Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 362 of 438
Found at i:113074211 original size:48 final size:48
Alignment explanation
Indices: 113074146--113074316 Score: 177
Period size: 48 Copynumber: 3.6 Consensus size: 48
113074136 ACATCATGAG
* * *
113074146 AGCTAGTGTAAGACATGTCTAGAACATGAATCGACCTCGAGAAATACA
1 AGCTAGTGTAAGACATGTCTAGGACATGAATCGGCCTTGAGAAATACA
* * * ** ** *
113074194 AGCCAGTGTAAGACATGT-TTGTGACATGCATCGGTATTGAG-ACGA-G
1 AGCTAGTGTAAGACATGTCTAG-GACATGAATCGGCCTTGAGAAATACA
* * *
113074240 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACA
1 AGCTAGTGTAAGACATGTCTAGGACATGAATCGGCCTTGAGAAATACA
*
113074288 AGCTAGTGTAAGACCTGTCTAGGACATGA
1 AGCTAGTGTAAGACATGTCTAGGACATGA
113074317 CATTAGCTTA
Statistics
Matches: 97, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
46 34 0.35
47 7 0.07
48 56 0.58
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (48 bp):
AGCTAGTGTAAGACATGTCTAGGACATGAATCGGCCTTGAGAAATACA
Found at i:113074266 original size:46 final size:47
Alignment explanation
Indices: 113074101--113074315 Score: 170
Period size: 46 Copynumber: 4.6 Consensus size: 47
113074091 TGATATGTGT
* * *
113074101 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATCATG-AG---A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CA-TTGA-GAAGACAA
* * * * * * *
113074147 GCTAGTGTAAGACATGTCTAGAACATGAATCGACCTCGAGAAATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG-AAGACAA
* * * * * *
113074195 GCCAGTGTAAGACATGTTTGTGACATGCATCGGTATTGAGACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAAGACAA
* *
113074241 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA-AGACAA
* *
113074289 GCTAGTGTAAGACCTGTCTAGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
113074316 ACATTAGCTT
Statistics
Matches: 129, Mismatches: 33, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
45 2 0.02
46 65 0.50
47 3 0.02
48 57 0.44
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAAGACAA
Found at i:113074314 original size:94 final size:94
Alignment explanation
Indices: 113074143--113074315 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 94
113074133 GCCACATCAT
113074143 GAGAGCTAGTGTAAGACATGTCTAGAACATGAATCGACCTCGAGAAATACAAGCCAGTGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGAACATGAATCGACCTCGAGAAATACAAGCCAGTGTAAGAC
*
113074208 ATGTTTGTGACATGCATCGGTATTGAGAC
66 ATGTTAGTGACATGCATCGGTATTGAGAC
* * * * * * *
113074237 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGAACATGAATCGACCTCGAGAAATACAAGCCAGTGTAAGAC
*
113074302 CTGTCTAG-GACATG
66 ATGT-TAGTGACATG
113074316 ACATTAGCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
94 67 0.97
95 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (94 bp):
GAGAGCTAGTGTAAGACATGTCTAGAACATGAATCGACCTCGAGAAATACAAGCCAGTGTAAGAC
ATGTTAGTGACATGCATCGGTATTGAGAC
Found at i:113075556 original size:28 final size:28
Alignment explanation
Indices: 113075516--113075580 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
113075506 CATAGGCTGT
* * *
113075516 GACACGGGTGTGTCATGGTCGTGTGAGG
1 GACACGGGCGTGTCATAGCCGTGTGAGG
*
113075544 GACACGGGCGTGTTATAGCCGTGTGAGG
1 GACACGGGCGTGTCATAGCCGTGTGAGG
*
113075572 GACATGGGC
1 GACACGGGC
113075581 TATAGACATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.17, C:0.17, G:0.45, T:0.22
Consensus pattern (28 bp):
GACACGGGCGTGTCATAGCCGTGTGAGG
Found at i:113079395 original size:56 final size:56
Alignment explanation
Indices: 113079327--113079438 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
113079317 AACAAAAAAA
*
113079327 TATTTTAGGTACTAAAGTGAAAAAAATAAGTATAATTCAAAAACCAAATTTTGAAT
1 TATTTTAGGTACTAAAGTGAAAAAAATAAGTATAATTCAAAAACCAAATCTTGAAT
* *
113079383 TATTTTAGGTACTAAAGTGAAAAAAATAAGTATAATTCAAAGACCATATCTTGAAT
1 TATTTTAGGTACTAAAGTGAAAAAAATAAGTATAATTCAAAAACCAAATCTTGAAT
113079439 GAAGCTTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (56 bp):
TATTTTAGGTACTAAAGTGAAAAAAATAAGTATAATTCAAAAACCAAATCTTGAAT
Found at i:113080790 original size:20 final size:20
Alignment explanation
Indices: 113080767--113080808 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
113080757 TCTTATTCTG
*
113080767 AATTTTAGGATTTTATCCTA
1 AATTTTAAGATTTTATCCTA
113080787 AATTTTAAGATTTTATCCTA
1 AATTTTAAGATTTTATCCTA
113080807 AA
1 AA
113080809 AAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (20 bp):
AATTTTAAGATTTTATCCTA
Found at i:113080849 original size:20 final size:20
Alignment explanation
Indices: 113080826--113080877 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
113080816 AAATCCAAAT
*
113080826 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAAGA
113080846 TAAAAT-CTTGAAATTCAAGA
1 TAAAATAC-TGAAATTCAAGA
113080866 TAAGAATACTGA
1 TAA-AATACTGA
113080878 TGCAGCATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 20 0.71
21 6 0.21
22 1 0.04
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.27
Consensus pattern (20 bp):
TAAAATACTGAAATTCAAGA
Found at i:113082020 original size:21 final size:21
Alignment explanation
Indices: 113081974--113082021 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
113081964 TAATAATTAC
* * *
113081974 TATAATTGTGTGATTTAATAT
1 TATAGTTGTGGGATTTAAAAT
113081995 TATAGTTGTGGGA-TTAAAAT
1 TATAGTTGTGGGATTTAAAAT
113082015 TAATAGT
1 T-ATAGT
113082022 GAAATATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (21 bp):
TATAGTTGTGGGATTTAAAAT
Found at i:113091866 original size:14 final size:14
Alignment explanation
Indices: 113091849--113091879 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
113091839 CTATTTGTTT
*
113091849 TTATTTAATTTATA
1 TTATTTAATTTACA
113091863 TTATTTAATTTACA
1 TTATTTAATTTACA
113091877 TTA
1 TTA
113091880 ACCCTAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATTTAATTTACA
Found at i:113093858 original size:9 final size:9
Alignment explanation
Indices: 113093846--113093879 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
113093836 TTAATTATTT
113093846 AATTTTAAA
1 AATTTTAAA
113093855 AATTTTAAA
1 AATTTTAAA
*
113093864 ATAATTTAAA
1 A-ATTTTAAA
113093874 AATTTT
1 AATTTT
113093880 TATTTAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
AATTTTAAA
Found at i:113103400 original size:18 final size:18
Alignment explanation
Indices: 113103377--113103413 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
113103367 AAGATCACAT
113103377 AGTTAGGATGATCTATTC
1 AGTTAGGATGATCTATTC
113103395 AGTTAGGATGATCTATTC
1 AGTTAGGATGATCTATTC
113103413 A
1 A
113103414 CCAGTAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (18 bp):
AGTTAGGATGATCTATTC
Found at i:113109073 original size:22 final size:19
Alignment explanation
Indices: 113109035--113109072 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
113109025 CATATTGGCG
113109035 ACACTAATAAAAATTATTA
1 ACACTAATAAAAATTATTA
113109054 ACACTAATAAAAATTATTA
1 ACACTAATAAAAATTATTA
113109073 TTGTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (19 bp):
ACACTAATAAAAATTATTA
Found at i:113112991 original size:38 final size:39
Alignment explanation
Indices: 113112902--113112998 Score: 115
Period size: 39 Copynumber: 2.5 Consensus size: 39
113112892 CGAATATAAT
* * * *
113112902 AATTATAATTACCACAAGTATAATAATGTTTGACCGAAA
1 AATTATAATTACAATAATTATAATAATATTTGACCGAAA
* * *
113112941 AATTACAATTACAATAATTATAATAATATTTGATCG-TA
1 AATTATAATTACAATAATTATAATAATATTTGACCGAAA
*
113112979 AATTTTAATTACAATAATTA
1 AATTATAATTACAATAATTA
113112999 CAACAAGGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
38 19 0.39
39 30 0.61
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.37
Consensus pattern (39 bp):
AATTATAATTACAATAATTATAATAATATTTGACCGAAA
Found at i:113126827 original size:2 final size:2
Alignment explanation
Indices: 113126820--113126848 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
113126810 ATTGTTTAGG
113126820 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
113126849 CTTTGGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113130685 original size:42 final size:42
Alignment explanation
Indices: 113130626--113130717 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
113130616 TGGCCCATAG
**
113130626 GCCCATTTCAATATCACAT-ATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATGA-AATACCAATGAAAGAATGCAA
* *
113130668 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
*
113130710 ACCCATTT
1 GCCCATTT
113130718 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
Found at i:113130917 original size:47 final size:47
Alignment explanation
Indices: 113130857--113131003 Score: 249
Period size: 47 Copynumber: 3.1 Consensus size: 47
113130847 GGCCTTGCCT
* * *
113130857 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
113130904 CTTTTGATCACTGGGGCATAAGCCCTTTAATAATTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
113130951 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
113130998 CTTTTG
1 CTTTTG
113131004 CACTTCCTCC
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 93 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (47 bp):
CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:113130925 original size:24 final size:24
Alignment explanation
Indices: 113130857--113131002 Score: 217
Period size: 23 Copynumber: 6.2 Consensus size: 24
113130847 GGCCTTGCCT
*
113130857 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
113130881 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
113130904 CTTTTGATCACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
113130928 C-TTTAATAATTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
113130951 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
113130975 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
113130998 CTTTT
1 CTTTT
113131003 GCACTTCCTC
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
23 63 0.58
24 45 0.42
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:113131076 original size:20 final size:20
Alignment explanation
Indices: 113131048--113131118 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
113131038 GCATTTATGA
*
113131048 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
113131068 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
113131088 ATATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
113131108 ACATATCATGT
1 ACATATCATGT
113131119 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:113131083 original size:11 final size:11
Alignment explanation
Indices: 113131053--113131107 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
113131043 TATGAACATC
113131053 TCATGTGCATA
1 TCATGTGCATA
*
113131064 TCA--TACATA
1 TCATGTGCATA
113131073 TCATGTGCATA
1 TCATGTGCATA
* *
113131084 TCATAT--ATG
1 TCATGTGCATA
113131093 TCATGTGCATA
1 TCATGTGCATA
113131104 TCAT
1 TCAT
113131108 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:113131194 original size:25 final size:25
Alignment explanation
Indices: 113131155--113131202 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
113131145 ATATATAAAC
* *
113131155 CCTAGGGGTATAATGGTAATTTTTA
1 CCTAGGGGCAAAATGGTAATTTTTA
*
113131180 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTAATTTT
113131203 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTAATTTTTA
Found at i:113132398 original size:27 final size:27
Alignment explanation
Indices: 113132363--113132418 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
113132353 GGGCATATTC
* *
113132363 GTCATTTTACCATATAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
113132390 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
113132417 GT
1 GT
113132419 GTTGTTACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:113132511 original size:27 final size:27
Alignment explanation
Indices: 113132481--113132532 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
113132471 GTAAATCAAC
113132481 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
113132508 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
113132533 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:113132654 original size:27 final size:27
Alignment explanation
Indices: 113132489--113132737 Score: 110
Period size: 27 Copynumber: 9.1 Consensus size: 27
113132479 ACAAACCAAA
* * *
113132489 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTGTAAATCAAG
113132516 GGTATTTCTA-TAATTTT-TAGAAAGTCAAG
1 GGTATTT-TAGTAATTTTGT--AAA-TCAAG
* * *
113132545 GGTATTTCT-GTAACTTTGTAAATTAGG
1 GGTATTT-TAGTAATTTTGTAAATCAAG
* ** **
113132572 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
* *** *
113132599 GGT-TTTTCGGTAATTTCACAAACCAAG
1 GGTATTTT-AGTAATTTTGTAAATCAAG
*
113132626 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
**** * *
113132653 GGTAAAACAATAATTCTGTAAATCAAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
**** * *
113132680 GGTAAAACAGTAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
*** * *
113132707 GGTAAAATAGTAATTCTATAAATCAAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
113132734 GGTA
1 GGTA
113132738 AAACAGTAAT
Statistics
Matches: 182, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.03
27 146 0.80
28 11 0.06
29 18 0.10
30 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTGTAAATCAAG
Found at i:113132682 original size:81 final size:81
Alignment explanation
Indices: 113132608--113132777 Score: 216
Period size: 81 Copynumber: 2.1 Consensus size: 81
113132598 GGGTTTTTCG
*** * * * *
113132608 GTAATT-TCACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGT
1 GTAATTCT-ACAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAATAATTCAGT
113132672 AAATCAAGGGTAAAACA
65 AAATCAAGGGTAAAACA
* * *
113132689 GTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCAGTA
1 GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAATAATTCAGTA
* *
113132754 AATCGAGGGTAAAACG
66 AATCAAGGGTAAAACA
113132770 GTAATTCT
1 GTAATTCT
113132778 GTAAGTCGAG
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
81 75 0.99
82 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.29
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAATAATTCAGTA
AATCAAGGGTAAAACA
Found at i:113132738 original size:27 final size:27
Alignment explanation
Indices: 113132634--113132865 Score: 279
Period size: 27 Copynumber: 8.6 Consensus size: 27
113132624 AGGGTATTTT
* *
113132634 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
113132661 AATAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
113132688 AGTAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCAAGGGTAAAAC
*
113132715 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
113132742 AGTAATTCAGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* * *
113132769 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
113132796 -GATAATTATGTAAATCAGGGGTAAAAC
1 AG-TAATTCTGTAAATCAAGGGTAAAAC
* * *
113132823 GGTAATTATGTAAAT-TAGGTGTAAAAC
1 AGTAATTCTGTAAATCAAGG-GTAAAAC
*
113132850 GGTAATTCTGTAAATC
1 AGTAATTCTGTAAATC
113132866 GGGGGTACTT
Statistics
Matches: 181, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.02
27 177 0.98
28 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:113132899 original size:27 final size:27
Alignment explanation
Indices: 113132878--113132967 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
113132868 GGGTACTTTG
*
113132878 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
113132905 GTAAATTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
113132932 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
113132959 GTAATTTTA
1 GTAATTTTA
113132968 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:113132981 original size:27 final size:27
Alignment explanation
Indices: 113132878--113132982 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
113132868 GGGTACTTTG
* *
113132878 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* * *
113132905 GTAAATTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
113132932 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
113132959 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
113132983 CTAAACAGGG
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.03
27 53 0.84
28 8 0.13
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:113154539 original size:40 final size:40
Alignment explanation
Indices: 113154465--113154726 Score: 411
Period size: 40 Copynumber: 6.6 Consensus size: 40
113154455 AACCCAAGTA
* *
113154465 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
113154504 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
113154544 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
113154584 CCTTCGAGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
113154624 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
113154664 CCTTCGGGACTTAGCCCAGATATAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
113154704 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
113154727 CATTCGAATA
Statistics
Matches: 204, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.06
40 191 0.94
41 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:113159558 original size:38 final size:39
Alignment explanation
Indices: 113159461--113159612 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
113159451 TAAGCCCGAG
113159461 TGATGATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGAT-ATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
113159501 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
113159540 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
113159578 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
113159613 GGTTACCATA
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
38 36 0.34
39 49 0.46
40 21 0.20
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:113159561 original size:77 final size:77
Alignment explanation
Indices: 113159463--113159612 Score: 248
Period size: 77 Copynumber: 1.9 Consensus size: 77
113159453 AGCCCGAGTG
113159463 ATGATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAG-CCCGAAGGCA
1 ATGATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGTCCCGAAGGCA
113159527 ATTGTGCGAGCT
66 ATTGTGCGAGCT
* * *
113159539 ATGATACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 ATGAT-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGTCCCGAAGGC
*
113159604 ATTTGTGCG
65 AATTGTGCG
113159613 GGTTACCATA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
76 5 0.07
77 46 0.68
78 17 0.25
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (77 bp):
ATGATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGCT
Found at i:113159628 original size:40 final size:39
Alignment explanation
Indices: 113159468--113159642 Score: 226
Period size: 39 Copynumber: 4.5 Consensus size: 39
113159458 GAGTGATGAT
*
113159468 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATAT
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATAA
113159507 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGAT-A
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATAA
* * *
113159545 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATAA
* * * * **
113159584 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGCTATGATAA
*
113159624 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAG-CCCGAAGG
113159643 TGTTTTGAAC
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
38 35 0.29
39 46 0.38
40 40 0.33
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.21
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATAA
Found at i:113167664 original size:77 final size:77
Alignment explanation
Indices: 113167569--113167757 Score: 333
Period size: 77 Copynumber: 2.4 Consensus size: 77
113167559 AATGTTCGAG
113167569 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCGGGCTAAGCCCGAAGGCAA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCGGGCTAAGCCCGAAGGCAA
113167634 TTGTGCGAGCTA
66 TTGTGCGAGCTA
113167646 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCGGGCTAAGCCCGAAGGCAA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCGGGCTAAGCCCGAAGGCAA
* *
113167711 TTGTGCGAGTTG
66 TTGTGCGAGCTA
* *
113167723 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
113167758 GGTTACCATA
Statistics
Matches: 107, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
77 90 0.84
78 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (77 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTATGATACCGGGCTAAGCCCGAAGGCAA
TTGTGCGAGCTA
Found at i:113167667 original size:39 final size:39
Alignment explanation
Indices: 113167569--113167757 Score: 319
Period size: 38 Copynumber: 4.9 Consensus size: 39
113167559 AATGTTCGAG
113167569 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
113167608 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
113167646 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
113167685 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
113167723 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
113167758 GGTTACCATA
Statistics
Matches: 143, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
38 74 0.52
39 52 0.36
40 17 0.12
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:113172379 original size:172 final size:172
Alignment explanation
Indices: 113172183--113172518 Score: 483
Period size: 172 Copynumber: 2.0 Consensus size: 172
113172173 TTCTAGACCT
* * * *
113172183 CATTGAAAAGATCTGTTTGATCTTACAGACTATTATTTGTTTATTTGTTAGTTATAGTTTAGTTT
1 CATTGAAAAGATCTGTTGGATCTTACAGACTATTATTTGTTTATTTGTTAGTTACACTTTAGTTA
* * *
113172248 AATCCCAATCTTGTTCTTATTAGTTTCCATTGAATTTGTTTGCTATATTAATTGAGTTCCAAATA
66 AATCCCAATCTTATTCTTATTAGTTTCCATTGAATTTGTTCGCTATATTAACTGAGTTCCAAATA
* * * *
113172313 TTGTCTTAGTGCCATTCATGTTGGTTAGGATGTTTTGGTATG
131 TTGTATTAGTGCCACTCATATTGGTCAGGATGTTTTGGTATG
* * * * *
113172355 CATTGAAAAGGTCTGTTGGATCTTACAGTCTGTTATTTGTTTGTTTGTTAGTTCCACTTTAGTTA
1 CATTGAAAAGATCTGTTGGATCTTACAGACTATTATTTGTTTATTTGTTAGTTACACTTTAGTTA
* ** *
113172420 AATCTCAATCTTATTCTTATTAGTTTCCATTGAATTTGTTCGCTATATTAACTGAGTTTTAAATC
66 AATCCCAATCTTATTCTTATTAGTTTCCATTGAATTTGTTCGCTATATTAACTGAGTTCCAAATA
*
113172485 TTGTATTAGTGTCACTCATATTGGTCAGGATGTT
131 TTGTATTAGTGCCACTCATATTGGTCAGGATGTT
113172519 CCTGTAGCAC
Statistics
Matches: 143, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
172 143 1.00
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.48
Consensus pattern (172 bp):
CATTGAAAAGATCTGTTGGATCTTACAGACTATTATTTGTTTATTTGTTAGTTACACTTTAGTTA
AATCCCAATCTTATTCTTATTAGTTTCCATTGAATTTGTTCGCTATATTAACTGAGTTCCAAATA
TTGTATTAGTGCCACTCATATTGGTCAGGATGTTTTGGTATG
Found at i:113173721 original size:20 final size:20
Alignment explanation
Indices: 113173696--113173784 Score: 65
Period size: 20 Copynumber: 4.2 Consensus size: 20
113173686 CATATAGAGT
* * *
113173696 ATGCCATAAAGGATAATAGA
1 ATGCCACAAAGGATAACAAA
*
113173716 ATGCCACAAGGGATAACAAA
1 ATGCCACAAAGGATAACAAA
113173736 ATGCCAC-AAGGACTAAATCAGAA
1 ATGCCACAAAGGA-T-AA-CA-AA
*
113173759 TATGCCACAAA-GACTAACAGA
1 -ATGCCACAAAGGA-TAACAAA
113173780 ATGCC
1 ATGCC
113173785 TCATAGGCAC
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.07
20 29 0.51
21 3 0.05
22 4 0.07
23 4 0.07
24 11 0.19
25 2 0.04
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.15
Consensus pattern (20 bp):
ATGCCACAAAGGATAACAAA
Found at i:113175562 original size:25 final size:25
Alignment explanation
Indices: 113175533--113175591 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
113175523 GAGCCCGTGA
* *
113175533 GAGCATACAGA-TCTACAACTTGAGT
1 GAGCATACAGATTC-ACAACTCGAAT
* *
113175558 GAGCATACCGATTCACAGCTCGAAT
1 GAGCATACAGATTCACAACTCGAAT
113175583 GAGCATACA
1 GAGCATACA
113175592 TGTACATGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (25 bp):
GAGCATACAGATTCACAACTCGAAT
Found at i:113179628 original size:92 final size:93
Alignment explanation
Indices: 113179457--113179629 Score: 244
Period size: 93 Copynumber: 1.9 Consensus size: 93
113179447 AAGTCAACGA
* *
113179457 CATGTCTCAGACAGATCTTACACTGACTTTCATATATCGAGGCTGATCCCATGTCCCAGACAGGT
1 CATGTCCCAGACAGATCTTACACTGACTTTCATATATCGAGGCCGATCCCATGTCCCAGACAGGT
113179522 CTTACACTAACACACAAGAACATGATGC
66 CTTACACTAACACACAAGAACATGATGC
* * * *
113179550 CATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATTTCGAGGCCGAT-GCATGTCCCAGACAT
1 CATGTCCCAGACAGATCTTACACTGA-CTT-TCATATATCGAGGCCGATCCCATGTCCCAGACAG
*
113179612 GTCTTACACTAGCACACA
64 GTCTTACACTAACACACA
113179630 TATCACTTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
92 31 0.44
93 39 0.55
94 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (93 bp):
CATGTCCCAGACAGATCTTACACTGACTTTCATATATCGAGGCCGATCCCATGTCCCAGACAGGT
CTTACACTAACACACAAGAACATGATGC
Found at i:113179646 original size:93 final size:93
Alignment explanation
Indices: 113179408--113179629 Score: 236
Period size: 93 Copynumber: 2.4 Consensus size: 93
113179398 GATGCTGACG
* ** * * *
113179408 CCATGTCCCAGACATGGTCTTACACTGACTAGCACATCAA-AGTCAACGACATGTCTCAGACAGA
1 CCATGTCCCAGACA-GGTCTTACACTAAC-A-CACAAGAACA-T-AATGCCATGTCCCAGACAGA
*
113179472 TCTTACACTGACTTTCATATATCGAGGCTGATC
61 TCTTACACTGACTTTCATATATCGAGGCCGATC
* *
113179505 CCATGTCCCAGACAGGTCTTACACTAACACACAAGAACATGATGCCATGTCCCAGACAGGTCTTA
1 CCATGTCCCAGACAGGTCTTACACTAACACACAAGAACATAATGCCATGTCCCAGACAGATCTTA
*
113179570 CACT-AGCTTGT-ATATTTCGAGGCCGAT-
66 CACTGA-CTT-TCATATATCGAGGCCGATC
* * *
113179597 GCATGTCCCAGACATGTCTTACACTAGCACACA
1 CCATGTCCCAGACAGGTCTTACACTAACACACA
113179630 TATCACTTAA
Statistics
Matches: 109, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
92 31 0.28
93 41 0.38
94 8 0.07
95 2 0.02
96 13 0.12
97 14 0.13
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (93 bp):
CCATGTCCCAGACAGGTCTTACACTAACACACAAGAACATAATGCCATGTCCCAGACAGATCTTA
CACTGACTTTCATATATCGAGGCCGATC
Found at i:113188840 original size:19 final size:20
Alignment explanation
Indices: 113188811--113188857 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
113188801 AGTTTTAAGT
113188811 ATATATATGTGAATAGTTTG
1 ATATATATGTGAATAGTTTG
* *
113188831 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAGTTTG
113188850 ATGATATA
1 AT-ATATA
113188858 ACATGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAGTTTG
Found at i:113189280 original size:50 final size:50
Alignment explanation
Indices: 113189205--113189549 Score: 363
Period size: 50 Copynumber: 6.9 Consensus size: 50
113189195 TCCATTGTGA
* * *
113189205 GTCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTGCCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * *
113189255 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * *
113189306 ATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
*
113189356 GTCACATGTGTGGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * *
113189406 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCG-TTAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * * * *
113189457 ATCACGTATGTAGTACTAAGTGCAGGCTACTACATGTATCATATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
*
113189507 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATC-TGTACCAGA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA-CGTGTACCAGA
113189550 GAGCTTCGAT
Statistics
Matches: 240, Mismatches: 48, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
49 6 0.03
50 157 0.65
51 75 0.31
52 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:113189386 original size:101 final size:100
Alignment explanation
Indices: 113189206--113189549 Score: 329
Period size: 101 Copynumber: 3.4 Consensus size: 100
113189196 CCATTGTGAG
* * * * *
113189206 TCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTGCCAGATTGATAGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
* * *
113189271 TAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCGA
66 TAAGTGCAGGCTACTACGCGTACCAGATTAA--TAGA
* * *
113189307 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACATGTGTGGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
* * *
113189372 TAAGTGCAGGCTACTACGTGTACCAGATTGATAGG
66 TAAGTGCAGGCTACTACGCGTACCAGATTAATAGA
* * * ** ** * *
113189407 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCG-TTAACTTTGATCACGTATGTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGA-TAAG-TCACATGTGTAGT
** * * *
113189471 ACTAAGTGCAGGCTACTACATGTATCATATGGTTA-AG-
64 ACTAAGTGCAGGCTACTACGCGTACCAGAT--TAATAGA
*
113189508 TCACGTGTGTAGTACTAAGTGCAGGCTACTATC-TGTACCAGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA-CGTGTACCAGA
113189550 GAGCTTCGAT
Statistics
Matches: 202, Mismatches: 34, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
99 1 0.00
100 41 0.20
101 153 0.76
102 5 0.02
103 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCAGATTAATAGA
Found at i:113189478 original size:151 final size:151
Alignment explanation
Indices: 113189204--113189549 Score: 577
Period size: 151 Copynumber: 2.3 Consensus size: 151
113189194 ATCCATTGTG
* *
113189204 AGTCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTGCCAGATTGATAGGTCACATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
*
113189269 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATATGTAGTACTAAGTGCAGGCT
*
113189334 ACTACGTGTATCAGATGGTTA
131 ACTACATGTATCAGATGGTTA
* * *
113189355 AGTCACATGTGTGGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
* * *
113189420 ACTAAGTGCAGGCTACTATGTGTACCCGTTAACTTTGATCACGTATGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATATGTAGTACTAAGTGCAGGCT
*
113189485 ACTACATGTATCATATGGTTA
131 ACTACATGTATCAGATGGTTA
113189506 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTATC-TGTACCAGA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTA-CGTGTACCAGA
113189550 GAGCTTCGAT
Statistics
Matches: 181, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
151 180 0.99
152 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCACATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATATGTAGTACTAAGTGCAGGCT
ACTACATGTATCAGATGGTTA
Found at i:113189770 original size:16 final size:16
Alignment explanation
Indices: 113189749--113189780 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
113189739 AGAATGGAGT
113189749 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
113189765 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
113189781 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:113195748 original size:49 final size:49
Alignment explanation
Indices: 113195688--113195862 Score: 196
Period size: 49 Copynumber: 3.6 Consensus size: 49
113195678 CATCAAAGTT
* *
113195688 GATGCCATGTCCCAAACAGGTCTTAGACTGACTTTCATATATCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCC
* * * * * *
113195737 GATGCCGTGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGATGG-T
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGA-GGCC
* *
113195786 GACGCCATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGCC
*
113195835 GATG-CATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
113195863 AGCACATATA
Statistics
Matches: 104, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
48 25 0.24
49 76 0.73
50 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCC
Found at i:113195805 original size:98 final size:96
Alignment explanation
Indices: 113195637--113195862 Score: 269
Period size: 98 Copynumber: 2.3 Consensus size: 96
113195627 GGGATAAGAT
* * *
113195637 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTTGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTAGCACATCAAAGGTGACGCCATGTCCCA
*
113195702 AACAGGTCTTAGACT-GACTT-TCATATATCGAG
65 AACAGGTCTTACACTAG-CTTGT-ATATATCGAG
* * ** * *
113195734 GCCGATGCCGTGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCGATGGTGACGCCATGTCCC
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTAGCA-C-ATCAAAGGTGACGCCATGTCCC
* *
113195799 AGACAGGTCTTACACTAGCTTGTATATCTCGAG
64 AAACAGGTCTTACACTAGCTTGTATATATCGAG
*
113195832 GCCGATG-CATGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
113195863 AGCACATATA
Statistics
Matches: 110, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
96 17 0.15
97 40 0.36
98 51 0.46
99 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTAGCACATCAAAGGTGACGCCATGTCCCAA
ACAGGTCTTACACTAGCTTGTATATATCGAG
Found at i:113209598 original size:31 final size:31
Alignment explanation
Indices: 113209563--113209624 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
113209553 TAATTACTAG
113209563 ATTACCAAAATGCCCCTAACTTAATAATATT
1 ATTACCAAAATGCCCCTAACTTAATAATATT
*
113209594 ATTACCAAGATGCCCCTAACTTAATAATATT
1 ATTACCAAAATGCCCCTAACTTAATAATATT
113209625 CTATTTCACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (31 bp):
ATTACCAAAATGCCCCTAACTTAATAATATT
Found at i:113211488 original size:25 final size:25
Alignment explanation
Indices: 113211421--113211514 Score: 61
Period size: 25 Copynumber: 3.8 Consensus size: 25
113211411 GTTTTTACCC
* *
113211421 ACAGCTCGTGTGAGCATACCGATTT
1 ACAGCTCGAGTGAGCATACCGATCT
* * *
113211446 ATAGCT-TA-TGAGACCATACTGATCT
1 ACAGCTCGAGTGAG--CATACCGATCT
* *
113211471 ACAGCTCGAGTGAGCATAGCAAT-T
1 ACAGCTCGAGTGAGCATACCGATCT
113211495 CACAGCTCGTA-TGAGCATAC
1 -ACAGCTCG-AGTGAGCATAC
113211515 ATGTACATAA
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
23 4 0.08
24 1 0.02
25 41 0.79
26 2 0.04
27 4 0.08
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
ACAGCTCGAGTGAGCATACCGATCT
Found at i:113214616 original size:31 final size:29
Alignment explanation
Indices: 113214581--113214638 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
113214571 TAATAGTATT
*
113214581 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
113214612 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
113214639 GTAGATAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:113214681 original size:62 final size:61
Alignment explanation
Indices: 113214608--113214726 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 61
113214598 AGTGATTATC
* * * *
113214608 TTAATATTAAATTAAATTTAATGTTTATCTTGTAGATAAACATTTTATTATTTTAATAAGAT
1 TTAATATTAAATTAAATCTAATATTTATCTT-TAGATAAACATTATATTAATTTAATAAGAT
* *
113214670 TTAATATTAAATTTAATCTAATATTTATCTTTAGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATATTTATCTTTAGATAAACATTATATTAATTTAATA
113214727 TTAAAATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
61 23 0.45
62 28 0.55
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (61 bp):
TTAATATTAAATTAAATCTAATATTTATCTTTAGATAAACATTATATTAATTTAATAAGAT
Found at i:113214759 original size:48 final size:48
Alignment explanation
Indices: 113214699--113214797 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
113214689 AATATTTATC
113214699 TTTAGATAAATATTATATTAATTTAATATTAAAATTTTTAGAAATATT
1 TTTAGATAAATATTATATTAATTTAATATTAAAATTTTTAGAAATATT
113214747 TTTAGATAAATATTATATTAATTTAATATTAAAATTTTTAGAAATATT
1 TTTAGATAAATATTATATTAATTTAATATTAAAATTTTTAGAAATATT
113214795 TTT
1 TTT
113214798 CTAATTTACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (48 bp):
TTTAGATAAATATTATATTAATTTAATATTAAAATTTTTAGAAATATT
Found at i:113223754 original size:41 final size:40
Alignment explanation
Indices: 113223587--113223767 Score: 247
Period size: 40 Copynumber: 4.5 Consensus size: 40
113223577 GCTCGATTGT
* * * *
113223587 CTTCGGGACATAGCCCGG-TTATAGTAATTCGCGCAAATGC
1 CTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGC
*
113223627 CTTCGGGACTTAACCCGGATTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
*
113223667 CTTCGGGAATTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
* * *
113223707 CTTCGGGACTTAACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACAAATGC
*
113223748 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAACCCGGAT
113223768 ACCATTCGAA
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
40 96 0.76
41 31 0.24
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
Found at i:113225911 original size:12 final size:13
Alignment explanation
Indices: 113225894--113225925 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
113225884 ATAGCACATT
113225894 TCAAAAC-ATGCA
1 TCAAAACTATGCA
113225906 TCAAAACTATGCA
1 TCAAAACTATGCA
113225919 -CAAAACT
1 TCAAAACT
113225926 TAACATTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:113236702 original size:2 final size:2
Alignment explanation
Indices: 113236695--113236733 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
113236685 TTATTGGTAT
113236695 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
113236734 TCTATTGTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:113236765 original size:12 final size:13
Alignment explanation
Indices: 113236748--113236785 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
113236738 TTGTTGGAAA
*
113236748 TGAATTATTAT-T
1 TGAATTATAATAT
113236760 TGAATTATAATAT
1 TGAATTATAATAT
113236773 TGAATT-TAATAT
1 TGAATTATAATAT
113236785 T
1 T
113236786 CGGTTTGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (13 bp):
TGAATTATAATAT
Found at i:113236996 original size:21 final size:21
Alignment explanation
Indices: 113236972--113237018 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
113236962 CTCTTTCAAA
*
113236972 CTTCTGTTCAGCTCTTATGAG
1 CTTCTGTTAAGCTCTTATGAG
*
113236993 CTTCTGTTAAGCTTTTATGAG
1 CTTCTGTTAAGCTCTTATGAG
113237014 CTTCT
1 CTTCT
113237019 CTTGGCATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (21 bp):
CTTCTGTTAAGCTCTTATGAG
Found at i:113248372 original size:19 final size:19
Alignment explanation
Indices: 113248348--113248384 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
113248338 TATACACACA
113248348 TTAACTAAGTAACCGAATT
1 TTAACTAAGTAACCGAATT
113248367 TTAACTAAGTAACCGAAT
1 TTAACTAAGTAACCGAAT
113248385 ATGCAAGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (19 bp):
TTAACTAAGTAACCGAATT
Found at i:113248738 original size:43 final size:43
Alignment explanation
Indices: 113248672--113248756 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
113248662 AAATCGTACA
*
113248672 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
113248715 ATGCC-ACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATC
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACTCGTAAACACATATC
113248757 AGAATCACAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
42 3 0.08
43 34 0.89
44 1 0.03
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:113252949 original size:25 final size:25
Alignment explanation
Indices: 113252921--113252968 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
113252911 TTATACCATG
* * *
113252921 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
113252946 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
113252969 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:113253037 original size:20 final size:20
Alignment explanation
Indices: 113253012--113253070 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
113253002 TAAATATGGT
113253012 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
113253032 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
113253052 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
113253071 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:113253052 original size:11 final size:11
Alignment explanation
Indices: 113253016--113253070 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
113253006 TATGGTATGT
113253016 ATGATATGCAC
1 ATGATATGCAC
* *
113253027 ATGAAATG--T
1 ATGATATGCAC
113253036 ATGATATGCAC
1 ATGATATGCAC
*
113253047 ATGATATG--T
1 ATGATATGCAC
113253056 ATGATATGCAC
1 ATGATATGCAC
113253067 ATGA
1 ATGA
113253071 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:113253199 original size:23 final size:23
Alignment explanation
Indices: 113253121--113253287 Score: 246
Period size: 24 Copynumber: 7.0 Consensus size: 23
113253111 GAGGAAGTGA
113253121 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
113253144 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
113253168 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
113253192 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
113253215 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
113253239 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
113253263 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
113253287 A
1 A
113253288 TGATAAAGCA
Statistics
Matches: 135, Mismatches: 5, Indels: 6
0.92 0.03 0.04
Matches are distributed among these distances:
23 45 0.33
24 80 0.59
25 10 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:113253214 original size:47 final size:46
Alignment explanation
Indices: 113253121--113253287 Score: 246
Period size: 47 Copynumber: 3.5 Consensus size: 46
113253111 GAGGAAGTGA
113253121 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT
113253168 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
* *
113253215 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTA-T
*
113253263 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
113253288 TGATAAAGCA
Statistics
Matches: 111, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
46 22 0.20
47 44 0.40
48 35 0.32
49 10 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:113253513 original size:31 final size:31
Alignment explanation
Indices: 113253478--113253572 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
113253468 CGTTTACAGT
113253478 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
113253509 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
113253540 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
113253571 AA
1 AA
113253573 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:113261216 original size:20 final size:20
Alignment explanation
Indices: 113261191--113261249 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
113261181 TAAATATGGT
113261191 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
113261211 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
113261231 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
113261250 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:113261231 original size:11 final size:11
Alignment explanation
Indices: 113261195--113261249 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
113261185 TATGGTATGT
113261195 ATGATATGCAC
1 ATGATATGCAC
* *
113261206 ATGAAATG--T
1 ATGATATGCAC
113261215 ATGATATGCAC
1 ATGATATGCAC
*
113261226 ATGATATG--T
1 ATGATATGCAC
113261235 ATGATATGCAC
1 ATGATATGCAC
113261246 ATGA
1 ATGA
113261250 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:113261377 original size:23 final size:23
Alignment explanation
Indices: 113261299--113261465 Score: 246
Period size: 24 Copynumber: 7.0 Consensus size: 23
113261289 GGAGGAAGTG
113261299 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
113261322 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
113261346 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
113261370 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
113261393 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
113261417 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
113261441 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
113261465 A
1 A
113261466 TGATAAAGCA
Statistics
Matches: 135, Mismatches: 5, Indels: 6
0.92 0.03 0.04
Matches are distributed among these distances:
23 45 0.33
24 80 0.59
25 10 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:113261392 original size:47 final size:46
Alignment explanation
Indices: 113261299--113261465 Score: 246
Period size: 47 Copynumber: 3.5 Consensus size: 46
113261289 GGAGGAAGTG
113261299 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT
113261346 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
* *
113261393 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTA-T
*
113261441 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
113261466 TGATAAAGCA
Statistics
Matches: 111, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
46 22 0.20
47 44 0.40
48 35 0.32
49 10 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:113261691 original size:31 final size:31
Alignment explanation
Indices: 113261656--113261750 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
113261646 CGTTTACAGT
113261656 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
113261687 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
113261718 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
113261749 AA
1 AA
113261751 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:113262493 original size:13 final size:13
Alignment explanation
Indices: 113262475--113262500 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113262465 CTCTGCATTC
113262475 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
113262488 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
113262501 AGCAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:113271917 original size:13 final size:13
Alignment explanation
Indices: 113271899--113271924 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113271889 CTCTGCATTC
113271899 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
113271912 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
113271925 AGCAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:113274953 original size:13 final size:12
Alignment explanation
Indices: 113274930--113274976 Score: 58
Period size: 13 Copynumber: 3.7 Consensus size: 12
113274920 CATTTTACCC
*
113274930 TTTTCTTTATTT
1 TTTTATTTATTT
113274942 TCTTTATTTATTT
1 T-TTTATTTATTT
113274955 TTGTTATATTATTT
1 TT-TTAT-TTATTT
113274969 TTTTATTT
1 TTTTATTT
113274977 TACTCATCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 4 0.13
13 19 0.61
14 8 0.26
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTATTTATTT
Found at i:113275169 original size:6 final size:6
Alignment explanation
Indices: 113275160--113275234 Score: 78
Period size: 6 Copynumber: 11.7 Consensus size: 6
113275150 CTTTTTCGTT
* *
113275160 TTTTTA TTTTTTA TTTTTTA TTTTTA TTTTTA TCTTTA TCTTTA TTTTTA
1 TTTTTA -TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
113275210 TTTGTA GTTGCTTTA TTTTTA TTTT
1 TTTTTA -TT--TTTA TTTTTA TTTT
113275235 CTTAGACTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
6 41 0.67
7 15 0.25
8 2 0.03
9 3 0.05
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:113275169 original size:7 final size:7
Alignment explanation
Indices: 113275159--113275190 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
113275149 TCTTTTTCGT
113275159 TTTTTTA
1 TTTTTTA
113275166 TTTTTTA
1 TTTTTTA
113275173 TTTTTTA
1 TTTTTTA
113275180 -TTTTTA
1 TTTTTTA
113275186 TTTTT
1 TTTTT
113275191 ATCTTTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:113275169 original size:15 final size:14
Alignment explanation
Indices: 113275159--113275190 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
113275149 TCTTTTTCGT
113275159 TTTTTTATTTTTTA
1 TTTTTTATTTTTTA
113275173 TTTTTTA-TTTTTA
1 TTTTTTATTTTTTA
113275186 TTTTT
1 TTTTT
113275191 ATCTTTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTATTTTTTA
Found at i:113281824 original size:23 final size:23
Alignment explanation
Indices: 113281782--113281906 Score: 128
Period size: 23 Copynumber: 5.4 Consensus size: 23
113281772 TCAACTCGTA
* *
113281782 AGAGCTTATTGTTTTCAGCTCATT
1 AGAGCTTACTG-TTTCAGCTCAAT
*
113281806 GGAGCTTACTGTTTCAGCTC-AT
1 AGAGCTTACTGTTTCAGCTCAAT
* **
113281828 ATGAGCTTATTG-TTCAGCTTGAT
1 A-GAGCTTACTGTTTCAGCTCAAT
**
113281851 AGAGCTTACCATTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCAAT
* *
113281874 AGAGCTTACTATTTCAGCTAAAT
1 AGAGCTTACTGTTTCAGCTCAAT
113281897 AGAGCTTACT
1 AGAGCTTACT
113281907 ATTCATCAAC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
22 15 0.18
23 61 0.72
24 9 0.11
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.38
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAT
Found at i:113288212 original size:24 final size:23
Alignment explanation
Indices: 113288179--113288397 Score: 294
Period size: 24 Copynumber: 9.3 Consensus size: 23
113288169 GGCCTAGCTT
*
113288179 CTTTTAGTAACTGGGGCAAAAGCC
1 CTTTT-GTAACTGGGGCATAAGCC
113288203 CTTTTTGTAACTGGGGCATAAGCC
1 C-TTTTGTAACTGGGGCATAAGCC
*
113288227 CTTTTGATCACTGGGGCATAAGCC
1 CTTTTG-TAACTGGGGCATAAGCC
** *
113288251 CTTTAATAACTGGGGCATAAGTC
1 CTTTTGTAACTGGGGCATAAGCC
113288274 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTG-TAACTGGGGCATAAGCC
*
113288298 CTTTTGATAACCGGGGCATAAGCC
1 CTTTTG-TAACTGGGGCATAAGCC
113288322 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTG-TAACTGGGGCATAAGCC
**
113288346 CTTTAATAACTGGGGCATAAGCC
1 CTTTTGTAACTGGGGCATAAGCC
**
113288369 CTTTAATAACTGGGGCATAAGCC
1 CTTTTGTAACTGGGGCATAAGCC
113288392 CTTTTG
1 CTTTTG
113288398 CACTTCCTCC
Statistics
Matches: 177, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
23 68 0.38
24 105 0.59
25 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (23 bp):
CTTTTGTAACTGGGGCATAAGCC
Found at i:113288265 original size:71 final size:70
Alignment explanation
Indices: 113288181--113288395 Score: 315
Period size: 71 Copynumber: 3.0 Consensus size: 70
113288171 CCTAGCTTCT
* * *
113288181 TTTAGTAACTGGGGCAAAAGCCCTTTTTGTAACTGGGGCATAAGCCCTTTTGATCACTGGGGCAT
1 TTTAATAACTGGGGCATAAGCCC-TTTTGTAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAT
113288246 AAGCCC
65 AAGCCC
* *
113288252 TTTAATAACTGGGGCATAAGTCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACCGGGGCAT
1 TTTAATAACTGGGGCATAAGCCCTTTTG-TAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAT
113288317 AAGCCC
65 AAGCCC
* ** *
113288323 TTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCAT
1 -TTTAATAACTGGGGCATAAGCCCTTTTGTAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAT
113288387 AAGCCC
65 AAGCCC
113288393 TTT
1 TTT
113288396 TGCACTTCCT
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
69 3 0.02
70 26 0.20
71 78 0.60
72 24 0.18
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (70 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGTAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
AGCCC
Found at i:113288287 original size:95 final size:95
Alignment explanation
Indices: 113288181--113288396 Score: 355
Period size: 95 Copynumber: 2.3 Consensus size: 95
113288171 CCTAGCTTCT
* * * *
113288181 TTTAGTAACTGGGGCAAAAGCCCTTTTTG-TAACTGGGGCATAAGCCCTTTTGATCACTGGGGCA
1 TTTAATAACTGGGGCATAAGCCCTTTTTGATAACCGGGGCATAAGCCCTTTTGATAACTGGGGCA
*
113288245 TAAGCCCTTTAATAACTGGGGCATAAGTCCT
66 TAAGCCCTTTAATAACTGGGGCATAAG-CCC
*
113288276 TTTGATAACTGGGGCATAAGCCC-TTTTGATAACCGGGGCATAAGCCCTTTTGATAACTGGGGCA
1 TTTAATAACTGGGGCATAAGCCCTTTTTGATAACCGGGGCATAAGCCCTTTTGATAACTGGGGCA
113288340 TAAGCCCTTTAATAACTGGGGCATAAGCCC
66 TAAGCCCTTTAATAACTGGGGCATAAGCCC
113288370 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
113288397 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
94 29 0.26
95 83 0.74
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (95 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTGATAACCGGGGCATAAGCCCTTTTGATAACTGGGGCA
TAAGCCCTTTAATAACTGGGGCATAAGCCC
Found at i:113288468 original size:9 final size:9
Alignment explanation
Indices: 113288454--113288510 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
113288444 ATCTCATGTG
113288454 CATATCATA
1 CATATCATA
*
113288463 CATATCATGTG
1 CATATCA--TA
113288474 CATATCATA
1 CATATCATA
* *
113288483 CATGTCATGTG
1 CATATCA--TA
113288494 CATATCATA
1 CATATCATA
113288503 CATATCAT
1 CATATCAT
113288511 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:113288470 original size:20 final size:20
Alignment explanation
Indices: 113288442--113288512 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
113288432 GCATTTATGA
*
113288442 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
113288462 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
113288482 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
113288502 ACATATCATGT
1 ACATATCATGT
113288513 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:113288477 original size:11 final size:11
Alignment explanation
Indices: 113288447--113288501 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
113288437 TATGAACATC
113288447 TCATGTGCATA
1 TCATGTGCATA
*
113288458 TCA--TACATA
1 TCATGTGCATA
113288467 TCATGTGCATA
1 TCATGTGCATA
* *
113288478 TCA--TACATG
1 TCATGTGCATA
113288487 TCATGTGCATA
1 TCATGTGCATA
113288498 TCAT
1 TCAT
113288502 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:113288577 original size:25 final size:25
Alignment explanation
Indices: 113288549--113288598 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
113288539 ATATATAAAC
* *
113288549 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
113288574 CCTAGGGGCAAAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
113288599 TATTATAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTCA
Found at i:113289706 original size:27 final size:27
Alignment explanation
Indices: 113289645--113289708 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
113289635 GTCATATTCA
113289645 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* *
113289672 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAGGGG-TATTACGG
*
113289699 TCTTTTTACC
1 TCATTTTACC
113289709 TTTTAGGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:113289908 original size:27 final size:27
Alignment explanation
Indices: 113289852--113289922 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
113289842 TGTAAATTAG
* ***
113289852 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTCACAAACCAA
113289879 GGGT-TTTTCGGTAATTTCACAAACCAA
1 GGGTATTTT-GGTAATTTCACAAACCAA
* *
113289906 GGGCATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
113289923 TGTAAATCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
26 4 0.11
27 28 0.78
28 4 0.11
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACAAACCAA
Found at i:113289944 original size:27 final size:27
Alignment explanation
Indices: 113289916--113290206 Score: 356
Period size: 27 Copynumber: 10.8 Consensus size: 27
113289906 GGGCATTTTA
* **
113289916 GTAATTTTGTAAATC-GAGGGTAAAATA
1 GTAATTATGTAAATCAG-GGGTAAAACG
* *
113289943 GTAATTCTGTAAATCA-AGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
113289969 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
113289996 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
113290023 GTAATTCTGTAAGTC-GAGGGTAAAACG
1 GTAATTATGTAAATCAG-GGGTAAAACG
* *
113290050 ATAATTATGTAAATCATGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
113290077 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
113290104 GTAATTCTGTAAGTC-GAGGGTAAAACG
1 GTAATTATGTAAATCAG-GGGTAAAACG
*
113290131 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
113290158 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* * *
113290185 ATAATTCTGTAAATCGGGGGTA
1 GTAATTATGTAAATCAGGGGTA
113290207 CTTTAGTAAT
Statistics
Matches: 227, Mismatches: 31, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
26 23 0.10
27 203 0.89
28 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTATGTAAATCAGGGGTAAAACG
Found at i:113290233 original size:27 final size:27
Alignment explanation
Indices: 113290203--113290301 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
113290193 GTAAATCGGG
*
113290203 GGTACTTT-AGTAATTTTACAAGTCGAA
1 GGTA-TTTCAGTAATTTTACAAATCGAA
* * *
113290230 GGTATTTCGGTAAATTTACAAATCGAG
1 GGTATTTCAGTAATTTTACAAATCGAA
* *
113290257 GGTATTTCAGTATTTTTACAAA-CTAA
1 GGTATTTCAGTAATTTTACAAATCGAA
*
113290283 GGGTATTTCGGTAATTTTA
1 -GGTATTTCAGTAATTTTA
113290302 GTAAACTAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 5 0.08
27 54 0.92
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCGAA
Found at i:113290242 original size:81 final size:81
Alignment explanation
Indices: 113289916--113290206 Score: 469
Period size: 81 Copynumber: 3.6 Consensus size: 81
113289906 GGGCATTTTA
* * ** * *
113289916 GTAATTTTGTAAA-TCGAGGGTAAAATAGTAATTCTGTAAATC-AAGGTAAAACGATAATTATGT
1 GTAATTATGTAAATTAG-GGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGT
113289979 AAATCAGGGGTAAAACG
65 AAATCAGGGGTAAAACG
113289996 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
*
113290061 AATCATGGGTAAAACG
66 AATCAGGGGTAAAACG
113290077 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
1 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
113290142 AATCAGGGGTAAAACG
66 AATCAGGGGTAAAACG
* * *
113290158 GTAATTATGTAAATTAGGGGTAAAACGATAATTCTGTAAATCGGGGGTA
1 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTA
113290207 CTTTAGTAAT
Statistics
Matches: 198, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
80 34 0.17
81 164 0.83
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (81 bp):
GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTA
AATCAGGGGTAAAACG
Found at i:113290253 original size:54 final size:54
Alignment explanation
Indices: 113290195--113290301 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
113290185 ATAATTCTGT
* *
113290195 AAATCGGGGGTACTTT-AGTAATTTTACAAGTCGAA-GGTATTTCGGTAAATTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCGGTAAATTTAC
* * *
113290249 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAAATTTA
113290302 GTAAACTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 6 0.13
54 40 0.87
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCGGTAAATTTAC
Found at i:113290315 original size:27 final size:27
Alignment explanation
Indices: 113290211--113290316 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 27
113290201 GGGGTACTTT
* *
113290211 AGTAATTTTACAAGTCGAAG-GTATTTC
1 AGTAATTTTACAA-ACTAAGAGTATTTC
* * * *
113290238 GGTAAATTTACAAA-TCGAGGGTATTTC
1 AGTAATTTTACAAACT-AAGAGTATTTC
* *
113290265 AGTATTTTTACAAACTAAGGGTATTTC
1 AGTAATTTTACAAACTAAGAGTATTTC
* *
113290292 GGTAATTTTAGTAAACTAA-AGTATT
1 AGTAATTTTA-CAAACTAAGAGTATT
113290317 CTAAACAGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.84
28 8 0.13
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (27 bp):
AGTAATTTTACAAACTAAGAGTATTTC
Found at i:113301136 original size:49 final size:49
Alignment explanation
Indices: 113301064--113301159 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
113301054 AAGCCTAGCT
113301064 GATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACCCC
1 GATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACCCC
*
113301113 GATTCATATATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
1 GATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
113301160 TTTCTAGTAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.26, C:0.25, G:0.04, T:0.45
Consensus pattern (49 bp):
GATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACCCC
Found at i:113304338 original size:50 final size:47
Alignment explanation
Indices: 113304274--113304393 Score: 140
Period size: 45 Copynumber: 2.5 Consensus size: 47
113304264 GGACTCATCA
113304274 CAGCTCATATGAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTTT
1 CAGCTCATATGAGCTTACCG-T-T-TCAGCTCGTAAGAGCTTACTGTTTT
** *
113304324 CAGCTCAT-TGGAGCTTACCGTTTCAGCTCGTGTGAGCTTAC--TATT
1 CAGCTCATAT-GAGCTTACCGTTTCAGCTCGTAAGAGCTTACTGTTTT
113304369 CAGCTC-TATAGAGCTTACCGTTTCA
1 CAGCTCATAT-GAGCTTACCGTTTCA
113304394 TCTCAATAGA
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
44 1 0.02
45 25 0.39
47 17 0.27
48 1 0.02
49 2 0.03
50 18 0.28
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (47 bp):
CAGCTCATATGAGCTTACCGTTTCAGCTCGTAAGAGCTTACTGTTTT
Found at i:113304351 original size:23 final size:23
Alignment explanation
Indices: 113304274--113304408 Score: 100
Period size: 23 Copynumber: 5.7 Consensus size: 23
113304264 GGACTCATCA
113304274 CAGCTCA-TATGAGCTTACCGATATAT
1 CAGCTCATTA-GAGCTTACCG-T-T-T
* * *
113304300 CAGCTCGTAAGAGCTTACTGTTTT
1 CAGCTCATTAGAGCTTACCG-TTT
*
113304324 CAGCTCATTGGAGCTTACCGTTT
1 CAGCTCATTAGAGCTTACCGTTT
*
113304347 CAGCTCGTGT-GAGCTTA-C-TATT
1 CAGCTCAT-TAGAGCTTACCGT-TT
113304369 CAGCTC-TATAGAGCTTACCGTTT
1 CAGCTCAT-TAGAGCTTACCGTTT
* *
113304392 CATCTCAATAGAGCTTA
1 CAGCTCATTAGAGCTTA
113304409 TTGTTCATCA
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
21 3 0.03
22 16 0.18
23 34 0.38
24 19 0.21
25 1 0.01
26 16 0.18
27 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (23 bp):
CAGCTCATTAGAGCTTACCGTTT
Found at i:113309004 original size:40 final size:41
Alignment explanation
Indices: 113308869--113309006 Score: 179
Period size: 41 Copynumber: 3.4 Consensus size: 41
113308859 TTCTGAATCT
* *
113308869 ATGAAAAGGTTGAAAAGGAAGTTATCTGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGAAGCTATCCGAAAAGGATAACAA
113308910 ATGAAAAGGTTGAAAAGGAAGCTATCCGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGAAGCTATCCGAAAAGGATAACAA
* * * * *
113308951 CTGAAAAGGTTGAAAATGATG-TATTCGAAAAGGATATCAA
1 ATGAAAAGGTTGAAAAGGAAGCTATCCGAAAAGGATAACAA
* * *
113308991 AGGAATAGATTGAAAA
1 ATGAAAAGGTTGAAAA
113309007 AAATAGCAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 29 0.34
41 57 0.66
ACGTcount: A:0.50, C:0.07, G:0.24, T:0.20
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAGGAAGCTATCCGAAAAGGATAACAA
Found at i:113312725 original size:21 final size:21
Alignment explanation
Indices: 113312701--113312740 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
113312691 TCCTTTTCTA
*
113312701 AAGTTAAAAATCAAAACTATT
1 AAGTTAAAAAGCAAAACTATT
*
113312722 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAAGCAAAACTA
113312741 CGTTATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAAGCAAAACTATT
Found at i:113316645 original size:36 final size:35
Alignment explanation
Indices: 113316543--113316647 Score: 165
Period size: 35 Copynumber: 3.0 Consensus size: 35
113316533 TCAATTAGAC
* *
113316543 TAGCTCTTATGAGCACTAGTCTGTTTTGGATGGAT
1 TAGCTCTTATGAGCACTGGTGTGTTTTGGATGGAT
*
113316578 TAGCTCTTACGAGCACTGGTGTGTTTTGGATGGAT
1 TAGCTCTTATGAGCACTGGTGTGTTTTGGATGGAT
*
113316613 TAGCTCTTATGAGCATCTGGTGTGTTTCGGATGGA
1 TAGCTCTTATGAGCA-CTGGTGTGTTTTGGATGGA
113316648 ATATGGATGT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 46 0.72
36 18 0.28
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.38
Consensus pattern (35 bp):
TAGCTCTTATGAGCACTGGTGTGTTTTGGATGGAT
Found at i:113318459 original size:18 final size:18
Alignment explanation
Indices: 113318438--113318474 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
113318428 TTGATTTCGG
* *
113318438 AATTCGAATAACTCGAAT
1 AATTCAAATAAATCGAAT
113318456 AATTCAAATAAATCGAAT
1 AATTCAAATAAATCGAAT
113318474 A
1 A
113318475 CCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCAAATAAATCGAAT
Found at i:113318717 original size:20 final size:20
Alignment explanation
Indices: 113318692--113318731 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
113318682 CAACCCTCAA
* *
113318692 AAACTTTTACTTTTCTCCCT
1 AAACTTTTAATTTTCACCCT
113318712 AAACTTTTAATTTTCACCCT
1 AAACTTTTAATTTTCACCCT
113318732 TTACCCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTAATTTTCACCCT
Found at i:113319794 original size:16 final size:17
Alignment explanation
Indices: 113319761--113319793 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
113319751 ATTAATGATA
113319761 TAATTAATTTTCATTTT
1 TAATTAATTTTCATTTT
113319778 TAATT-ATTTT-ATTTT
1 TAATTAATTTTCATTTT
113319793 T
1 T
113319794 TCCAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TAATTAATTTTCATTTT
Found at i:113319952 original size:13 final size:14
Alignment explanation
Indices: 113319915--113319953 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
113319905 TTTTGGTTGC
* *
113319915 TTTTTTATTTTTTA
1 TTTTTCATTCTTTA
113319929 TTTTTCATTCTTTA
1 TTTTTCATTCTTTA
113319943 TTTTTC-TTCTT
1 TTTTTCATTCTT
113319954 CCTTTTACGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTCATTCTTTA
Found at i:113335296 original size:3 final size:3
Alignment explanation
Indices: 113335290--113335343 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
113335280 TATTATTATT
113335290 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
113335338 ATA ATA
1 ATA ATA
113335344 CTTACCATTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:113335636 original size:2 final size:2
Alignment explanation
Indices: 113335629--113335673 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
113335619 CCTTTTACTT
113335629 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113335670 TA TA
1 TA TA
113335674 ATAACTTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:113337425 original size:37 final size:37
Alignment explanation
Indices: 113337368--113337438 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
113337358 TTTAACCTTA
* *
113337368 CAACTCCCTTAAGATCTCTACCTAAATCTTAAGATTG
1 CAACTCCCTTAAGATCTCTACCCAAACCTTAAGATTG
* *
113337405 CAACTCCCTTAAGGTTTCTACCCAAACCTTAAGA
1 CAACTCCCTTAAGATCTCTACCCAAACCTTAAGA
113337439 CTCAACCCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (37 bp):
CAACTCCCTTAAGATCTCTACCCAAACCTTAAGATTG
Found at i:113337876 original size:20 final size:20
Alignment explanation
Indices: 113337848--113337896 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
113337838 TCGTTGGAGC
* **
113337848 TATCAATACCAAAGAAAATT
1 TATCGATACCAAAGAAAAGG
*
113337868 TATCGATACCAAATAAAAGG
1 TATCGATACCAAAGAAAAGG
113337888 TATCGATAC
1 TATCGATAC
113337897 TGGATCGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.24
Consensus pattern (20 bp):
TATCGATACCAAAGAAAAGG
Found at i:113340415 original size:53 final size:52
Alignment explanation
Indices: 113340358--113340494 Score: 177
Period size: 54 Copynumber: 2.6 Consensus size: 52
113340348 TTTCTCCAAT
* *
113340358 GCCATAACCCAACTATGGTCTTATACGGATCACTTGTATCAATT-TAATCCGAA
1 GCCATAGCCCAGCTATGGTCTTATACGGATCAC-T-TATCAATTGTAATCCGAA
* ** *
113340411 GCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTTGTTTTCCGAT
1 GCCATAGCCCAGCTATGGTCTTATACGG--ATCACTTATCAATTGTAATCCGAA
113340465 GCCATAGCCCAGCTATGGTCTTATACGGAT
1 GCCATAGCCCAGCTATGGTCTTATACGGAT
113340495 ATCACTTTTC
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
52 2 0.03
53 33 0.44
54 35 0.47
55 5 0.07
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (52 bp):
GCCATAGCCCAGCTATGGTCTTATACGGATCACTTATCAATTGTAATCCGAA
Found at i:113340481 original size:54 final size:52
Alignment explanation
Indices: 113340301--113340514 Score: 223
Period size: 53 Copynumber: 4.0 Consensus size: 52
113340291 ATATATTATA
* ** * * * * *
113340301 CCGATGCCATATCCTGGATATGGTCTTTTATGGAAGCACTTATCACTTTTCT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTTTTT
* * * * **
113340353 CCAATGCCATAACCCAACTATGGTCTTATACGG-ATCACTTGTATCAATTTAAT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-T-TATCACTTTTTT
*
113340406 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTTGTTTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGG-AATCACTTATCACTT-TTTT
* *
113340460 CCGATGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTTTCACTTGTTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGA-ATCACTTATCACTTTTTT
113340513 CC
1 CC
113340515 ATGTTCCAAC
Statistics
Matches: 134, Mismatches: 22, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
51 4 0.03
52 26 0.19
53 51 0.38
54 48 0.36
55 5 0.04
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (52 bp):
CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTTTTT
Found at i:113343245 original size:2 final size:2
Alignment explanation
Indices: 113343240--113343287 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
113343230 GATATATACA
113343240 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
113343282 TG TG TG
1 TG TG TG
113343288 ATATATGCCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:113348159 original size:86 final size:86
Alignment explanation
Indices: 113348014--113348176 Score: 254
Period size: 86 Copynumber: 1.9 Consensus size: 86
113348004 AGTGACGTTG
* ** **
113348014 ATACACACCTTGAAGTCTTCATTAATTTCTCATAAGTTCATTTTTATCCCCACACACCAACATGT
1 ATACACACCTTGAAGCCTTCATTAATTTCTCATAAGTTCATTGCTATCCCCACACACCAACATAC
113348079 TGTACATATTAATCATTAAAA
66 TGTACATATTAATCATTAAAA
* * *
113348100 ATACACACCTTGAAGCCTTCGTTTATTTCTCATAAGTTCATTGCTATCCCTACACACCAACATAC
1 ATACACACCTTGAAGCCTTCATTAATTTCTCATAAGTTCATTGCTATCCCCACACACCAACATAC
113348165 TGTACATATTAA
66 TGTACATATTAA
113348177 GCATAGCAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (86 bp):
ATACACACCTTGAAGCCTTCATTAATTTCTCATAAGTTCATTGCTATCCCCACACACCAACATAC
TGTACATATTAATCATTAAAA
Found at i:113348972 original size:3 final size:3
Alignment explanation
Indices: 113348964--113349008 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
113348954 CTAAATAAAC
113348964 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
113349009 ACCAACACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:113349541 original size:23 final size:23
Alignment explanation
Indices: 113349494--113349542 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
113349484 AATTTTTTAA
* *
113349494 AAATTGCAAATGAAATTATATAT
1 AAATTACAAATGAAATTATACAT
*
113349517 AAATTACAAATGCAATTATACAT
1 AAATTACAAATGAAATTATACAT
113349540 AAA
1 AAA
113349543 AACATATACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (23 bp):
AAATTACAAATGAAATTATACAT
Found at i:113349681 original size:12 final size:12
Alignment explanation
Indices: 113349650--113349705 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
113349640 CTATAAGTGA
*
113349650 AAAAATATACTT
1 AAAAATATACAT
**
113349662 AATTATATACAT
1 AAAAATATACAT
*
113349674 AAAAATATCCAT
1 AAAAATATACAT
*
113349686 AAAAATTGTACAT
1 AAAAA-TATACAT
113349699 AAAAATA
1 AAAAATA
113349706 CATATGACAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
12 24 0.71
13 10 0.29
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (12 bp):
AAAAATATACAT
Found at i:113349789 original size:19 final size:20
Alignment explanation
Indices: 113349765--113349802 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
113349755 ACGGGTTATG
*
113349765 CATAAATATATACA-AAAAC
1 CATAAAAATATACATAAAAC
113349784 CATAAAAATATACATAAAA
1 CATAAAAATATACATAAAA
113349803 TAGTATTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (20 bp):
CATAAAAATATACATAAAAC
Found at i:113350563 original size:21 final size:21
Alignment explanation
Indices: 113350523--113350572 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
113350513 AGCAAAAAAC
* *
113350523 CTCTAAAATTTCTCCCTAAAG
1 CTCTCAAATTTCTCACTAAAG
* *
113350544 CTCTCAAATTTCTCATTAAAT
1 CTCTCAAATTTCTCACTAAAG
*
113350565 TTCTCAAA
1 CTCTCAAA
113350573 GCTCTTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (21 bp):
CTCTCAAATTTCTCACTAAAG
Found at i:113350773 original size:25 final size:25
Alignment explanation
Indices: 113350745--113350828 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
113350735 TTTGAATACT
113350745 ATTTAATATTTTTTTCATTTATGTA
1 ATTTAATATTTTTTTCATTTATGTA
* ** *
113350770 ATTTTA-ATTAATTTCAATTTTTTGAATA
1 ATTTAATATTTTTTTC-A-TTTATG--TA
*
113350798 GTATTTAATATTTTTTCCATTTATGTA
1 --ATTTAATATTTTTTTCATTTATGTA
113350825 ATTT
1 ATTT
113350829 TAATTAATTT
Statistics
Matches: 43, Mismatches: 9, Indels: 14
0.65 0.14 0.21
Matches are distributed among these distances:
24 7 0.16
25 10 0.23
26 5 0.12
27 2 0.05
28 2 0.05
29 5 0.12
30 6 0.14
31 6 0.14
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (25 bp):
ATTTAATATTTTTTTCATTTATGTA
Found at i:113350836 original size:30 final size:30
Alignment explanation
Indices: 113350747--113350836 Score: 75
Period size: 30 Copynumber: 3.2 Consensus size: 30
113350737 TGAATACTAT
*
113350747 TTAATATTTTTTTCATTTATGTAATTTTAA
1 TTAATATTTTTTCCATTTATGTAATTTTAA
* * ** *
113350777 TT-A-A---TTTCAATTT-TTTGAATAGTAT
1 TTAATATTTTTTCCATTTATGT-AATTTTAA
113350802 TTAATATTTTTTCCATTTATGTAATTTTAA
1 TTAATATTTTTTCCATTTATGTAATTTTAA
113350832 TTAAT
1 TTAAT
113350837 TTGTATTTTA
Statistics
Matches: 42, Mismatches: 11, Indels: 14
0.63 0.16 0.21
Matches are distributed among these distances:
24 2 0.05
25 14 0.33
26 1 0.02
27 1 0.02
28 1 0.02
29 1 0.02
30 20 0.48
31 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (30 bp):
TTAATATTTTTTCCATTTATGTAATTTTAA
Found at i:113350845 original size:55 final size:55
Alignment explanation
Indices: 113350735--113350838 Score: 190
Period size: 55 Copynumber: 1.9 Consensus size: 55
113350725 TTAATTTTAA
*
113350735 TTTGAATACTATTTAATATTTTTTTCATTTATGTAATTTTAATTAATTTCAATTT
1 TTTGAATACTATTTAATATTTTTTCCATTTATGTAATTTTAATTAATTTCAATTT
*
113350790 TTTGAATAGTATTTAATATTTTTTCCATTTATGTAATTTTAATTAATTT
1 TTTGAATACTATTTAATATTTTTTCCATTTATGTAATTTTAATTAATTT
113350839 GTATTTTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (55 bp):
TTTGAATACTATTTAATATTTTTTCCATTTATGTAATTTTAATTAATTTCAATTT
Found at i:113352402 original size:18 final size:18
Alignment explanation
Indices: 113352379--113352421 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
113352369 TGCCAGGTGC
*
113352379 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
113352397 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
113352415 GTTTCCT
1 GTATCCT
113352422 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:113355248 original size:40 final size:40
Alignment explanation
Indices: 113355203--113355332 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
113355193 CGGAATACAA
113355203 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
113355243 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
113355283 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
113355323 CCGGATATAA
1 CCGGATATAA
113355333 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:113355347 original size:40 final size:40
Alignment explanation
Indices: 113355203--113355366 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
113355193 CGGAATACAA
* **
113355203 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
113355243 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
113355283 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
113355323 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
113355363 CCGG
1 CCGG
113355367 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:113358058 original size:14 final size:15
Alignment explanation
Indices: 113358022--113358058 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
113358012 TTTCTTTTAT
*
113358022 TTATTATAACTATTA
1 TTATTATATCTATTA
113358037 -TATTATATC-ATTA
1 TTATTATATCTATTA
113358050 TTATTATAT
1 TTATTATAT
113358059 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:113358075 original size:21 final size:21
Alignment explanation
Indices: 113358024--113358086 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
113358014 TCTTTTATTT
* *
113358024 ATTATAACTATTATA--TTAT
1 ATTATAATTATTATATTTTAA
* *
113358043 ATCATTATTATTATATTTTAA
1 ATTATAATTATTATATTTTAA
113358064 ATTATAATTATTAT-TTCTTAA
1 ATTATAATTATTATATT-TTAA
113358085 AT
1 AT
113358087 ATTAAGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATAATTATTATATTTTAA
Done.