2 Consensus size: 6
8585724 TTAAAAAGAT
* *
8585734 AAATAA AGATAA AAGTAAA CAAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAAT-AA -AAATAA AAATAA AAATAA AAATAA AAATAA
8585784 AAATAA A
1 AAATAA A
8585791 GTAAAGTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
6 38 0.84
7 4 0.09
8 3 0.07
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:8606733 original size:16 final size:18
Alignment explanation
Indices: 8606706--8606741 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
8606696 TCAATACTAA
8606706 TTTTTAACCACTT-ATTT
1 TTTTTAACCACTTAATTT
8606723 TTTTTAA-CACTTAATTT
1 TTTTTAACCACTTAATTT
8606740 TT
1 TT
8606742 CATTTTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTAACCACTTAATTT
Found at i:8610054 original size:26 final size:26
Alignment explanation
Indices: 8610025--8610075 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
8610015 CTGGGAGCTA
8610025 TTAATCAGGAAGCTCACAAAGAGCCT
1 TTAATCAGGAAGCTCACAAAGAGCCT
* *
8610051 TTAATTAGGAAGCTCACGAAGAGCC
1 TTAATCAGGAAGCTCACAAAGAGCC
8610076 ATATATAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
TTAATCAGGAAGCTCACAAAGAGCCT
Found at i:8613513 original size:67 final size:68
Alignment explanation
Indices: 8613405--8613538 Score: 180
Period size: 67 Copynumber: 2.0 Consensus size: 68
8613395 CGCATTAGGC
* * **
8613405 TGTGTCACAATACATATATGACGGAGGAAAATAATTAATTAAGGGTGTTTCTATCTGCA-AATCC
1 TGTGTCACAATACATATATGAAGGAGGAAAAGAATTAATTAAGGGCCTTTCTATCTGCACAATCC
8613469 ATG
66 ATG
* * * * *
8613472 TGTGTCACGATACATGTCTGAAGGAGGGAAAGAATTAATTAAGGGCCTTTCTGTCTGCACAATCC
1 TGTGTCACAATACATATATGAAGGAGGAAAAGAATTAATTAAGGGCCTTTCTATCTGCACAATCC
8613537 AT
66 AT
8613539 ATTTAGTGTG
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
67 50 0.88
68 7 0.12
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (68 bp):
TGTGTCACAATACATATATGAAGGAGGAAAAGAATTAATTAAGGGCCTTTCTATCTGCACAATCC
ATG
Found at i:8615305 original size:31 final size:33
Alignment explanation
Indices: 8615268--8615366 Score: 112
Period size: 33 Copynumber: 3.1 Consensus size: 33
8615258 AATGAACTAA
* **
8615268 ATTTAAATGATTTAATATAATGATA-A-ATTAT
1 ATTTAAATAATTTAATATAATGATACATAAAAT
* *
8615299 ATTTAAATAAGTTAATATAATTATACATAAAAT
1 ATTTAAATAATTTAATATAATGATACATAAAAT
* * *
8615332 ATTTGATTAATTTAATATAATGATATATAAAAT
1 ATTTAAATAATTTAATATAATGATACATAAAAT
8615365 AT
1 AT
8615367 AAATTAATCT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 22 0.39
32 1 0.02
33 33 0.59
ACGTcount: A:0.51, C:0.01, G:0.05, T:0.43
Consensus pattern (33 bp):
ATTTAAATAATTTAATATAATGATACATAAAAT
Found at i:8616636 original size:25 final size:25
Alignment explanation
Indices: 8616604--8616654 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
8616594 TCCACATAAA
*
8616604 AAAAATTAAAAAAATAAAAATATAT
1 AAAAATTAAAAAAATAAAAAAATAT
**
8616629 AAAAATTAAATTAATAAAAAAATAT
1 AAAAATTAAAAAAATAAAAAAATAT
8616654 A
1 A
8616655 GATATAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (25 bp):
AAAAATTAAAAAAATAAAAAAATAT
Found at i:8616649 original size:17 final size:16
Alignment explanation
Indices: 8616604--8616652 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
8616594 TCCACATAAA
8616604 AAAAAT-TAAAAAAAT
1 AAAAATATAAAAAAAT
*
8616619 AAAAATATATAAAAAT
1 AAAAATATAAAAAAAT
* *
8616635 TAAATTAATAAAAAAAT
1 AAAAAT-ATAAAAAAAT
8616652 A
1 A
8616653 TAGATATAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 6 0.22
16 12 0.44
17 9 0.33
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATATAAAAAAAT
Found at i:8616772 original size:9 final size:9
Alignment explanation
Indices: 8616758--8616799 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
8616748 CTTTTTTTTT
8616758 AATTATAAA
1 AATTATAAA
8616767 AATTATAAA
1 AATTATAAA
*
8616776 AAGTAATAAA
1 AA-TTATAAA
*
8616786 TATTATAAA
1 AATTATAAA
8616795 AATTA
1 AATTA
8616800 AATATGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:8616803 original size:16 final size:18
Alignment explanation
Indices: 8616761--8616818 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
8616751 TTTTTTTAAT
*
8616761 TATAAAAATTATAAAAAG
1 TATAAATATTATAAAAAG
8616779 TAATAAATATTATAAAAA-
1 T-ATAAATATTATAAAAAG
*
8616797 T-TAAATA-TGTAAAAAG
1 TATAAATATTATAAAAAG
*
8616813 TTTAAA
1 TATAAA
8616819 GAGATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 7 0.20
16 7 0.20
17 4 0.11
18 2 0.06
19 15 0.43
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
TATAAATATTATAAAAAG
Found at i:8617962 original size:42 final size:42
Alignment explanation
Indices: 8617896--8618010 Score: 144
Period size: 42 Copynumber: 2.7 Consensus size: 42
8617886 CTTCGTTTTC
** * *
8617896 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTC-ACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCAAC-T-A
* *
8617939 T-GATGTCATAGCCCAGCTATGGTCTTACATATATTCAACTA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCAACTA
8617980 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
8618011 GAATCACATA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
41 2 0.03
42 57 0.92
43 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCAACTA
Found at i:8618084 original size:47 final size:46
Alignment explanation
Indices: 8617981--8618104 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
8617971 ATTCAACTAT
* * * * *
8617981 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
8618027 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
8618074 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
8618105 GAAATCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:8618164 original size:31 final size:31
Alignment explanation
Indices: 8618129--8618308 Score: 274
Period size: 31 Copynumber: 5.8 Consensus size: 31
8618119 CTTGTCACTT
*
8618129 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
8618160 GTAGCTGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
8618191 GTAGCC-AGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
8618222 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
8618253 GTAGCGGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
8618284 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
8618309 TGTCATTTGT
Statistics
Matches: 136, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
30 3 0.02
31 131 0.96
32 1 0.01
33 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:8618390 original size:50 final size:51
Alignment explanation
Indices: 8618284--8618412 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
8618274 CACTGATCAG
* * *
8618284 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATAGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATAGATCAGATAAGT
* *
8618335 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATAGATCAGATAAGT
8618385 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
8618413 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATAGATCAGATAAGT
Found at i:8627337 original size:26 final size:26
Alignment explanation
Indices: 8627307--8627359 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
8627297 ATCTTACAAG
8627307 AATGTGAAATTTGCTCAAGGCAATGT
1 AATGTGAAATTTGCTCAAGGCAATGT
*
8627333 AATGTGAAATTTGCTTAAGGCAATGT
1 AATGTGAAATTTGCTCAAGGCAATGT
8627359 A
1 A
8627360 TTAATTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (26 bp):
AATGTGAAATTTGCTCAAGGCAATGT
Found at i:8634998 original size:20 final size:20
Alignment explanation
Indices: 8634964--8635005 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
8634954 AACTATTTAA
** *
8634964 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
8634984 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
8635004 AT
1 AT
8635006 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:8635900 original size:18 final size:18
Alignment explanation
Indices: 8635879--8635921 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
8635869 GAACAATTAT
*
8635879 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAA
* * *
8635897 TTATTCGGTAACAATTAA
1 TTATTCAGTAACAGTCAA
8635915 TTATTCA
1 TTATTCA
8635922 ATAATAACCA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:8635934 original size:36 final size:36
Alignment explanation
Indices: 8635870--8635938 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
8635860 TAACAATCAG
* * **
8635870 AACAATTATTTATTCAGTAACAGTCAGTTATTCGGT
1 AACAATTAATTATTCAATAACAACCAGTTATTCGGT
*
8635906 AACAATTAATTATTCAATAATAACCAGTTATTC
1 AACAATTAATTATTCAATAACAACCAGTTATTC
8635939 AGTATCGATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (36 bp):
AACAATTAATTATTCAATAACAACCAGTTATTCGGT
Found at i:8635986 original size:18 final size:18
Alignment explanation
Indices: 8635959--8636125 Score: 133
Period size: 18 Copynumber: 9.3 Consensus size: 18
8635949 AATTGATCGG
* *
8635959 TTATCCAGTAATAGTCAA
1 TTATTCAGTAACAGTCAA
* *
8635977 TTATTTAGTAA-AATCAA
1 TTATTCAGTAACAGTCAA
* * * *
8635994 ATATTCAGTAGCAATTAA
1 TTATTCAGTAACAGTCAA
*
8636012 GTTATTCAGTAACAGTCAT
1 -TTATTCAGTAACAGTCAA
* *
8636031 TTATTCAGTAA-TGATCAT
1 TTATTCAGTAACAG-TCAA
* * *
8636049 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
*
8636067 TTATTCAGTAACAGTCTA
1 TTATTCAGTAACAGTCAA
* *
8636085 TTATCCAGTAACAATCAA
1 TTATTCAGTAACAGTCAA
8636103 TTATTC-GATAACAGTCAA
1 TTATTCAG-TAACAGTCAA
8636121 TTATT
1 TTATT
8636126 TAGAAATAAT
Statistics
Matches: 119, Mismatches: 25, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
17 15 0.13
18 91 0.76
19 13 0.11
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:8636022 original size:54 final size:54
Alignment explanation
Indices: 8635958--8636108 Score: 171
Period size: 54 Copynumber: 2.8 Consensus size: 54
8635948 CAATTGATCG
* * * *
8635958 GTTATCCAGTAATAGTCAATTATTTAGTAA-AATCAAATATTCAGTAGCA-ATTAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAACAATCAATTATTCAGTA--ATATTAA
* ** * *
8636012 GTTATTCAGTAACAGTCATTTATTCAGTAATGATCATTTATTCAGTAATATTCA
1 GTTATTCAGTAACAGTCAATTATTCAGTAACAATCAATTATTCAGTAATATTAA
* *
8636066 GTTATTCAGTAACAGTCTATTATCCAGTAACAATCAATTATTC
1 GTTATTCAGTAACAGTCAATTATTCAGTAACAATCAATTATTC
8636109 GATAACAGTC
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.01
54 67 0.83
55 13 0.16
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (54 bp):
GTTATTCAGTAACAGTCAATTATTCAGTAACAATCAATTATTCAGTAATATTAA
Found at i:8636094 original size:36 final size:36
Alignment explanation
Indices: 8636049--8636143 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
8636039 TAATGATCAT
* *
8636049 TTATTCAGTAATATTCAGTTATTC-AGTAACAGTCTA
1 TTATTCAGTAATAATCAGTTATTCGA-TAACAGTCAA
* * *
8636085 TTATCCAGTAACAATCAATTATTCGATAACAGTCAA
1 TTATTCAGTAATAATCAGTTATTCGATAACAGTCAA
* *
8636121 TTATTTAGAAATAATCAGTTATT
1 TTATTCAGTAATAATCAGTTATT
8636144 TTATACCTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
36 47 0.98
37 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (36 bp):
TTATTCAGTAATAATCAGTTATTCGATAACAGTCAA
Found at i:8636405 original size:26 final size:26
Alignment explanation
Indices: 8636356--8636405 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
8636346 ATCGATAACG
* * *
8636356 GTAACAGTAATAGTATTTGACACACA
1 GTAACAGTAACAGTAGTCGACACACA
*
8636382 GTAACAGTAACAGTAGTCGGCACA
1 GTAACAGTAACAGTAGTCGACACA
8636406 TAAGTGCCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (26 bp):
GTAACAGTAACAGTAGTCGACACACA
Found at i:8638160 original size:5 final size:5
Alignment explanation
Indices: 8638141--8638208 Score: 82
Period size: 5 Copynumber: 12.4 Consensus size: 5
8638131 TTACTTATTT
8638141 ATATA ATATA TATATAA TATATA ATATA TATATA ATATA ATATA ATAATA
1 ATATA ATATA -ATAT-A -ATATA ATATA -ATATA ATATA ATATA AT-ATA
8638191 ATATA ATATA ATAATA AT
1 ATATA ATATA AT-ATA AT
8638209 TTCTTATATT
Statistics
Matches: 58, Mismatches: 0, Indels: 9
0.87 0.00 0.13
Matches are distributed among these distances:
5 32 0.55
6 20 0.34
7 6 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:8638161 original size:18 final size:18
Alignment explanation
Indices: 8638140--8638195 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
8638130 TTTACTTATT
8638140 TATATAATATATATATAA
1 TATATAATATATATATAA
8638158 TATATAATATATATAT-A
1 TATATAATATATATATAA
8638175 -ATATAATATA-ATAATAA
1 TATATAATATATAT-ATAA
8638192 TATA
1 TATA
8638196 ATATAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.06
16 12 0.34
17 2 0.06
18 19 0.54
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATAATATATATATAA
Found at i:8638207 original size:11 final size:10
Alignment explanation
Indices: 8638141--8638208 Score: 82
Period size: 11 Copynumber: 6.2 Consensus size: 10
8638131 TTACTTATTT
8638141 ATATAATATA
1 ATATAATATA
8638151 TATATAATATATA
1 -ATAT-A-ATATA
8638164 ATATATATATA
1 ATATA-ATATA
8638175 ATATAATATA
1 ATATAATATA
8638185 ATAATAATATA
1 AT-ATAATATA
8638196 ATATAATAATA
1 ATATAAT-ATA
8638207 AT
1 AT
8638209 TTCTTATATT
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
10 12 0.23
11 31 0.58
12 5 0.09
13 5 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATAATATA
Found at i:8638216 original size:16 final size:16
Alignment explanation
Indices: 8638143--8638208 Score: 95
Period size: 16 Copynumber: 4.3 Consensus size: 16
8638133 ACTTATTTAT
8638143 ATAATAT-ATAT-ATA
1 ATAATATAATATAATA
8638157 AT-ATATAATAT-ATA
1 ATAATATAATATAATA
8638171 TATAATATAATATAATA
1 -ATAATATAATATAATA
8638188 ATAATATAATATAATA
1 ATAATATAATATAATA
8638204 ATAAT
1 ATAAT
8638209 TTCTTATATT
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.08
14 9 0.19
15 2 0.04
16 30 0.62
17 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATATAATATAATA
Found at i:8638335 original size:21 final size:22
Alignment explanation
Indices: 8638296--8638348 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
8638286 CATACAATTG
*
8638296 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
8638318 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
8638338 ATAAAATAATA
1 TTAAAATAATA
8638349 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:8643494 original size:20 final size:20
Alignment explanation
Indices: 8643460--8643501 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
8643450 AACTATTTAA
** *
8643460 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
8643480 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
8643500 AT
1 AT
8643502 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:8646717 original size:35 final size:35
Alignment explanation
Indices: 8646678--8646745 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
8646668 CAAGATTACT
*
8646678 TCACATATGACCAAATACACAAATTCAATATAAAC
1 TCACATATAACCAAATACACAAATTCAATATAAAC
* * ** *
8646713 TCACATGTAATCAAATATTCAAGTTCAATATAA
1 TCACATATAACCAAATACACAAATTCAATATAA
8646746 GATTACATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (35 bp):
TCACATATAACCAAATACACAAATTCAATATAAAC
Found at i:8654443 original size:35 final size:35
Alignment explanation
Indices: 8654400--8654491 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
8654390 ACCTATAGTT
* * **
8654400 CAAATTCAATATAACATCGCATATGGCCAAATATG
1 CAAATTCAATATAACATCACATATGACCAAATACA
* * *
8654435 CACATTCAAGATAACTTCACATATGACCAAATACA
1 CAAATTCAATATAACATCACATATGACCAAATACA
8654470 CAAATTCAATATAA-ACTCACAT
1 CAAATTCAATATAACA-TCACAT
8654492 GTAATTGAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.25
Consensus pattern (35 bp):
CAAATTCAATATAACATCACATATGACCAAATACA
Found at i:8658937 original size:93 final size:93
Alignment explanation
Indices: 8658822--8658992 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
8658812 GCCCATAAGT
* *
8658822 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
8658887 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
8658915 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
8658980 CGAGTTCGGATGC
66 CGAGCTCGGATGC
8658993 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:8658989 original size:46 final size:46
Alignment explanation
Indices: 8658814--8658989 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
8658804 TGTAACCCGC
* * *
8658814 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
8658860 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
8658910 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
8658953 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
8658990 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 65 0.59
47 28 0.25
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:8660959 original size:30 final size:30
Alignment explanation
Indices: 8660915--8661003 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
8660905 CAAAGATAAC
8660915 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
8660944 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
8660974 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
8661004 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:8660963 original size:15 final size:15
Alignment explanation
Indices: 8660915--8660994 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
8660905 CAAAGATAAC
*
8660915 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
8660929 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
8660944 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
8660959 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
8660974 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
8660989 AAGAAA
1 AAGAAA
8660995 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:8661003 original size:15 final size:15
Alignment explanation
Indices: 8660926--8661003 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
8660916 AGAAAACCGA
8660926 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
8660941 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
8660955 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
8660970 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
8660986 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
8661001 ATA
1 ATA
8661004 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:8663855 original size:21 final size:21
Alignment explanation
Indices: 8663808--8663871 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
8663798 ACATGAGCTG
* ***
8663808 TTCACACGGGCATGTGCCCCC
1 TTCACACGGGCGTGTGAGGCC
* *
8663829 TCCACACGGGCGTGTGGGGCC
1 TTCACACGGGCGTGTGAGGCC
*
8663850 TTCACACGAGCGTGTGAGGCC
1 TTCACACGGGCGTGTGAGGCC
8663871 T
1 T
8663872 CCATATTAGT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.14, C:0.34, G:0.33, T:0.19
Consensus pattern (21 bp):
TTCACACGGGCGTGTGAGGCC
Found at i:8664239 original size:14 final size:14
Alignment explanation
Indices: 8664201--8664240 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
8664191 TGAGTTAGGG
8664201 CATCCGCATACATA
1 CATCCGCATACATA
* *
8664215 CATCGGTATACATA
1 CATCCGCATACATA
*
8664229 CATCTGCATACA
1 CATCCGCATACA
8664241 AAGATTTTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (14 bp):
CATCCGCATACATA
Found at i:8666314 original size:47 final size:46
Alignment explanation
Indices: 8666230--8666359 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 46
8666220 CACAATCGAT
* * *
8666230 AAGTACCTATACCATGGCCGTAGCCAAATTAAAGTAACTTATC-CA
1 AAGTACCTATACCATGGCCGTAGCCAAATCAAGGTAACTCATCACA
* *
8666275 GGAGTACCTATACCATGGTCCGTAGCCAAATCAAGGTAACTCCTCACA
1 -AAGTACCTATACCATGG-CCGTAGCCAAATCAAGGTAACTCATCACA
* *
8666323 AAATACCTACACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGG-CCGTAGCCAAATCAAGGTA
8666360 TTTACTCGCA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
46 16 0.22
47 55 0.75
48 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (46 bp):
AAGTACCTATACCATGGCCGTAGCCAAATCAAGGTAACTCATCACA
Found at i:8674268 original size:27 final size:27
Alignment explanation
Indices: 8674246--8674312 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
8674236 CAGCAATGCT
8674246 ACTAGTAACAGTAA-ACGTGGCAAAGCC
1 ACTAG-AACAGTAATACGTGGCAAAGCC
* *
8674273 ACTAGAGCAGTAATTACGTGGCAGAGCC
1 ACTAGAACAGTAA-TACGTGGCAAAGCC
8674301 ACTA-ATACAGTA
1 ACTAGA-ACAGTA
8674313 CTTCATCCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 7 0.21
27 6 0.18
28 21 0.62
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (27 bp):
ACTAGAACAGTAATACGTGGCAAAGCC
Found at i:8693953 original size:12 final size:12
Alignment explanation
Indices: 8693936--8693968 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
8693926 ATAATTAATT
8693936 AATTAAATTAGA
1 AATTAAATTAGA
*
8693948 AATTAAATTGGA
1 AATTAAATTAGA
8693960 AATTAAATT
1 AATTAAATT
8693969 CGGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (12 bp):
AATTAAATTAGA
Found at i:8695567 original size:60 final size:59
Alignment explanation
Indices: 8695440--8695569 Score: 138
Period size: 60 Copynumber: 2.2 Consensus size: 59
8695430 TGATCTTAAA
* *
8695440 TCTAAAAATTCAACAAATTTAACCCTCAGAATTTACAAAATTTTTTACTAAGTTCTAAT
1 TCTAAAAATTCAACAAATTTAACCCTCAAAATTTACAAAATTTTTAACTAAGTTCTAAT
* * * * * *
8695499 TATAAAAAATTCAATAAATTTAGCTCT-AAATATTTATAAAATTTTTCAATTTAA-TTCTAAT
1 TCT-AAAAATTCAACAAATTTAACCCTCAAA-ATTTACAAAATTTTT-AA-CTAAGTTCTAAT
8695560 TCTAAAAATT
1 TCTAAAAATT
8695570 TAAAAAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
59 4 0.07
60 41 0.71
61 10 0.17
62 3 0.05
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (59 bp):
TCTAAAAATTCAACAAATTTAACCCTCAAAATTTACAAAATTTTTAACTAAGTTCTAAT
Found at i:8696049 original size:27 final size:27
Alignment explanation
Indices: 8696011--8696088 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
8696001 AAGGGTGGTG
* * *
8696011 CCTATTTGATAGGCGTCACCAGTGACC
1 CCTATCTGATAGGCGCCACTAGTGACC
*
8696038 CCTATCTGATAGGCGCCACTGGTGACC
1 CCTATCTGATAGGCGCCACTAGTGACC
* *
8696065 CTTATCTGATAGGCGGCACTAGTG
1 CCTATCTGATAGGCGCCACTAGTG
8696089 GTTTATTTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.26
Consensus pattern (27 bp):
CCTATCTGATAGGCGCCACTAGTGACC
Found at i:8696336 original size:11 final size:11
Alignment explanation
Indices: 8696308--8696347 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
8696298 TTGTTTATTG
8696308 TTATTTTT-AT
1 TTATTTTTAAT
*
8696318 TGTTTTTTTAAT
1 T-TATTTTTAAT
8696330 TTATTTTTAAT
1 TTATTTTTAAT
8696341 TTATTTT
1 TTATTTT
8696348 GTTAGTTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 1 0.04
11 22 0.85
12 3 0.12
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (11 bp):
TTATTTTTAAT
Found at i:8700978 original size:21 final size:21
Alignment explanation
Indices: 8700952--8701027 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
8700942 TGGGTGGATT
* *
8700952 AGCTCTTATGAGCTTTTATTC
1 AGCTCTTACGAGCTTTTATTA
* *
8700973 AGCTCTTACGAGCTTCTGTTA
1 AGCTCTTACGAGCTTTTATTA
*
8700994 AGCTCTTACGAGCTTTTGTTA
1 AGCTCTTACGAGCTTTTATTA
8701015 AGCT-TT-CGAGCTT
1 AGCTCTTACGAGCTT
8701028 CTGTTCGCGT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
19 7 0.14
20 2 0.04
21 41 0.82
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (21 bp):
AGCTCTTACGAGCTTTTATTA
Found at i:8700999 original size:42 final size:40
Alignment explanation
Indices: 8700952--8701032 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 40
8700942 TGGGTGGATT
* *
8700952 AGCTCTTATGAGCTTTTATTCAGCTCTTACGAGCTTCTGTTA
1 AGCTCTTACGAGCTTTTATTAAGCT-TT-CGAGCTTCTGTTA
*
8700994 AGCTCTTACGAGCTTTTGTTAAGCTTTCGAGCTTCTGTT
1 AGCTCTTACGAGCTTTTATTAAGCTTTCGAGCTTCTGTT
8701033 CGCGTATTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 12 0.33
41 2 0.06
42 22 0.61
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (40 bp):
AGCTCTTACGAGCTTTTATTAAGCTTTCGAGCTTCTGTTA
Found at i:8704302 original size:16 final size:17
Alignment explanation
Indices: 8704279--8704315 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
8704269 AAAATCAAAT
8704279 AAAA-TTACATTA-TAA
1 AAAATTTACATTACTAA
8704294 AAAATTTACATTACTAA
1 AAAATTTACATTACTAA
8704311 AAAAT
1 AAAAT
8704316 CACAAAACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
16 8 0.40
17 8 0.40
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTTACATTACTAA
Found at i:8704690 original size:102 final size:103
Alignment explanation
Indices: 8704293--8704903 Score: 890
Period size: 103 Copynumber: 6.0 Consensus size: 103
8704283 TTACATTATA
*
8704293 AAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATC
1 AAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATC
*
8704358 ATAAATTACTAACAAAATAACTAT-AAA-AATTTTTTA
66 ATAAATTACTAACAAAATAACTATAAAATAATTTTTTT
* *
8704394 AAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATC
1 AAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATC
* ***
8704459 ATAAATTACTAACAAAATAACTATAAAAAAATTTTAAA
66 ATAAATTACTAACAAAATAACTATAAAATAATTTTTTT
*
8704497 AAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATC
1 AAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATC
*
8704562 ATAAATTACTAACAAAATAACTATAAAATTATTTTTTT
66 ATAAATTACTAACAAAATAACTATAAAATAATTTTTTT
* ** *
8704600 AAAAATTTACATTAATAAAAATTCACAAAACACTAAACTTGACAC-AACAATTTATAATCTAATC
1 AAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATC
*
8704664 ATAAATTACTAACAAAATAACTATAAAATTATTTTTTT
66 ATAAATTACTAACAAAATAACTATAAAATAATTTTTTT
* * *
8704702 -TAAATTTACATTAATAAAAAAATCACAAAACACTAAACTAAACAC-AACAATTTATAATCGAAT
1 AAAAATTTACATTAAT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT
* *
8704765 CATAAATAATTAACAAAATAACTATAAAATAATTTTTTTT
65 CATAAATTACTAACAAAATAACTATAAAATAA-TTTTTTT
* * * * * **
8704805 AAAAAATTACATTAATAAAAATTCACAAAATACTAAACTAAAACACAAACAAATTATAACAAAAT
1 AAAAATTTACATTAATAAAAAATCACAAAACACTAAACT-AAACACTAACAATTTATAACCTAAT
* * *
8704870 CATAAATTACTGACAAAATAATTTTAAAATAATT
65 CATAAATTACTAACAAAATAACTATAAAATAATT
8704904 ATAAAAACAA
Statistics
Matches: 468, Mismatches: 35, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
101 102 0.22
102 131 0.28
103 173 0.37
104 21 0.04
105 41 0.09
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.29
Consensus pattern (103 bp):
AAAAATTTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATC
ATAAATTACTAACAAAATAACTATAAAATAATTTTTTT
Found at i:8704709 original size:204 final size:204
Alignment explanation
Indices: 8704292--8704931 Score: 921
Period size: 204 Copynumber: 3.1 Consensus size: 204
8704282 ATTACATTAT
8704292 AAAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT
1 AAAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT
* * *
8704357 CATAAATTACTAACAAAATAACTATAAAA-ATTTTTTAAAAAAATTACATTACTAAAAAATCACA
66 CATAAATTACTAACAAAATAACTATAAAATATTTTTTTAAAAAATTACATTAATAAAAATTCACA
*
8704421 AAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAA
131 AAACACTAAACTAAACACAAACAATTTATAA-CTAATCATAAATTACTAACAAAATAACTATAAA
*
8704486 AAAATTTTAA
195 ATAATTTTAA
8704496 AAAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT
1 AAAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT
*
8704561 CATAAATTACTAACAAAATAACTATAAAATTATTTTTTTAAAAATTTACATTAATAAAAATTCAC
66 CATAAATTACTAACAAAATAACTATAAAA-TATTTTTTTAAAAAATTACATTAATAAAAATTCAC
**
8704626 AAAACACTAAACTTGACAC-AACAATTTATAATCTAATCATAAATTACTAACAAAATAACTATAA
130 AAAACACTAAACTAAACACAAACAATTTATAA-CTAATCATAAATTACTAACAAAATAACTATAA
* *
8704690 AATTATTTT-T
194 AATAATTTTAA
*** * * *
8704700 TTTAAATTTACATTAATAAAAAAATCACAAAACACTAAACTAAACAC-AACAATTTATAATCGAA
1 AAAAAATTTACATTACT-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAA
* *
8704764 TCATAAATAATTAACAAAATAACTATAAAATAATTTTTTTTAAAAAATTACATTAATAAAAATTC
65 TCATAAATTACTAACAAAATAACTATAAAAT-A-TTTTTTTAAAAAATTACATTAATAAAAATTC
* * * * * *
8704829 ACAAAATACTAAACTAAAACACAAACAAATTATAACAAAATCATAAATTACTGACAAAATAATTT
128 ACAAAACACTAAACT-AAACACAAACAATTTATAAC-TAATCATAAATTACTAACAAAATAACTA
*
8704894 TAAAATAATTATAA
191 TAAAATAATTTTAA
*
8704908 AAACAATTTTACATT-CATAAAAAA
1 AAA-AAATTTACATTAC-TAAAAAA
8704932 AATTAAACCA
Statistics
Matches: 390, Mismatches: 35, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
203 1 0.00
204 151 0.39
205 124 0.32
206 52 0.13
207 45 0.12
208 6 0.02
209 11 0.03
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.29
Consensus pattern (204 bp):
AAAAAATTTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT
CATAAATTACTAACAAAATAACTATAAAATATTTTTTTAAAAAATTACATTAATAAAAATTCACA
AAACACTAAACTAAACACAAACAATTTATAACTAATCATAAATTACTAACAAAATAACTATAAAA
TAATTTTAA
Found at i:8705098 original size:30 final size:31
Alignment explanation
Indices: 8705062--8705131 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 31
8705052 CCTTTTTTTT
* * *
8705062 CTTTCTTTCTTTCTTTCTTCTTCTTCTTCTT
1 CTTTCTTTCTTTCTTTCTTCTCCTTCCTCTC
8705093 C-TTCTTTCTTTCTTTCTTCTCCTTCCTCTC
1 CTTTCTTTCTTTCTTTCTTCTCCTTCCTCTC
8705123 CTTTCTTTC
1 CTTTCTTTC
8705132 CCTCTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 27 0.77
31 8 0.23
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (31 bp):
CTTTCTTTCTTTCTTTCTTCTCCTTCCTCTC
Found at i:8705109 original size:27 final size:26
Alignment explanation
Indices: 8705068--8705131 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
8705058 TTTTCTTTCT
* *
8705068 TTCTTTCTTTCTTCTTCTTCTTCTTC
1 TTCTTTCTTTCTTCTTCTCCTTCCTC
8705094 TTCTTTCTTTCTTTCTTCTCCTTCCTC
1 TTCTTTCTTTC-TTCTTCTCCTTCCTC
*
8705121 TCCTTTCTTTC
1 TTCTTTCTTTC
8705132 CCTCTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 11 0.32
27 23 0.68
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (26 bp):
TTCTTTCTTTCTTCTTCTCCTTCCTC
Found at i:8705131 original size:4 final size:4
Alignment explanation
Indices: 8705059--8705110 Score: 62
Period size: 4 Copynumber: 14.5 Consensus size: 4
8705049 ATACCTTTTT
8705059 TTTC TTTC TTTC TTTC TTTC -TTC -TTC -TTC -TTC -TTC -TTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
8705101 TTTC TTTC TT
1 TTTC TTTC TT
8705111 CTCCTTCCTC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 18 0.38
4 29 0.62
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:8705435 original size:22 final size:22
Alignment explanation
Indices: 8705405--8705447 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
8705395 CACTACTAAT
*
8705405 AAAATAATATTTTTTTAAAAAC
1 AAAAAAATATTTTTTTAAAAAC
8705427 AAAAAAATATTTTTTTAAAAA
1 AAAAAAATATTTTTTTAAAAA
8705448 AAATTGGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAAAAATATTTTTTTAAAAAC
Found at i:8713984 original size:28 final size:27
Alignment explanation
Indices: 8713952--8714033 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 27
8713942 TATTTTCCAT
*
8713952 ATTTTATAGTTTGGCC-CATGTTTTCTAA
1 ATTTTATAGTTTGCCCTCAT-TTTT-TAA
* *
8713980 ATTTTACAGATTTGCCCTCATTTTTTAC
1 ATTTTATAG-TTTGCCCTCATTTTTTAA
* *
8714008 ATTTTATAGTTTTCCCCCTATTTTTT
1 ATTTTATAGTTTGCCCTC-ATTTTTT
8714034 TAGATTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
27 7 0.16
28 25 0.56
29 10 0.22
30 3 0.07
ACGTcount: A:0.20, C:0.18, G:0.09, T:0.54
Consensus pattern (27 bp):
ATTTTATAGTTTGCCCTCATTTTTTAA
Found at i:8714098 original size:28 final size:29
Alignment explanation
Indices: 8714037--8714098 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
8714027 ATTTTTTTAG
* *
8714037 ATTTTTACAATTTTGTCCATGTTTTTCAG
1 ATTTTTAAAATTTTGTCCATGTTTTTCAA
*
8714066 A-TTTTAAAATTTT-TCTCTTG-TTTTCAA
1 ATTTTTAAAATTTTGTC-CATGTTTTTCAA
8714093 ATTTTT
1 ATTTTT
8714099 TAGTTTTGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 9 0.32
28 18 0.64
29 1 0.04
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (29 bp):
ATTTTTAAAATTTTGTCCATGTTTTTCAA
Found at i:8714689 original size:45 final size:45
Alignment explanation
Indices: 8714640--8714779 Score: 135
Period size: 45 Copynumber: 3.1 Consensus size: 45
8714630 GGTAGGTTTC
**
8714640 ATCTGCGAATTTTTGTTTTGTATCCACAGCCTAGTGGCAGATTTT
1 ATCTGCGAATTTTTGTTGCGTATCCACAGCCTAGTGGCAGATTTT
* * * *
8714685 ATCTGCG-ATATTTTGTTGCGTACCCACAG-CTGAGTTGCAGGTTTC
1 ATCTGCGAAT-TTTTGTTGCGTATCCACAGCCT-AGTGGCAGATTTT
* * * *
8714730 ATCTGCTAA-TTTTGTTGCGTATCCACATTCC-AGTGGTAGACTTT
1 ATCTGCGAATTTTTGTTGCGTATCCACA-GCCTAGTGGCAGATTTT
8714774 ATCTGC
1 ATCTGC
8714780 AAAACCAGCG
Statistics
Matches: 76, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
44 35 0.46
45 39 0.51
46 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (45 bp):
ATCTGCGAATTTTTGTTGCGTATCCACAGCCTAGTGGCAGATTTT
Found at i:8714750 original size:44 final size:44
Alignment explanation
Indices: 8714627--8714756 Score: 154
Period size: 45 Copynumber: 2.9 Consensus size: 44
8714617 CCCATAACCC
* **
8714627 AGTGGTAGGTTTCATCTGCGAATTTTTGTTTTGTATCCACAGCCT
1 AGTGGCAGGTTTCATCTGCGAA-TTTTGTTGCGTATCCACAGCCT
* * *
8714672 AGTGGCAGATTTTATCTGCGATATTTTGTTGCGTACCCACAG-CT
1 AGTGGCAGGTTTCATCTGCGA-ATTTTGTTGCGTATCCACAGCCT
* *
8714716 GAGTTGCAGGTTTCATCTGCTAATTTTGTTGCGTATCCACA
1 -AGTGGCAGGTTTCATCTGCGAATTTTGTTGCGTATCCACA
8714757 TTCCAGTGGT
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
44 20 0.28
45 51 0.71
46 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.39
Consensus pattern (44 bp):
AGTGGCAGGTTTCATCTGCGAATTTTGTTGCGTATCCACAGCCT
Found at i:8715679 original size:20 final size:20
Alignment explanation
Indices: 8715654--8715769 Score: 84
Period size: 20 Copynumber: 6.0 Consensus size: 20
8715644 GGTTAGACCT
8715654 TCATAATTTTTGGTATCCTC
1 TCATAATTTTTGGTATCCTC
* *
8715674 TCATAACTTTTGGTA-CCCC
1 TCATAATTTTTGGTATCCTC
*
8715693 TTCATAATTATTT-GTA-GC-C
1 -TCATAATT-TTTGGTATCCTC
* *
8715712 TC-TAATTTTTGGTGTTCTC
1 TCATAATTTTTGGTATCCTC
*
8715731 TCATAATTTTTTGTATGCC-C
1 TCATAATTTTTGGTAT-CCTC
*
8715751 TCA-AAATTTTGGATATCCT
1 TCATAATTTTTGG-TATCCT
8715770 TTCAAAATTA
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
16 3 0.04
17 7 0.09
18 3 0.04
19 16 0.21
20 43 0.57
21 4 0.05
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (20 bp):
TCATAATTTTTGGTATCCTC
Found at i:8716291 original size:21 final size:20
Alignment explanation
Indices: 8716267--8716318 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
8716257 AGGGAACACC
8716267 AAAAATATGAGAGAACACAA
1 AAAAATATGAGAGAACACAA
* * * *
8716287 AAAAATTATAAGTGAATACCA
1 AAAAA-TATGAGAGAACACAA
8716308 AAAAATATGAG
1 AAAAATATGAG
8716319 GAAGTCTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.62, C:0.08, G:0.13, T:0.17
Consensus pattern (20 bp):
AAAAATATGAGAGAACACAA
Found at i:8716349 original size:20 final size:20
Alignment explanation
Indices: 8716202--8716374 Score: 90
Period size: 20 Copynumber: 8.7 Consensus size: 20
8716192 TTTTAAGACC
8716202 ATACCAAAAATTATGAG-GA
1 ATACCAAAAATTATGAGAGA
* *
8716221 AGTATC-AAAATTGTTGAGA-A
1 A-TACCAAAAATT-ATGAGAGA
* * * *
8716241 AGTACCAAAATTTCTAAGGGA
1 A-TACCAAAAATTATGAGAGA
*
8716262 ACACCAAAAA-TATGAGAGA
1 ATACCAAAAATTATGAGAGA
* * * *
8716281 ACACAAAAAAATTATAAGTGA
1 ATAC-CAAAAATTATGAGAGA
*
8716302 ATACCAAAAAATATGAG-GA
1 ATACCAAAAATTATGAGAGA
*
8716321 AGT-CTCAAAAATTACGAGAGA
1 A-TAC-CAAAAATTATGAGAGA
* * *
8716342 ATACCAAATAA-CATGAGGGG
1 ATACCAAA-AATTATGAGAGA
8716362 ATACCAAAAATTA
1 ATACCAAAAATTA
8716375 GGAAGTACTA
Statistics
Matches: 115, Mismatches: 26, Indels: 25
0.69 0.16 0.15
Matches are distributed among these distances:
19 23 0.20
20 69 0.60
21 23 0.20
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (20 bp):
ATACCAAAAATTATGAGAGA
Found at i:8717785 original size:25 final size:24
Alignment explanation
Indices: 8717731--8717786 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
8717721 TTGGAATTAC
* *
8717731 TATTAACTCCCAAAATTATTAACA
1 TATTAAATCCCAAAACTATTAACA
8717755 TAATTAAATCCCAACAAACTATTAA-A
1 T-ATTAAATCCC-A-AAACTATTAACA
8717781 TATTAA
1 TATTAA
8717787 TTTTATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 14 0.52
26 3 0.11
27 9 0.33
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (24 bp):
TATTAAATCCCAAAACTATTAACA
Found at i:8722798 original size:25 final size:23
Alignment explanation
Indices: 8722760--8722813 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
8722750 ACAAATAATT
*
8722760 TAAAAATTATAAAATATTTAAAGAA
1 TAAAAATTATAAAAT-TATAAA-AA
8722785 TAAAAATT-TCAAAATTATAAAAA
1 TAAAAATTAT-AAAATTATAAAAA
8722808 TAAAAA
1 TAAAAA
8722814 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 8 0.30
24 6 0.22
25 13 0.48
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
TAAAAATTATAAAATTATAAAAA
Found at i:8722804 original size:17 final size:16
Alignment explanation
Indices: 8722756--8722808 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
8722746 ATCAACAAAT
8722756 AATTTAAAAATTATAAA
1 AATTT-AAAATTATAAA
8722773 ATATTTAAAGA--ATAAA
1 A-ATTTAAA-ATTATAAA
8722789 AATTTCAAAATTATAAA
1 AATTT-AAAATTATAAA
8722806 AAT
1 AAT
8722809 AAAAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 5 0.16
16 9 0.29
17 12 0.39
18 5 0.16
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (16 bp):
AATTTAAAATTATAAA
Found at i:8722806 original size:16 final size:16
Alignment explanation
Indices: 8722756--8722806 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
8722746 ATCAACAAAT
8722756 AATTTAAAAATTATAAA
1 AATTTAAAAATTAT-AA
8722773 ATATTTAAAGAA-TA-AA
1 A-ATTTAAA-AATTATAA
*
8722789 AATTTCAAAATTATAA
1 AATTTAAAAATTATAA
8722805 AA
1 AA
8722807 ATAAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
14 2 0.07
15 8 0.28
16 7 0.24
17 1 0.03
18 9 0.31
19 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AATTTAAAAATTATAA
Found at i:8722824 original size:33 final size:33
Alignment explanation
Indices: 8722756--8722822 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
8722746 ATCAACAAAT
** *
8722756 AATTTAAAAATTATAAAATATTTAAAGAATAAA
1 AATTTAAAAATTATAAAATATAAAAAAAATAAA
*
8722789 AATTTCAAAATTATAAAA-ATAAAAAAAATAAA
1 AATTTAAAAATTATAAAATATAAAAAAAATAAA
8722821 AA
1 AA
8722823 ATAAAAACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (33 bp):
AATTTAAAAATTATAAAATATAAAAAAAATAAA
Found at i:8731753 original size:52 final size:52
Alignment explanation
Indices: 8731693--8731797 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
8731683 CTTGCCCAAT
*
8731693 AAGGTACACATAAAACACAAACCATCCCATGACCAAAACAATCAAAATATAC
1 AAGGTACACATAAAACACAAACCATCCCATGACCAAAACAATCAAAACATAC
8731745 AAGGTACACATAAAACACAAACCATCCCATGACCAAAACAATCAAAACATAC
1 AAGGTACACATAAAACACAAACCATCCCATGACCAAAACAATCAAAACATAC
8731797 A
1 A
8731798 CTTAAAACAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.54, C:0.28, G:0.06, T:0.12
Consensus pattern (52 bp):
AAGGTACACATAAAACACAAACCATCCCATGACCAAAACAATCAAAACATAC
Found at i:8735023 original size:26 final size:26
Alignment explanation
Indices: 8734994--8735101 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
8734984 TGATACAAAT
8734994 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
8735020 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8735046 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
8735072 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8735098 TGAT
1 TGAT
8735102 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:8742065 original size:26 final size:26
Alignment explanation
Indices: 8742036--8742143 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8742026 TGATACAAAT
8742036 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
8742062 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8742088 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
8742114 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8742140 TGAT
1 TGAT
8742144 GGAATTTCAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:8745710 original size:18 final size:18
Alignment explanation
Indices: 8745687--8745724 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
8745677 ACACATTCTC
8745687 ATAATATGAACTTATTTT
1 ATAATATGAACTTATTTT
*
8745705 ATAATATGATCTTATTTT
1 ATAATATGAACTTATTTT
8745723 AT
1 AT
8745725 CTCATGGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (18 bp):
ATAATATGAACTTATTTT
Found at i:8747149 original size:11 final size:10
Alignment explanation
Indices: 8747127--8747156 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
8747117 TCTGTAAGTA
8747127 TTCTGAATTT
1 TTCTGAATTT
8747137 TTCTGAATATT
1 TTCTGAAT-TT
8747148 TTCTGAATT
1 TTCTGAATT
8747157 ATCTGTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (10 bp):
TTCTGAATTT
Found at i:8751284 original size:25 final size:26
Alignment explanation
Indices: 8751229--8751326 Score: 173
Period size: 25 Copynumber: 3.8 Consensus size: 26
8751219 TGATACAAAT
8751229 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
8751255 TGATAATGGATTAGGTAAAT-TTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8751280 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8751306 TGATAAT-GGTTAGGTAAATGT
1 TGATAATGGGTTAGGTAAATGT
8751327 CATGATGGAA
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
25 38 0.55
26 31 0.45
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:8751289 original size:51 final size:49
Alignment explanation
Indices: 8751229--8751332 Score: 181
Period size: 51 Copynumber: 2.1 Consensus size: 49
8751219 TGATACAAAT
*
8751229 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGG-TTAGGTAAATGT-CA
8751280 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTCA
8751329 TGAT
1 TGAT
8751333 GGAATTTCAT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
49 6 0.12
50 11 0.21
51 35 0.67
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.36
Consensus pattern (49 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTCA
Found at i:8753447 original size:26 final size:26
Alignment explanation
Indices: 8753417--8753523 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
8753407 TGATACAAAT
8753417 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
8753443 TGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
8753468 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
8753494 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8753520 TGAT
1 TGAT
8753524 GGAATTTCAT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:8753472 original size:51 final size:52
Alignment explanation
Indices: 8753417--8753523 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
8753407 TGATACAAAT
8753417 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
8753468 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
8753520 TGAT
1 TGAT
8753524 GGAATTTCAT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 47 0.89
52 6 0.11
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:8756331 original size:11 final size:10
Alignment explanation
Indices: 8756309--8756338 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
8756299 TCTGTAAGTA
8756309 TTCTGAATTT
1 TTCTGAATTT
8756319 TTCTGAATATT
1 TTCTGAAT-TT
8756330 TTCTGAATT
1 TTCTGAATT
8756339 ATCTGTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.57
Consensus pattern (10 bp):
TTCTGAATTT
Found at i:8760486 original size:26 final size:26
Alignment explanation
Indices: 8760457--8760564 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8760447 TGATACAAAT
8760457 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
8760483 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8760509 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
8760535 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
8760561 TGAT
1 TGAT
8760565 GGAATTTCAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:8764138 original size:17 final size:17
Alignment explanation
Indices: 8764116--8764149 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8764106 ACACATTCTC
8764116 ATAATATGAACTTATTT
1 ATAATATGAACTTATTT
*
8764133 ATAATATGATCTTATTT
1 ATAATATGAACTTATTT
8764150 TATCTCATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
ATAATATGAACTTATTT
Found at i:8771231 original size:14 final size:14
Alignment explanation
Indices: 8771201--8771251 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
8771191 ATATGATTGA
* *
8771201 AAAAAGAATTATGT
1 AAAAATAATTATAT
8771215 AAAAATATATT-TAT
1 AAAAATA-ATTATAT
8771229 AAAAATAATTATAT
1 AAAAATAATTATAT
*
8771243 AAAATTAAT
1 AAAAATAAT
8771252 GAATCTTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 3 0.09
14 26 0.81
15 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (14 bp):
AAAAATAATTATAT
Found at i:8771363 original size:22 final size:22
Alignment explanation
Indices: 8771338--8771379 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8771328 TACTTTTCTA
*
8771338 GATTTATTTTAGA-TTTATATTT
1 GATTT-TTATAGATTTTATATTT
8771360 GATTTTTATAGATTTTATAT
1 GATTTTTATAGATTTTATAT
8771380 AAAATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (22 bp):
GATTTTTATAGATTTTATATTT
Found at i:8771481 original size:20 final size:20
Alignment explanation
Indices: 8771444--8771481 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8771434 GAACATGTTT
*
8771444 TTAATCATTTTATTACTGAA
1 TTAATCATTTGATTACTGAA
8771464 TTAAT-ATTTGATTGACTG
1 TTAATCATTTGATT-ACTG
8771482 TAACACTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (20 bp):
TTAATCATTTGATTACTGAA
Found at i:8773954 original size:17 final size:17
Alignment explanation
Indices: 8773928--8773963 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
8773918 CCACTAACCA
8773928 TATTATTAAC-TTATTT
1 TATTATTAACTTTATTT
8773944 TATTCATTAACTTTATTT
1 TATT-ATTAACTTTATTT
8773962 TA
1 TA
8773964 ACTAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 6 0.33
18 8 0.44
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTATTAACTTTATTT
Done.