Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 125 of 318
Found at i:38468830 original size:50 final size:50
Alignment explanation
Indices: 38468721--38469006 Score: 272
Period size: 50 Copynumber: 5.7 Consensus size: 50
38468711 GAGAACACAC
* * * *** *
38468721 GTGTAGTACTATGTGCATGCTACTATGTGTTTAAGATGGTTTTAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGTCACGT
* * *
38468773 GTGTAGTACTAAGTGCAGGCCACTACGTGTACCAGATAGTTAGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGT
* * * * *
38468823 GTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GACAACTTCA-ATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGA-TAGTT-AGGTCACGT
* * *
38468874 GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGT
* * * * * *
38468924 GTGTAGCACTAGGTGCAGGCTACTACGTGTATCAGATTGTT-GGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGT
* *
38468973 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
38469007 AGTAGCTTCG
Statistics
Matches: 192, Mismatches: 37, Indels: 13
0.79 0.15 0.05
Matches are distributed among these distances:
49 35 0.18
50 86 0.45
51 39 0.20
52 32 0.17
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACGT
Found at i:38468899 original size:101 final size:101
Alignment explanation
Indices: 38468767--38468948 Score: 292
Period size: 101 Copynumber: 1.8 Consensus size: 101
38468757 TGGTTTTAGG
* *
38468767 TCACGTGTGTAGTACTAAGTGCAGGCCACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCCACTACGTGTACCAGATAGTTAGGTCACATGTGTAGCAC
38468832 TAAGTGCAGGCTACTATGCGTACTCGACAACTTCAA
66 TAAGTGCAGGCTACTATGCGTACTCGACAACTTCAA
* * * **
38468868 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGCAC
1 TCACGTGTGTAGTACTAAGTGCAGGCCACTACGTGTACCAGATAGTTAGGTCACATGTGTAGCAC
*
38468933 TAGGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
38468949 CGTGTATCAG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCCACTACGTGTACCAGATAGTTAGGTCACATGTGTAGCAC
TAAGTGCAGGCTACTATGCGTACTCGACAACTTCAA
Found at i:38469040 original size:150 final size:152
Alignment explanation
Indices: 38468723--38469043 Score: 396
Period size: 150 Copynumber: 2.1 Consensus size: 152
38468713 GAACACACGT
* * * * *
38468723 GTAGTACTATGTGCATGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAAGTG
1 GTAGTAATATGTGCAGGCTACTACGTGTATAAGATGG-TTTAGGTCACGTGTGTAGCACTAAGTG
38468788 CAGGCCACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
65 CAGGCCACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
* ** *
38468853 ACTCGACAACTTCAATCACGTGT
130 ACTCAACAACTTCAATCACAAGG
* * * * *
38468876 GTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCATGTGTGTAGCACTAGGTGC
1 GTAGTAATATGTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGCACTAAGTGC
* * *
38468940 AGGCTACTACGTGTATCAGATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
66 AGGCCACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
* * ** *
38469004 C-CAAGTAGCTTCGGTTACAAGG
131 CTCAA-CAACTTCAATCACAAGG
*
38469026 GTGGTAATATGTGCAGGC
1 GTAGTAATATGTGCAGGC
38469044 AACCGTGTAT
Statistics
Matches: 144, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
149 2 0.01
150 64 0.44
151 46 0.32
153 32 0.22
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (152 bp):
GTAGTAATATGTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGCACTAAGTGC
AGGCCACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
CTCAACAACTTCAATCACAAGG
Found at i:38472693 original size:22 final size:22
Alignment explanation
Indices: 38472666--38472718 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
38472656 CACTATCAAT
38472666 ATATTTTGGTATTTTGAAAACA
1 ATATTTTGGTATTTTGAAAACA
38472688 ATATTTTGGTATTTTGAAAACA
1 ATATTTTGGTATTTTGAAAACA
38472710 ATATTTTGG
1 ATATTTTGG
38472719 ATTATGGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (22 bp):
ATATTTTGGTATTTTGAAAACA
Found at i:38482630 original size:47 final size:46
Alignment explanation
Indices: 38482473--38482646 Score: 136
Period size: 47 Copynumber: 3.7 Consensus size: 46
38482463 TGATTTGTGC
* * * *
38482473 GCCAGTGTAAGACATGTCTGGGACAT-GCTTTGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATAGC-ATCGCCATACTATGAGA
* * * * * * * * *
38482519 TCAAGTGTAAGATCATGTCTAGGACATGGCATCGGCATCCAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACATAGCATCGCCATAC-TATGAGA
* * *
38482567 GCTAGTATAAGACATGTCTGGGACAT-GCATCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATAGCATC-GCCATACTATGAGA
*
38482613 GCCAGTGTAAGACCATGTTTGGGACATAGCATCG
1 GCCAGTGTAAGA-CATGTCTGGGACATAGCATCG
38482647 GCTAAGAGAT
Statistics
Matches: 97, Mismatches: 25, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
46 28 0.29
47 49 0.51
48 20 0.21
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATAGCATCGCCATACTATGAGA
Found at i:38482665 original size:94 final size:94
Alignment explanation
Indices: 38482480--38482675 Score: 223
Period size: 94 Copynumber: 2.1 Consensus size: 94
38482470 TGCGCCAGTG
* ** * * *
38482480 TAAGACATGTCTGGGACATGCTTTGGCCACATTATGAGATCAAGTGTAAGATCATGTCTAGGACA
1 TAAGACATGTCTGGGACATGCATCAGCCACACTATGAGAGCAAGTGTAAGACCATGTCTAGGACA
* *
38482545 TGGCATCGGCATCCAGACGAGGGCTAGTA
66 TAGCATCGGCATACAGACGAGGGCTAGTA
* * * * *
38482574 TAAGACATGTCTGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATGTTTGGGACA
1 TAAGACATGTCTGGGACATGCATCAGCCACACTATGAGAGCAAGTGTAAGACCATGTCTAGGACA
* * * *
38482639 TAGCATCGGC-TAAGAGATGAGTGCTAGTG
66 TAGCATCGGCAT-ACAGACGAGGGCTAGTA
38482668 TAAGACAT
1 TAAGACAT
38482676 AATATGATAG
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
93 1 0.01
94 83 0.99
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (94 bp):
TAAGACATGTCTGGGACATGCATCAGCCACACTATGAGAGCAAGTGTAAGACCATGTCTAGGACA
TAGCATCGGCATACAGACGAGGGCTAGTA
Found at i:38488338 original size:47 final size:44
Alignment explanation
Indices: 38488266--38488617 Score: 190
Period size: 47 Copynumber: 7.5 Consensus size: 44
38488256 TAATTTGTGC
* *
38488266 GCCAGTGTAAGACATGTCTAGGACATGCTTCTGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTC-GCCACA-GATGAGA
* * * *
38488312 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGAAGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCTTCGCCA--CAGATGAGA
* * * * * * *
38488360 GCTAGTATAAGACATGTCTGGGACATGCATTAGCTATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGC-TTCGCCACA-GATGAGA
* * * * *
38488406 GCTAATGTAAGACCATGTCTGGGACATGGTATCGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGCT-TC-GC-CACAGATGAGA
* *
38488454 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTC-G-C-C-ACAGATGAGA
** * * * *
38488501 GCCAGTGTAAGACATGTCTGGGACACACATCGGCTA-AGA-GTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCTTC-GCCACAGATG-AGA
* * * *
38488545 GCTAGTGTAAGACATGTCTGAGACATGCATCAG-CACGTGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCTTC-GCCAC----AGATGAGA
38488593 GCCAGTGTAAGACCATGTCTGGGAC
1 GCCAGTGTAAGA-CATGTCTGGGAC
38488618 TTGGCATCAG
Statistics
Matches: 235, Mismatches: 51, Indels: 37
0.73 0.16 0.11
Matches are distributed among these distances:
43 5 0.02
44 29 0.12
45 1 0.00
46 33 0.14
47 99 0.42
48 52 0.22
49 16 0.07
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCTTCGCCACAGATGAGA
Found at i:38488434 original size:94 final size:94
Alignment explanation
Indices: 38488269--38488625 Score: 365
Period size: 94 Copynumber: 3.8 Consensus size: 94
38488259 TTTGTGCGCC
* * * * *
38488269 AGTGTAAGACATGTCTAGGACATGCTTCTGCC-ACATTATGAGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTATACTATGAGAGCCAGTGTAAGACCATGTCTG
*
38488333 GGACATGGCATCGGCATCCAGAAGAGGGCT
66 GGACATGGCATCGGCAT-CAGAAGAGTGCT
* * * * *
38488363 AGTATAAGACATGTCTGGGACATGCATTAG-CTATACTATGATAGCTAATGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTATACTATGAGAGCCAGTGTAAGACCATGTCTG
* *
38488427 GGACATGGTATCGGCA-CAGAGATGAGTGCC
66 GGACATGGCATCGGCATCAGA-A-GAGTGCT
* **
38488457 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAC-A-GAGATAGCCAGTGTAAGA-CATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTATACTATGAG--AGCCAGTGTAAGACCATGTC
** * *
38488519 TGGGACA-CACATCGGC-TAAG-AGTTGTGCT
64 TGGGACATGGCATCGGCATCAGAAG-AGTGCT
* *
38488548 AGTGTAAGACATGTCTGAGACATGCATCAGCACGTGTA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-C-TATACTATGAGAGCCAGTGTAAGACCATGTC
*
38488612 TGGGACTTGGCATC
64 TGGGACATGGCATC
38488626 AGTAATATAT
Statistics
Matches: 215, Mismatches: 34, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
90 1 0.00
91 34 0.16
92 18 0.08
93 27 0.13
94 120 0.56
95 15 0.07
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTATACTATGAGAGCCAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATCAGAAGAGTGCT
Found at i:38489623 original size:7 final size:7
Alignment explanation
Indices: 38489611--38489635 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38489601 GTTGTCTTCT
38489611 TGTTTGA
1 TGTTTGA
38489618 TGTTTGA
1 TGTTTGA
38489625 TGTTTGA
1 TGTTTGA
38489632 TGTT
1 TGTT
38489636 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:38490563 original size:27 final size:28
Alignment explanation
Indices: 38490507--38490576 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
38490497 AAATTTGTAC
38490507 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
38490535 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
38490562 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38490577 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:38497481 original size:7 final size:7
Alignment explanation
Indices: 38497469--38497493 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38497459 GTTGTCTTCT
38497469 TGTTTGA
1 TGTTTGA
38497476 TGTTTGA
1 TGTTTGA
38497483 TGTTTGA
1 TGTTTGA
38497490 TGTT
1 TGTT
38497494 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:38498423 original size:27 final size:28
Alignment explanation
Indices: 38498367--38498436 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
38498357 AAATTTGTAC
38498367 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
38498395 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
38498422 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38498437 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:38502015 original size:55 final size:53
Alignment explanation
Indices: 38501896--38502126 Score: 251
Period size: 55 Copynumber: 4.4 Consensus size: 53
38501886 AGGGTTTAAA
* * * *
38501896 GATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGACAAG
1 GATACCATGTAAGACCATGTCAAGACATGG-CATTGGTAA-G-TTCATAAGGCAAG
* * *
38501951 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC-AAG
* * *
38502007 G-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAG
*
38502059 GATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---AAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGCAAG
38502108 GATACCATGTAAGACCATG
1 GATACCATGTAAGACCATG
38502127 AAAAGTAATG
Statistics
Matches: 153, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
49 22 0.14
51 1 0.01
52 8 0.05
53 45 0.29
54 8 0.05
55 65 0.42
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGCAAG
Found at i:38502099 original size:108 final size:110
Alignment explanation
Indices: 38501900--38502100 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
38501890 TTTAAAGATA
*
38501900 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGACAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGACAAGGAAACCATGTAAGA
*
38501965 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
38502010 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTAA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGACAAGGAAACCATGTAAG
*
38502072 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
38502101 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.56
109 8 0.10
110 26 0.31
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGACAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:38502242 original size:23 final size:24
Alignment explanation
Indices: 38502216--38502260 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
38502206 AAGGTAAGGT
*
38502216 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
38502239 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
38502261 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:38502359 original size:16 final size:16
Alignment explanation
Indices: 38502338--38502368 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38502328 ATAAATTTGA
38502338 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38502354 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38502369 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38504023 original size:26 final size:26
Alignment explanation
Indices: 38503994--38504046 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
38503984 CCGAATCGAT
* *
38503994 GTTAAAAATACCGACTGTTTTCGTTG
1 GTTAAAAATACCGACTATTTTCATTG
*
38504020 GTTATAAATACCGACTATTTTCATTG
1 GTTAAAAATACCGACTATTTTCATTG
38504046 G
1 G
38504047 CTTTGTCCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (26 bp):
GTTAAAAATACCGACTATTTTCATTG
Found at i:38506571 original size:49 final size:49
Alignment explanation
Indices: 38506502--38506764 Score: 427
Period size: 49 Copynumber: 5.4 Consensus size: 49
38506492 TTTACCACAT
*
38506502 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
38506551 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
38506600 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
38506649 ATATATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * * *
38506698 ATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
38506747 ATATATATACATTTTCAC
1 ATATACATACACTTTCAC
38506765 GAATCTTGAT
Statistics
Matches: 201, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 201 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
ATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:38512440 original size:42 final size:41
Alignment explanation
Indices: 38512393--38512529 Score: 154
Period size: 41 Copynumber: 3.3 Consensus size: 41
38512383 AATACTCGAT
*
38512393 ATCTCGCACACTAAGTGCCAATACATAGTCGAAGCTATTAT-A
1 ATCTCGCACACTAAGTGCC-ATACATAGCCGAAGCTATT-TCA
* * *
38512435 ATCTCGCACACTAAGTGCCTTACATAGCCAAAGCTATTTCG
1 ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATTTCA
* * * *
38512476 ATCTCGCATACTAAGTGACATATATAGCCGAAGCCATTTCGA
1 ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATTTC-A
38512518 A--TCGCACACTAA
1 ATCTCGCACACTAA
38512530 ATACCATATA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
40 11 0.14
41 50 0.62
42 20 0.25
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATACATAGCCGAAGCTATTTCA
Found at i:38512538 original size:40 final size:41
Alignment explanation
Indices: 38512438--38512541 Score: 113
Period size: 41 Copynumber: 2.6 Consensus size: 41
38512428 TATTATAATC
* * * * *
38512438 TCGCACACTAAGTGCCTTACATAGCCAAAGCTATTTCGATC
1 TCGCACACTAAGTACCATATATAGCCAAAGCCATTTCGATA
* *
38512479 TCGCATACTAAGTGA-CATATATAGCCGAAGCCATTTCGA-A
1 TCGCACACTAAGT-ACCATATATAGCCAAAGCCATTTCGATA
*
38512519 TCGCACACTAAATACCATATATA
1 TCGCACACTAAGTACCATATATA
38512542 TATATCTGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
39 1 0.02
40 19 0.37
41 32 0.62
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (41 bp):
TCGCACACTAAGTACCATATATAGCCAAAGCCATTTCGATA
Found at i:38515408 original size:29 final size:29
Alignment explanation
Indices: 38515375--38515506 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
38515365 GTGACGAGAT
*
38515375 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
38515404 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
38515433 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
38515462 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
38515491 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38515507 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:38533093 original size:48 final size:48
Alignment explanation
Indices: 38533015--38533252 Score: 271
Period size: 48 Copynumber: 4.9 Consensus size: 48
38533005 ATACTAGGGT
* * *
38533015 TATGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCATTGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACATTGA
** * *
38533063 TATGAGAGCTAGTGTAAGACCATGCCTGGGACATGGCATCGACCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACATTGA
* * * * *
38533111 TATGTGAGCCAGTGTAAGACCATGTTTGGGACCTGACATCGACATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACATTGA
* * * *
38533159 TATGAGAGCTAGTGTAAGAACCATGTATGGGACATGGCATC-AGCCTCGG
1 TATGAGAGCTAGTGTAAG-ACCATGTTTGGGACATGGCATCGA-CATTGA
* * * *
38533208 CATGCGGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACAT
1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACAT
38533253 CAATATATAA
Statistics
Matches: 156, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
48 119 0.76
49 37 0.24
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACATTGA
Found at i:38533234 original size:97 final size:97
Alignment explanation
Indices: 38533020--38533298 Score: 339
Period size: 97 Copynumber: 2.9 Consensus size: 97
38533010 AGGGTTATGT
* * *
38533020 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCATTGATATGAGAGCTAGTGTAAG-ACC
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACATTTATATGAGAGCTAGTGTAAGAACC
* * *
38533084 ATGCCTGGGACATGGCATCGACCTCGATATGT
66 ATGTCTGGGACATGGCATCGACCTCGACATGC
* * *
38533116 GAGCCAGTGTAAGACCATGTTTGGGACCTGACATCGACATTTATATGAGAGCTAGTGTAAGAACC
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACATTTATATGAGAGCTAGTGTAAGAACC
* *
38533181 ATGTATGGGACATGGCATC-AGCCTCGGCATGC
66 ATGTCTGGGACATGGCATCGA-CCTCGACATGC
* * * * * **
38533213 GGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATCAATATATAAGAGCCAGCATAA-AA
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACAT--TTATATGAGAGCTAGTGTAAGAA
*
38533277 CCATGTCTGTGACATGGCATCG
64 CCATGTCTGGGACATGGCATCG
38533299 GCATCTTACC
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
96 56 0.36
97 63 0.41
98 21 0.14
99 15 0.10
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (97 bp):
GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGACATTTATATGAGAGCTAGTGTAAGAACC
ATGTCTGGGACATGGCATCGACCTCGACATGC
Found at i:38539653 original size:40 final size:40
Alignment explanation
Indices: 38539608--38539774 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
38539598 CGGAATATAA
38539608 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
38539648 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
38539688 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
38539728 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
38539767 CCGGATAT
1 CCGGATAT
38539775 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:38547649 original size:40 final size:41
Alignment explanation
Indices: 38547604--38547770 Score: 182
Period size: 40 Copynumber: 4.2 Consensus size: 41
38547594 CGGAATATAA
*
38547604 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
38547644 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
38547684 CCGGATATAA-CCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
38547724 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
38547763 CCGGATAT
1 CCGGATAT
38547771 CATTCAATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
39 16 0.15
40 93 0.85
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:38550912 original size:47 final size:47
Alignment explanation
Indices: 38550794--38550966 Score: 189
Period size: 47 Copynumber: 3.7 Consensus size: 47
38550784 GGATGGTTGA
* *
38550794 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
* *
38550842 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA--AG
* * *
38550887 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAAC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAAG
*
38550934 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
38550967 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 6 0.06
45 32 0.30
46 30 0.28
47 34 0.31
48 1 0.01
49 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAAG
Found at i:38550963 original size:92 final size:93
Alignment explanation
Indices: 38550794--38550963 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
38550784 GGATGGTTGA
* *
38550794 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
38550859 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
38550887 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
38550951 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38550964 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 40 0.55
93 33 0.45
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38558415 original size:46 final size:46
Alignment explanation
Indices: 38558365--38558535 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
38558355 TGGTTGAGCA
*
38558365 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
38558411 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
38558458 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
38558504 CCCG--CTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38558536 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 27 0.25
45 3 0.03
46 33 0.31
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:38558796 original size:19 final size:20
Alignment explanation
Indices: 38558759--38558796 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38558749 ATAAGGTGGT
38558759 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
38558779 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
38558797 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:38563168 original size:20 final size:20
Alignment explanation
Indices: 38563143--38563183 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
38563133 CAATTACTTG
38563143 AAGAAAATATACTGGTGGTC
1 AAGAAAATATACTGGTGGTC
38563163 AAGAAAATATACTGGTGGTC
1 AAGAAAATATACTGGTGGTC
38563183 A
1 A
38563184 GGAATGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (20 bp):
AAGAAAATATACTGGTGGTC
Found at i:38564564 original size:22 final size:22
Alignment explanation
Indices: 38564533--38564589 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
38564523 TAGGTAAGGG
* *
38564533 GGAATTGAAGAAAAGGACGTAAT
1 GGAA-TGAAGAAAAGAACGAAAT
*
38564556 GGAATGAAGAGAAGAACGAAAT
1 GGAATGAAGAAAAGAACGAAAT
* *
38564578 GGTATTAAGAAA
1 GGAATGAAGAAA
38564590 TGGTTCGAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.51, C:0.04, G:0.30, T:0.16
Consensus pattern (22 bp):
GGAATGAAGAAAAGAACGAAAT
Found at i:38570983 original size:14 final size:14
Alignment explanation
Indices: 38570964--38571005 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
38570954 CATAAATCAC
38570964 TTTTTTTTTTCAAA
1 TTTTTTTTTTCAAA
***
38570978 TTTTTTTTCAGAAA
1 TTTTTTTTTTCAAA
38570992 TTTTTTTTTTCAAA
1 TTTTTTTTTTCAAA
38571006 CTTGTATAAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTTTTTTTTCAAA
Found at i:38580097 original size:52 final size:51
Alignment explanation
Indices: 38579989--38580166 Score: 245
Period size: 52 Copynumber: 3.5 Consensus size: 51
38579979 CGGATACCTG
* * * * *
38579989 GTGGCCTGCACACAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAA
*
38580040 GTGGCCTTCACATAGTACCACACTTGTGACCAAATCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
*
38580092 GTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
*
38580141 GTGGTCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
38580167 AGTCACTAGT
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
49 34 0.29
51 39 0.34
52 43 0.37
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:38583545 original size:14 final size:14
Alignment explanation
Indices: 38583526--38583552 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38583516 CATGATAAAG
38583526 TAAAATACAAGTGC
1 TAAAATACAAGTGC
38583540 TAAAATACAAGTG
1 TAAAATACAAGTG
38583553 TGCAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGC
Found at i:38588121 original size:38 final size:38
Alignment explanation
Indices: 38588070--38588146 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
38588060 TTGATATCAA
38588070 ACACTTAAACTCAGTATATTACAAAGCATTTAAACATT
1 ACACTTAAACTCAGTATATTACAAAGCATTTAAACATT
38588108 ACACTTAAACTCAGTATATTACAAAGCATTTAAACATT
1 ACACTTAAACTCAGTATATTACAAAGCATTTAAACATT
38588146 A
1 A
38588147 AAGGTTTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.31
Consensus pattern (38 bp):
ACACTTAAACTCAGTATATTACAAAGCATTTAAACATT
Found at i:38590521 original size:13 final size:13
Alignment explanation
Indices: 38590503--38590528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38590493 ATATTATAAT
38590503 TATTTTATGTTAA
1 TATTTTATGTTAA
38590516 TATTTTATGTTAA
1 TATTTTATGTTAA
38590529 AAATAAAAAT
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:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:38591961 original size:40 final size:40
Alignment explanation
Indices: 38591913--38592118 Score: 335
Period size: 40 Copynumber: 5.2 Consensus size: 40
38591903 AGACTAAGAT
38591913 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
38591953 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
38591993 CCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
38592033 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
38592073 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GTCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
38592112 CCGAAGG
1 CCGAAGG
38592119 TACTTGGGTT
Statistics
Matches: 156, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.09
40 140 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:38594189 original size:24 final size:24
Alignment explanation
Indices: 38594045--38594177 Score: 205
Period size: 24 Copynumber: 5.6 Consensus size: 24
38594035 TTCAACTCCA
* * *
38594045 CACACATAGTGCCAAATAATTACG
1 CACACATAGTGCCATACAAATACG
*
38594069 CA-ACATAGTGCCATACATATACG
1 CACACATAGTGCCATACAAATACG
*
38594092 CACACATAGTGCCATACAAATATG
1 CACACATAGTGCCATACAAATACG
38594116 CACACATAGTGCCATACAAATACG
1 CACACATAGTGCCATACAAATACG
*
38594140 CACACATAGTGCCATACAATTACG
1 CACACATAGTGCCATACAAATACG
38594164 CACACATAGTGCCA
1 CACACATAGTGCCA
38594178 CTCAAATCCG
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
23 19 0.19
24 81 0.81
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.20
Consensus pattern (24 bp):
CACACATAGTGCCATACAAATACG
Found at i:38598554 original size:12 final size:12
Alignment explanation
Indices: 38598537--38598564 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38598527 GTCTCAAAGA
38598537 TCTTTGGTTCCC
1 TCTTTGGTTCCC
38598549 TCTTTGGTTCCC
1 TCTTTGGTTCCC
38598561 TCTT
1 TCTT
38598565 ATGTTAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.32, G:0.14, T:0.54
Consensus pattern (12 bp):
TCTTTGGTTCCC
Found at i:38607271 original size:46 final size:41
Alignment explanation
Indices: 38607168--38607333 Score: 138
Period size: 46 Copynumber: 3.7 Consensus size: 41
38607158 TACGCGTGCT
*
38607168 GATGCATGTCCCAGATATGTCTTACACTAGCACAACTCTT-AGCC
1 GATGCATGTCCCAGACATGTCTTACACT-G--C-ACTCTTCAGCC
*
38607212 GATGCATGCCCCAGACATGTCTTACACTGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGC-A-CTCT-TC-A-GCC
*
38607258 GATGCATGTCCCAGACATATCTTACACTGACACTCATCTCTATGCC
1 GATGCATGTCCCAGACATGTCTTACACTG-CACTC-T-TC-A-GCC
*
38607304 G-GGCCATGTCCCAGACATGGTCTTACACTG
1 GATG-CATGTCCCAGACAT-GTCTTACACTG
38607334 GCTCTCATAA
Statistics
Matches: 103, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 2 0.02
44 26 0.25
45 5 0.05
46 53 0.51
47 11 0.11
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (41 bp):
GATGCATGTCCCAGACATGTCTTACACTGCACTCTTCAGCC
Found at i:38607363 original size:93 final size:93
Alignment explanation
Indices: 38607115--38607379 Score: 233
Period size: 93 Copynumber: 2.9 Consensus size: 93
38607105 GGGATATATT
* ** * * *
38607115 GCCGATGCCATGTTTCAGACATGATCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCC
1 GCCGAGGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGAG-GCTGATGCATGTCCC
*
38607180 AGATATGTCTTACACT-AGCACAACTCTTA
64 AGACATGTCTTACACTGAGCACAACTCTTA
* * * *
38607209 GCCGATG-CATGCCCCAGACAT-GTCTTACACT-GCTATCTC-T-GTCGAGGCCGATGCATGTCC
1 GCCGAGGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAAT-GAGGCTGATGCATGTCC
* *
38607269 CAGACATATCTTACACTGA-CAC-TCATCTCTA
63 CAGACATGTCTTACACTGAGCACAAC-TCT-TA
* * *
38607300 TGCCG-GGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGAAGCATATCCCA
1 -GCCGAGGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCTGATGCATGTCCCA
* *
38607364 AACACGTCTTACACTG
65 GACATGTCTTACACTG
38607380 GCGCACAAAT
Statistics
Matches: 138, Mismatches: 21, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
89 1 0.01
90 34 0.25
91 8 0.06
92 31 0.22
93 54 0.39
94 10 0.07
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (93 bp):
GCCGAGGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCTGATGCATGTCCCAG
ACATGTCTTACACTGAGCACAACTCTTA
Found at i:38612058 original size:24 final size:24
Alignment explanation
Indices: 38612012--38612106 Score: 147
Period size: 24 Copynumber: 4.0 Consensus size: 24
38612002 TCAAACATAA
38612012 ATGCCCCAGTTATT-AAAGGGCTT
1 ATGCCCCAGTTATTAAAAGGGCTT
*
38612035 ATGCCCCAGTTATAAAAAGGGCTT
1 ATGCCCCAGTTATTAAAAGGGCTT
*
38612059 TTGCCCCAGTTATTAAAAGGGCTT
1 ATGCCCCAGTTATTAAAAGGGCTT
*
38612083 TTGCCCCAGTTATTAAAAGAGGCT
1 ATGCCCCAGTTATTAAAAG-GGCT
38612107 AGGCCTCCAA
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
23 13 0.19
24 50 0.75
25 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATGCCCCAGTTATTAAAAGGGCTT
Found at i:38612348 original size:31 final size:31
Alignment explanation
Indices: 38612313--38612376 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
38612303 CGTTTACAGT
38612313 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
38612344 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38612375 AA
1 AA
38612377 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38619917 original size:20 final size:20
Alignment explanation
Indices: 38619894--38619957 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
38619884 TAAACATGGT
38619894 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
38619914 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
38619934 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
38619954 ATGT
1 ATGT
38619958 TCATAAATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:38619934 original size:11 final size:11
Alignment explanation
Indices: 38619898--38619952 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
38619888 CATGGTATGT
38619898 ATGATATGCAC
1 ATGATATGCAC
* *
38619909 ATGACATG--T
1 ATGATATGCAC
38619918 ATGATATGCAC
1 ATGATATGCAC
*
38619929 ATGATATG--T
1 ATGATATGCAC
38619938 ATGATATGCAC
1 ATGATATGCAC
38619949 ATGA
1 ATGA
38619953 GATGTTCATA
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:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:38620059 original size:24 final size:24
Alignment explanation
Indices: 38620002--38620153 Score: 229
Period size: 24 Copynumber: 6.4 Consensus size: 24
38619992 GGAGGAAGTG
38620002 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
38620026 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
38620049 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
38620073 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
38620097 -TAAAGGGCTTATG-CCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
38620119 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
38620143 TAAAAGAGGCT
1 CAAAAG-GGCT
38620154 AGGCCTCCAG
Statistics
Matches: 119, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
22 9 0.08
23 45 0.38
24 61 0.51
25 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:38620413 original size:30 final size:31
Alignment explanation
Indices: 38620360--38620422 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
38620350 CGTTTACAGT
38620360 AAAGGCTTCGACCCAGTAATATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* ** *
38620391 AAAGGCTTCG-GCCAGTGTTATGAATTATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
38620421 AA
1 AA
38620423 TATGAAAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 18 0.64
31 10 0.36
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:38621200 original size:25 final size:25
Alignment explanation
Indices: 38621171--38621222 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
38621161 GGGTTTAGAG
38621171 AAGATGAAATTTGATCAAAAAGAAC
1 AAGATGAAATTTGATCAAAAAGAAC
38621196 AAGATGAAATTTGATCAAAAAGAAC
1 AAGATGAAATTTGATCAAAAAGAAC
38621221 AA
1 AA
38621223 AAATAACTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.19
Consensus pattern (25 bp):
AAGATGAAATTTGATCAAAAAGAAC
Found at i:38622069 original size:19 final size:18
Alignment explanation
Indices: 38622032--38622075 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
38622022 ATATATACAG
38622032 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
38622049 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
38622068 TACTAATT
1 TAATAATT
38622076 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:38625580 original size:47 final size:45
Alignment explanation
Indices: 38625476--38625691 Score: 140
Period size: 47 Copynumber: 4.7 Consensus size: 45
38625466 TACGCGTGCT
* * * *
38625476 GATGCATGTCCCAGATATGTCTTACACTAGCACAACTC-TT-A-GCC
1 GATGCATGTCCCAGACACGTCTTACACT-G-GCATCTCATTGAGGCC
*
38625520 GATGCATGCCCCAGACACGTCTTACACTGGCTATCTC-TGTCGAGGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGC-ATCTCAT-T-GAGGCC
** * * *
38625567 GATGCATGTCCCAGACATATCTTACACTGACA-CTCATCTCTATGCC
1 GATGCATGTCCCAGACACGTCTTACACTGGCATCTCAT-T-GAGGCC
* * *
38625613 G-GGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAATGTGGCC
1 GATG-CATGTCCCAGACA-CGTCTTACACTGGCATCTCAT--TGAGGCC
* * *
38625660 AAAGCATGTCCCAAACACGTCTTACACTGGCA
1 GATGCATGTCCCAGACACGTCTTACACTGGCA
38625692 CACAAATCAC
Statistics
Matches: 136, Mismatches: 24, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
42 1 0.01
43 6 0.04
44 26 0.19
45 4 0.03
46 36 0.26
47 61 0.45
48 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (45 bp):
GATGCATGTCCCAGACACGTCTTACACTGGCATCTCATTGAGGCC
Found at i:38629155 original size:12 final size:12
Alignment explanation
Indices: 38629133--38629164 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
38629123 GATGACGATG
38629133 ATTTT-AAAATA
1 ATTTTAAAAATA
38629144 ATTTTAAAAATA
1 ATTTTAAAAATA
38629156 ATTTTAAAA
1 ATTTTAAAA
38629165 TTATTCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATTTTAAAAATA
Found at i:38629392 original size:19 final size:19
Alignment explanation
Indices: 38629362--38629407 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
38629352 TGAAAAATAA
38629362 TTTCTAGAAAATAATTTACT
1 TTTCT-GAAAATAATTTACT
*
38629382 TTTCTGAAAATAATTTGCT
1 TTTCTGAAAATAATTTACT
*
38629401 TTACTGA
1 TTTCTGA
38629408 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (19 bp):
TTTCTGAAAATAATTTACT
Found at i:38631951 original size:14 final size:14
Alignment explanation
Indices: 38631932--38631958 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38631922 AGAAAAACCT
38631932 GAAAAGCTTTTACG
1 GAAAAGCTTTTACG
38631946 GAAAAGCTTTTAC
1 GAAAAGCTTTTAC
38631959 AAATTACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
GAAAAGCTTTTACG
Found at i:38633184 original size:15 final size:15
Alignment explanation
Indices: 38633164--38633195 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
38633154 TTCCAATAAA
38633164 TCCAACTATATTCAT
1 TCCAACTATATTCAT
38633179 TCCAACTATATTCAT
1 TCCAACTATATTCAT
38633194 TC
1 TC
38633196 AAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (15 bp):
TCCAACTATATTCAT
Found at i:38638905 original size:78 final size:78
Alignment explanation
Indices: 38638775--38638930 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
38638765 AAACAGGGTT
*
38638775 GCATTTGTTACATAATCCTAATTCGTTACTAGTGTGAACTTTGAAAGGCAAATATTTTAAAGAAA
1 GCATTTGTTACATAATCCTAATTCGTTACTAGTGTGAACTTTGAAAGCCAAATATTTTAAAGAAA
38638840 CAAATTTCTTAAA
66 CAAATTTCTTAAA
* *
38638853 GCATTTGTTACGTAATCCTAATTCGTTACTAGTGTGAACTTTGAAAGCCAAATATTTTAGAGAAA
1 GCATTTGTTACATAATCCTAATTCGTTACTAGTGTGAACTTTGAAAGCCAAATATTTTAAAGAAA
*
38638918 CAGATTTCTTAAA
66 CAAATTTCTTAAA
38638931 TTACAAGTTA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (78 bp):
GCATTTGTTACATAATCCTAATTCGTTACTAGTGTGAACTTTGAAAGCCAAATATTTTAAAGAAA
CAAATTTCTTAAA
Found at i:38638996 original size:24 final size:24
Alignment explanation
Indices: 38638964--38639013 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
38638954 CTTTTACCTA
38638964 GCAGAGCTTATAGGCTACAAAAGG
1 GCAGAGCTTATAGGCTACAAAAGG
38638988 GCAGAGCTTATAGGCTACAAAAGG
1 GCAGAGCTTATAGGCTACAAAAGG
38639012 GC
1 GC
38639014 TTCTTAAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.30, T:0.16
Consensus pattern (24 bp):
GCAGAGCTTATAGGCTACAAAAGG
Found at i:38645895 original size:12 final size:13
Alignment explanation
Indices: 38645873--38645901 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
38645863 AAAAAATAAA
38645873 AAAAATCAAAAAG
1 AAAAATCAAAAAG
38645886 AAAAAT-AAAAAG
1 AAAAATCAAAAAG
38645898 AAAA
1 AAAA
38645902 TAATACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.03, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAAATCAAAAAG
Found at i:38647140 original size:47 final size:47
Alignment explanation
Indices: 38647067--38647174 Score: 162
Period size: 47 Copynumber: 2.3 Consensus size: 47
38647057 ATCTGATCAT
* * * *
38647067 TTTTAATGTGTCATAAGTTTACTAATTGTGTCCTATTTAGTATAGCA
1 TTTTAATGTGTCTTAAGTCTACTAATTATGTCCTACTTAGTATAGCA
* *
38647114 TTTTAATGTGTCTTAAGTCTATTAATTATGTCTTACTTAGTATAGCA
1 TTTTAATGTGTCTTAAGTCTACTAATTATGTCCTACTTAGTATAGCA
38647161 TTTTAATGTGTCTT
1 TTTTAATGTGTCTT
38647175 TGTTCAGACA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.50
Consensus pattern (47 bp):
TTTTAATGTGTCTTAAGTCTACTAATTATGTCCTACTTAGTATAGCA
Found at i:38651324 original size:47 final size:47
Alignment explanation
Indices: 38651271--38651565 Score: 482
Period size: 47 Copynumber: 6.3 Consensus size: 47
38651261 ATAAGATATG
* *
38651271 TATATGTGGTAAAGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
* *
38651318 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATATGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
38651365 TATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
38651412 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
38651459 TATATGTGATACGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
** * *
38651506 TATATGTGATAAGGCTAAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
*
38651553 TAAATGTGATAAG
1 TATATGTGATAAG
38651566 TCCCGAAGGG
Statistics
Matches: 231, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 231 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
Found at i:38654021 original size:38 final size:38
Alignment explanation
Indices: 38653930--38654004 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
38653920 AATCCGAGTT
* * *
38653930 TAAAGACCCGCTGACTATATGA-AGAGATTATGTCCGGG
1 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGGG
38653968 TAAAGACCCGATGGCTATGTACAGAGATTATGTCCGG
1 TAAAGACCCGATGGCTATGTACAGAGATTATGTCCGG
38654005 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGGCTATGTACAGAGATTATGTCCGGG
Found at i:38654159 original size:79 final size:79
Alignment explanation
Indices: 38654062--38654321 Score: 425
Period size: 79 Copynumber: 3.3 Consensus size: 79
38654052 CTCGACGATG
* *
38654062 ATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCC-GGCTAAGTTCCGAAGAGCAT
1 ATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCC-AAGAGCAT
*
38654126 TCGTGCTAGTGATGT
65 TCGTGCTAGTGATAT
*
38654141 ATCCGGGCTAAGCCCCGAAGGGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCAAGAGCATT
1 ATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCAAGAGCATT
38654206 CGTGCTAGTGATAT
66 CGTGCTAGTGATAT
* *
38654220 ATCCGGGCTAAGCCCCGAAGGGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCAAGAGTATT
1 ATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCAAGAGCATT
38654285 CGTGCTAGTGATAT
66 CGTGCTAGTGATAT
* *
38654299 ATCCGTGCTAAACCCC-AAGAGCA
1 ATCCGGGCTAAGCCCCGAAGAGCA
38654322 ATCATGCTGG
Statistics
Matches: 172, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
78 6 0.03
79 155 0.90
80 11 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAGCCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCAAGAGCATT
CGTGCTAGTGATAT
Found at i:38654166 original size:40 final size:40
Alignment explanation
Indices: 38654058--38654309 Score: 368
Period size: 39 Copynumber: 6.4 Consensus size: 40
38654048 AGGTCTCGAC
*
38654058 GATG-ATCCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
38654097 GATGTATCC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
38654136 GATGTATCCGGGCTAAGCCCCGAAGGGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
38654176 GATGTATCCGGGCTAAGTTCC-AAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
38654215 GATATATCCGGGCTAAGCCCCGAAGGGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
38654255 GATGTATCCGGGCTAAGTTCC-AAGAGTATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
38654294 GATATATCCGTGCTAA
1 GATGTATCCGGGCTAA
38654310 ACCCCAAGAG
Statistics
Matches: 191, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 106 0.55
40 85 0.45
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:38658008 original size:47 final size:47
Alignment explanation
Indices: 38657955--38658296 Score: 594
Period size: 47 Copynumber: 7.3 Consensus size: 47
38657945 ATAAGATATG
* * *
38657955 TATATGTGGTAAAGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
38658002 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
38658049 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
38658096 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
38658143 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* *
38658190 TATATGTGATACGGCCGAATGGCCAATGTGATGAATGTGAATGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
* * * *
38658237 TATATGTGATAAGGCCAAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
*
38658284 TAAATGTGATAAG
1 TATATGTGATAAG
38658297 TCCCGAAGGG
Statistics
Matches: 285, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 285 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAATGTGTA
Found at i:38662054 original size:31 final size:28
Alignment explanation
Indices: 38661989--38662056 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 28
38661979 TTTACTAGAC
*
38661989 GTCTTTGTGGTGAGACTATGAAAGGAAA
1 GTCTTTGTGATGAGACTATGAAAGGAAA
*
38662017 GCCTTTGTGATGAGTACTTAATGAAAAGG-AA
1 GTCTTTGTGATGAG-AC-T-ATG-AAAGGAAA
38662048 GTCTTTGTG
1 GTCTTTGTG
38662057 GCTATCTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 12 0.36
29 2 0.06
30 1 0.03
31 13 0.39
32 5 0.15
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.32
Consensus pattern (28 bp):
GTCTTTGTGATGAGACTATGAAAGGAAA
Found at i:38663699 original size:33 final size:33
Alignment explanation
Indices: 38663611--38663706 Score: 120
Period size: 33 Copynumber: 2.9 Consensus size: 33
38663601 GTTAGTGTGC
* * * * *
38663611 TGGTTGGACTAGCTCTTATAAGCACTGGTGTGA
1 TGGTTGGATTAGCTATTATGAGCATTGGTTTGA
* *
38663644 TGGTTGGATTAGCTTTTATGAGCATTGGTTTGT
1 TGGTTGGATTAGCTATTATGAGCATTGGTTTGA
*
38663677 TGGTTGGATTAGCTATTCTGAGCATTGGTT
1 TGGTTGGATTAGCTATTATGAGCATTGGTT
38663707 GCTAGAGGGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.18, C:0.10, G:0.30, T:0.42
Consensus pattern (33 bp):
TGGTTGGATTAGCTATTATGAGCATTGGTTTGA
Found at i:38665897 original size:40 final size:39
Alignment explanation
Indices: 38665732--38665915 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
38665722 AAATTGAATG
* * *
38665732 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
38665772 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
38665812 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
38665852 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
38665891 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
38665916 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:38665940 original size:80 final size:81
Alignment explanation
Indices: 38665772--38665960 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
38665762 GCTGGAAATT
* * * *
38665772 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
38665837 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
38665853 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
38665916 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
38665932 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
38665961 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:38674013 original size:40 final size:39
Alignment explanation
Indices: 38673848--38674031 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
38673838 AAATTGAATG
* * *
38673848 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
38673888 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
38673928 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
38673968 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
38674007 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
38674032 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:38674056 original size:80 final size:81
Alignment explanation
Indices: 38673888--38674076 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
38673878 GCTGGAAATT
* * * *
38673888 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
38673953 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
38673969 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
38674032 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
38674048 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
38674077 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:38681992 original size:29 final size:29
Alignment explanation
Indices: 38681959--38682032 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
38681949 GTGACGAGAT
38681959 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
38681988 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
38682017 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38682033 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:38682048 original size:29 final size:29
Alignment explanation
Indices: 38682016--38682091 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
38682006 CTGGAAATAT
* *
38682016 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
38682045 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
38682074 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
38682092 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:38682059 original size:58 final size:58
Alignment explanation
Indices: 38681959--38682091 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
38681949 GTGACGAGAT
* * * * * *
38681959 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
38682017 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
38682075 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
38682092 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:38689856 original size:29 final size:29
Alignment explanation
Indices: 38689823--38689954 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
38689813 GTGACGAGAT
*
38689823 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
38689852 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
38689881 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
38689910 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
38689939 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38689955 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:38693015 original size:12 final size:13
Alignment explanation
Indices: 38692979--38693016 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
38692969 AAATATTTGA
38692979 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
38692992 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
38693006 CTTG-TCTTAAT
1 CTTGTTCTTAAT
38693017 ATTTCAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:38697674 original size:7 final size:7
Alignment explanation
Indices: 38697662--38697686 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38697652 GTTGTCTTCT
38697662 TGTTTGA
1 TGTTTGA
38697669 TGTTTGA
1 TGTTTGA
38697676 TGTTTGA
1 TGTTTGA
38697683 TGTT
1 TGTT
38697687 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:38698616 original size:27 final size:28
Alignment explanation
Indices: 38698560--38698629 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
38698550 AAATTTGTAC
38698560 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
38698588 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
38698615 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38698630 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:38705529 original size:7 final size:7
Alignment explanation
Indices: 38705517--38705541 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38705507 GTTGTCTTCT
38705517 TGTTTGA
1 TGTTTGA
38705524 TGTTTGA
1 TGTTTGA
38705531 TGTTTGA
1 TGTTTGA
38705538 TGTT
1 TGTT
38705542 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:38706471 original size:27 final size:28
Alignment explanation
Indices: 38706415--38706484 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
38706405 AAATTTGTAC
38706415 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
38706443 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
38706470 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
38706485 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:38725819 original size:45 final size:45
Alignment explanation
Indices: 38725748--38726142 Score: 245
Period size: 44 Copynumber: 8.8 Consensus size: 45
38725738 CGATGAATTC
* * *
38725748 ACAGCA-ATCCTTATCTCTCTGAAGTTGTAGTGGAGCAGACTGAAG
1 ACAGCAGAT-CTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* * * *
38725793 ACAGCAGATCTTGTTTCCCTAAAGTTGCAGTGGAGAAGATTGAAG
1 ACAGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* * * *
38725838 CCA-CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
1 ACAGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* *
38725882 ATAGCAGATCTTGTCTCCCTGAAGTTGCAATGGAGCAGA-TCGAAG
1 ACAGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAG
* * * * * * * *
38725927 CCA-CAG-TCCTTGTCTCTCTGAAGTTACAATAGAGAAGGA-TAAAA
1 ACAGCAGAT-CTTGTCTCCCTGAAGTTGCAGTGGAGCA-GACTGAAG
* * * * ** * * * **
38725971 ATATGCAAACCTTATCTCTTTGAAGTTGTAGTAGAGCGGGTTGAAG
1 ACA-GCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* * *
38726017 TA-A-CA-AGTCTTATCTCCCTGAAGTTGTAGTGGAGCATACTGAAG
1 -ACAGCAGA-TCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* * * *
38726061 ATAGCAGATCTTATCTCCCTGAAGCTGCAGTGGAGCAGATTGAAG
1 ACAGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* * * * *
38726106 CCA-CA-ATCCTTATCTCTCTAAAGTTGCAGTAGAGCAG
1 ACAGCAGAT-CTTGTCTCCCTGAAGTTGCAGTGGAGCAG
38726143 GATTAAAATA
Statistics
Matches: 274, Mismatches: 61, Indels: 31
0.75 0.17 0.08
Matches are distributed among these distances:
43 5 0.02
44 125 0.46
45 113 0.41
46 30 0.11
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
ACAGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
Found at i:38725907 original size:89 final size:89
Alignment explanation
Indices: 38725752--38726188 Score: 439
Period size: 89 Copynumber: 4.9 Consensus size: 89
38725742 GAATTCACAG
* * * * *
38725752 CAATCCTTATCTCTCTGAAGTTGTAGTGGAGCAGACTGAAGACAGCAGATCTTGTTTCCCTAAAG
1 CAATCCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAG
*
38725817 TTGCAGTGGAGAAGATTGAAGCCA
66 TTGCAGTGGAGCAGATTGAAGCCA
* * *
38725841 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGTCTCCCTGAAG
1 CAATCCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAG
* *
38725906 TTGCAATGGAGCAGATCGAAGCCA
66 TTGCAGTGGAGCAGATTGAAGCCA
* * * * * * * * * * **
38725930 CAGTCCTTGTCTCTCTGAAGTTACAATAGAGAAGGA-TAAAAATATGCAAACCTTATCTCTTTGA
1 CAATCCTTATCTCTCTGAAGTTGCAGTGGAGCA-GACTGAAGATA-GCAGATCTTATCTCCCTGA
* * * * **
38725994 AGTTGTAGTAGAGCGGGTTGAAGTAA
64 AGTTGCAGTGGAGCAGATTGAAGCCA
* * *
38726020 CAAGT-CTTATCTCCCTGAAGTTGTAGTGGAGCATACTGAAGATAGCAGATCTTATCTCCCTGAA
1 CAA-TCCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAA
*
38726084 GCTGCAGTGGAGCAGATTGAAGCCA
65 GTTGCAGTGGAGCAGATTGAAGCCA
* * * * * *
38726109 CAATCCTTATCTCTCTAAAGTTGCAGTAGAGCAGGA-TTAAAATACGCAAACCTTATCTCCCTGA
1 CAATCCTTATCTCTCTGAAGTTGCAGTGGAGCA-GACTGAAGATA-GCAGATCTTATCTCCCTGA
* *
38726173 GGTTGCAGTCGAGCAG
64 AGTTGCAGTGGAGCAG
38726189 TTGCAGTAGA
Statistics
Matches: 275, Mismatches: 66, Indels: 13
0.78 0.19 0.04
Matches are distributed among these distances:
88 1 0.00
89 179 0.65
90 94 0.34
91 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (89 bp):
CAATCCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATCTCCCTGAAG
TTGCAGTGGAGCAGATTGAAGCCA
Found at i:38726269 original size:45 final size:45
Alignment explanation
Indices: 38726200--38726288 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
38726190 TGCAGTAGAG
38726200 TAGATCAAGAGCTACAAAGCTAGTCTCTCTAGAGTTACAGTGGAA
1 TAGATCAAGAGCTACAAAGCTAGTCTCTCTAGAGTTACAGTGGAA
* * *
38726245 TAGATTAAGAGCTACAAGGGTAGTCTCTCTAGAGTTACAGTGGA
1 TAGATCAAGAGCTACAAAGCTAGTCTCTCTAGAGTTACAGTGGA
38726289 GTATATTGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (45 bp):
TAGATCAAGAGCTACAAAGCTAGTCTCTCTAGAGTTACAGTGGAA
Found at i:38727543 original size:17 final size:17
Alignment explanation
Indices: 38727521--38727559 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
38727511 ATAAACACTG
*
38727521 TATTTTAGGGTTTGGAA
1 TATTTTAGGGTATGGAA
38727538 TATTTTAGGGTATGGAA
1 TATTTTAGGGTATGGAA
38727555 TATTT
1 TATTT
38727560 CCAGTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (17 bp):
TATTTTAGGGTATGGAA
Found at i:38729707 original size:34 final size:33
Alignment explanation
Indices: 38729660--38729747 Score: 113
Period size: 34 Copynumber: 2.6 Consensus size: 33
38729650 TTGCATATTG
*
38729660 TACTGAAAAGGGCTCAGGCCCAGACTGTCACTAT
1 TACTGAAAAGGGCTCAGGCCCAGACTAT-ACTAT
* * *
38729694 TACTGAAATGGGCTCAAGCCCAGACTATACTGT
1 TACTGAAAAGGGCTCAGGCCCAGACTATACTAT
* *
38729727 TACTGAAAGGGGCTAAGGCCC
1 TACTGAAAAGGGCTCAGGCCC
38729748 CTAATTGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 22 0.47
34 25 0.53
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (33 bp):
TACTGAAAAGGGCTCAGGCCCAGACTATACTAT
Found at i:38729926 original size:12 final size:12
Alignment explanation
Indices: 38729909--38729933 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38729899 AGGTGGCCAC
38729909 TCGACATAGTAT
1 TCGACATAGTAT
38729921 TCGACATAGTAT
1 TCGACATAGTAT
38729933 T
1 T
38729934 TTATTATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (12 bp):
TCGACATAGTAT
Found at i:38731933 original size:21 final size:21
Alignment explanation
Indices: 38731907--38731948 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
38731897 AAGCACATAA
38731907 TTCAAGCCAACTTAAATGGCC
1 TTCAAGCCAACTTAAATGGCC
38731928 TTCAAGCCAACTTAAATGGCC
1 TTCAAGCCAACTTAAATGGCC
38731949 ATACATACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (21 bp):
TTCAAGCCAACTTAAATGGCC
Found at i:38732514 original size:43 final size:42
Alignment explanation
Indices: 38732448--38732603 Score: 127
Period size: 43 Copynumber: 3.7 Consensus size: 42
38732438 AAAGCTCATA
* * * * *
38732448 CAATGCCATATCCCATATATGGTCTTACATGTTATCATATAT
1 CAATACCAAATCCCAGACATGGTCTTACACGTTATCATATAT
* * *** *
38732490 CAATGCCAACATCCCAGACGTGGTCTTACACAAAATCATATAA
1 CAATACCAA-ATCCCAGACATGGTCTTACACGTTATCATATAT
* * * *
38732533 CGATTCCAATGTCCCAGACATGGTCTTACACG-TATCACA-AT
1 CAATACCAA-ATCCCAGACATGGTCTTACACGTTATCATATAT
*
38732574 ACAATACCAATTCCCAGACATGGTCTTACA
1 -CAATACCAAATCCCAGACATGGTCTTACA
38732604 TGTAATCTCA
Statistics
Matches: 91, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
41 20 0.22
42 20 0.22
43 51 0.56
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.28
Consensus pattern (42 bp):
CAATACCAAATCCCAGACATGGTCTTACACGTTATCATATAT
Found at i:38737450 original size:41 final size:41
Alignment explanation
Indices: 38737405--38737535 Score: 131
Period size: 41 Copynumber: 3.1 Consensus size: 41
38737395 GGATTACGCC
*
38737405 TGCTAGGCTCGGAGCCCGATAATATTCACCAGCTTAAAGCT
1 TGCTAGGCTTGGAGCCCGATAATATTCACCAGCTTAAAGCT
* ** * * * *
38737446 TGCTAGACCTTTAAGTCCGAT-ATCATTTCACCGGCATT-ACGCC
1 TGCTAG-GCTTGGAGCCCGATAAT-A-TTCACCAGC-TTAAAGCT
*
38737489 TGCTAGGCTTGGAGCCCGACAATATTCACCAGCTTAAAGCT
1 TGCTAGGCTTGGAGCCCGATAATATTCACCAGCTTAAAGCT
38737530 TGCTAG
1 TGCTAG
38737536 ACCATTAAGT
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.03
41 25 0.37
42 20 0.29
43 19 0.28
44 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (41 bp):
TGCTAGGCTTGGAGCCCGATAATATTCACCAGCTTAAAGCT
Found at i:38737477 original size:43 final size:43
Alignment explanation
Indices: 38737429--38737561 Score: 139
Period size: 43 Copynumber: 3.1 Consensus size: 43
38737419 CCCGATAATA
38737429 TTCACCAGCTTAAAGCTTGCTAGACCTTTAAGTCCGATATCAT
1 TTCACCAGCTTAAAGCTTGCTAGACCTTTAAGTCCGATATCAT
* * * * ** * *
38737472 TTCACCGGCATT-ACGCCTGCTAG-GCTTGGAGCCCGACA--AT
1 TTCACCAGC-TTAAAGCTTGCTAGACCTTTAAGTCCGATATCAT
*
38737512 ATTCACCAGCTTAAAGCTTGCTAGACCATTAAGTCCGATATCAT
1 -TTCACCAGCTTAAAGCTTGCTAGACCTTTAAGTCCGATATCAT
38737556 TTCACC
1 TTCACC
38737562 GACATTACGC
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
40 4 0.06
41 17 0.25
42 19 0.28
43 23 0.34
44 4 0.06
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (43 bp):
TTCACCAGCTTAAAGCTTGCTAGACCTTTAAGTCCGATATCAT
Found at i:38737577 original size:43 final size:42
Alignment explanation
Indices: 38737359--38737578 Score: 118
Period size: 43 Copynumber: 5.2 Consensus size: 42
38737349 CTGGCAATAA
* * **
38737359 GCCTGCTAGACCTTTAAGTCTGGTATCATTTCACCGGGATTAC
1 GCCTGCTAGACC-TTAAGTCCGATATCATTTCACCGACATTAC
* ** * *
38737402 GCCTGCTAG-GCTCGGAGCCCGATA--ATATTCACC-AGC-TTAAA
1 GCCTGCTAGACCT-TAAGTCCGATATCAT-TTCACCGA-CATT-AC
* *
38737443 GCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTAC
1 GCCTGCTAGACC-TTAAGTCCGATATCATTTCACCGACATTAC
* * * * *
38737486 GCCTGCTAG-GCTTGGAGCCCGACA--ATATTCACC-AGC-TTAAA
1 GCCTGCTAGACCTT-AAGTCCGATATCAT-TTCACCGA-CATT-AC
*
38737527 GCTTGCTAGACCATTAAGTCCGATATCATTTCACCGACATTAC
1 GCCTGCTAGACC-TTAAGTCCGATATCATTTCACCGACATTAC
38737570 GCCTGCTAG
1 GCCTGCTAG
38737579 GCTCAAAGCT
Statistics
Matches: 127, Mismatches: 30, Indels: 40
0.64 0.15 0.20
Matches are distributed among these distances:
40 8 0.06
41 34 0.27
42 32 0.25
43 44 0.35
44 9 0.07
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (42 bp):
GCCTGCTAGACCTTAAGTCCGATATCATTTCACCGACATTAC
Found at i:38737602 original size:84 final size:84
Alignment explanation
Indices: 38737357--38737582 Score: 380
Period size: 84 Copynumber: 2.7 Consensus size: 84
38737347 CACTGGCAAT
* * * *
38737357 AAGCCTGCTAGACCTTTAAGTCTGGTATCATTTCACCGGGATTACGCCTGCTAGGCTCGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
*
38737422 GATAATATTCACCAGCTTA
66 GACAATATTCACCAGCTTA
*
38737441 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTTGGAGCCC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
38737506 GACAATATTCACCAGCTTA
66 GACAATATTCACCAGCTTA
* *
38737525 AAGCTTGCTAGACCATTAAGTCCGATATCATTTCACCGACATTACGCCTGCTAGGCTC
1 AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTC
38737583 AAAGCTTGAA
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 133 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (84 bp):
AAGCTTGCTAGACCTTTAAGTCCGATATCATTTCACCGGCATTACGCCTGCTAGGCTCGGAGCCC
GACAATATTCACCAGCTTA
Found at i:38739038 original size:14 final size:15
Alignment explanation
Indices: 38739009--38739038 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
38738999 CAAAATTAAG
38739009 ACATGATACTTTCAC
1 ACATGATACTTTCAC
38739024 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
38739038 A
1 A
38739039 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:38741861 original size:30 final size:29
Alignment explanation
Indices: 38741827--38741983 Score: 116
Period size: 30 Copynumber: 5.2 Consensus size: 29
38741817 AGCTCACTCC
*
38741827 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ATTCAGCTCACGAGCTAAAGCT
* * * * * *
38741857 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCA-ATTCAGCTCACGAGCTAAAGCT
* *
38741887 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAA-TTCAGCTCACGAGCTAAAGCT
* * * * * *
38741917 TAGCTCAGGTTCAGCTTAGGAGTTTAATCT
1 TAGCTCA-ATTCAGCTCACGAGCTAAAGCT
* *
38741947 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAA-TTCAGCTCACGAGCTAAAGCT
38741977 TAGCTCA
1 TAGCTCA
38741984 TTTTAGTTTA
Statistics
Matches: 92, Mismatches: 32, Indels: 6
0.71 0.25 0.05
Matches are distributed among these distances:
30 92 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (29 bp):
TAGCTCAATTCAGCTCACGAGCTAAAGCT
Found at i:38741892 original size:60 final size:60
Alignment explanation
Indices: 38741839--38741983 Score: 272
Period size: 60 Copynumber: 2.4 Consensus size: 60
38741829 GCTCATATTC
*
38741839 AGCTCACGAGCTAAACCTTAGCTCAGCTTCAGCTTAGGAGTTTAATCTCAGCTCAACTTT
1 AGCTCACGAGCTAAAGCTTAGCTCAGCTTCAGCTTAGGAGTTTAATCTCAGCTCAACTTT
*
38741899 AGCTCACGAGCTAAAGCTTAGCTCAGGTTCAGCTTAGGAGTTTAATCTCAGCTCAACTTT
1 AGCTCACGAGCTAAAGCTTAGCTCAGCTTCAGCTTAGGAGTTTAATCTCAGCTCAACTTT
38741959 AGCTCACGAGCTAAAGCTTAGCTCA
1 AGCTCACGAGCTAAAGCTTAGCTCA
38741984 TTTTAGTTTA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 83 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (60 bp):
AGCTCACGAGCTAAAGCTTAGCTCAGCTTCAGCTTAGGAGTTTAATCTCAGCTCAACTTT
Found at i:38743719 original size:12 final size:13
Alignment explanation
Indices: 38743702--38743732 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
38743692 CTATTGTAAC
38743702 TGGGGAAAGA-AA
1 TGGGGAAAGAGAA
38743714 TGGGGAAAGAGAA
1 TGGGGAAAGAGAA
38743727 TGGGGA
1 TGGGGA
38743733 GTAAGCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.48, T:0.10
Consensus pattern (13 bp):
TGGGGAAAGAGAA
Found at i:38744932 original size:43 final size:42
Alignment explanation
Indices: 38744884--38745019 Score: 109
Period size: 43 Copynumber: 3.2 Consensus size: 42
38744874 CCGGCAATAA
38744884 GCCTGCTAGATGTTTAAGTCCGATATCATTTCACTGGCATTAC
1 GCCTGCTAGA-GTTTAAGTCCGATATCATTTCACTGGCATTAC
*** * ** *
38744927 GCCTGCTAG-GCTCGGAGCCCGATA--ATATTCACCAGC-TTAAA
1 GCCTGCTAGAG-TTTAAGTCCGATATCAT-TTCACTGGCATT-AC
* **
38744968 GCTTGCTAGACCATTAAGTCCGATATCATTTCACTGGCATTAC
1 GCCTGCTAGA-GTTTAAGTCCGATATCATTTCACTGGCATTAC
38745011 GCCTGCTAG
1 GCCTGCTAG
38745020 GCTCAAAGCT
Statistics
Matches: 67, Mismatches: 18, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
40 4 0.06
41 17 0.25
42 17 0.25
43 25 0.37
44 4 0.06
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.29
Consensus pattern (42 bp):
GCCTGCTAGAGTTTAAGTCCGATATCATTTCACTGGCATTAC
Found at i:38748202 original size:18 final size:18
Alignment explanation
Indices: 38748179--38748216 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
38748169 TGAAAACCAT
38748179 TCTTAA-AATAAAAGAAAA
1 TCTTAATAATAAAA-AAAA
*
38748197 TCTTAATTATAAAAAAAA
1 TCTTAATAATAAAAAAAA
38748215 TC
1 TC
38748217 CTTTCAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (18 bp):
TCTTAATAATAAAAAAAA
Found at i:38749344 original size:2 final size:2
Alignment explanation
Indices: 38749337--38749363 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38749327 GAGACTAGTC
38749337 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 A
38749364 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38751400 original size:30 final size:30
Alignment explanation
Indices: 38751366--38751426 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
38751356 TCCTTAACTC
38751366 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
38751396 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
38751426 A
1 A
38751427 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:38752986 original size:53 final size:53
Alignment explanation
Indices: 38752906--38753012 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
38752896 GATAATTAAT
*
38752906 AAGTTAAACTTGGTTGCATATAGATCAAGAAAAATAAAGTTTGGATCTATATC
1 AAGTTAAACTTGGTTACATATAGATCAAGAAAAATAAAGTTTGGATCTATATC
38752959 AAGTTAAACTTGGTTACATATAGATCAAGAAAAATAAAGTTTGGATCTATATC
1 AAGTTAAACTTGGTTACATATAGATCAAGAAAAATAAAGTTTGGATCTATATC
38753012 A
1 A
38753013 GGGGAAAGAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (53 bp):
AAGTTAAACTTGGTTACATATAGATCAAGAAAAATAAAGTTTGGATCTATATC
Found at i:38755584 original size:19 final size:17
Alignment explanation
Indices: 38755560--38755602 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
38755550 TGGGCCATGT
38755560 TGGGCCTAGATGGGTCGCG
1 TGGGCCTA-ATGGG-CGCG
* *
38755579 TGGGCCCAATGGGCTCG
1 TGGGCCTAATGGGCGCG
38755596 TGGGCCT
1 TGGGCCT
38755603 TATATGGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 9 0.43
18 5 0.24
19 7 0.33
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (17 bp):
TGGGCCTAATGGGCGCG
Found at i:38764046 original size:12 final size:12
Alignment explanation
Indices: 38764029--38764065 Score: 65
Period size: 12 Copynumber: 3.0 Consensus size: 12
38764019 CATAAATCAC
38764029 TTTTTTTTTCAA
1 TTTTTTTTTCAA
38764041 TTTTTTTTTCGAA
1 TTTTTTTTTC-AA
38764054 TTTTTTTTTCAA
1 TTTTTTTTTCAA
38764066 ACTTGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:38764047 original size:13 final size:13
Alignment explanation
Indices: 38764029--38764063 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
38764019 CATAAATCAC
38764029 TTTTTTTTTC-AA
1 TTTTTTTTTCGAA
38764041 TTTTTTTTTCGAA
1 TTTTTTTTTCGAA
38764054 TTTTTTTTTC
1 TTTTTTTTTC
38764064 AAACTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.11, C:0.09, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:38766537 original size:28 final size:29
Alignment explanation
Indices: 38766451--38766541 Score: 121
Period size: 29 Copynumber: 3.2 Consensus size: 29
38766441 GAAAGCATGT
*
38766451 ATATGAATGTGATTTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
** *
38766480 ATACAAATGTGATTTGAGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
38766509 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
38766537 ATATG
1 ATATG
38766542 CACGTATGTA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 19 0.36
29 34 0.64
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:38769698 original size:27 final size:28
Alignment explanation
Indices: 38769664--38769769 Score: 137
Period size: 27 Copynumber: 3.9 Consensus size: 28
38769654 TTGCCAGAAT
* **
38769664 AGATA-TTGTGACAGAGTTACCAGATAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
* *
38769691 AGATA-TTGTGGCATAGCCACCAGAAAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
*
38769718 AGATATTTGTGGTAGAGCCACCAGAT-C
1 AGATATTTGTGGCAGAGCCACCAGATAC
38769745 AGATATTTGTGGCAGAGCCACCAGA
1 AGATATTTGTGGCAGAGCCACCAGA
38769770 ATGCTTCCTC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 52 0.75
28 17 0.25
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (28 bp):
AGATATTTGTGGCAGAGCCACCAGATAC
Found at i:38771163 original size:30 final size:30
Alignment explanation
Indices: 38771129--38771225 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
38771119 AGCTTATTCC
38771129 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * **
38771159 TAGCTCAACTTCAGCTTAGGAG-TTTACTCT
1 TAGCTCAACTTCAGCTCACGAGCTAAAC-CT
* * *
38771189 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
38771219 TAGCTCA
1 TAGCTCA
38771226 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 4 0.08
30 46 0.88
31 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:38785198 original size:27 final size:26
Alignment explanation
Indices: 38785150--38785209 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
38785140 AGCGAGCTGC
*
38785150 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
38785177 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
38785203 CAGATAT
1 CAGATAT
38785210 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:38790572 original size:28 final size:27
Alignment explanation
Indices: 38790496--38790579 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
38790486 ATGGCTGCCA
* *
38790496 AAACAGATATTGTGACAGAGTCACCA-
1 AAACAGATATTGTGGCAGAGCCACCAG
38790522 AATACAGATATTGTGGCAGAGCCACCAG
1 AA-ACAGATATTGTGGCAGAGCCACCAG
38790550 AAACAGATATTTGTGGCAGAGCCACCAG
1 AAACAGATA-TTGTGGCAGAGCCACCAG
38790578 AA
1 AA
38790580 TGCTTCCTCC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
26 2 0.04
27 29 0.55
28 22 0.42
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (27 bp):
AAACAGATATTGTGGCAGAGCCACCAG
Found at i:38803111 original size:48 final size:48
Alignment explanation
Indices: 38803008--38803129 Score: 142
Period size: 48 Copynumber: 2.5 Consensus size: 48
38802998 GTAGGGTGCC
*
38803008 AATGCCATATCCCAGATATGGTCTTACATGGGACTACGTAACGATACT
1 AATGCCATATCCCAGATATGGTCTTACATGGGACTACGTAACGATACG
* * * *
38803056 AATGCCATGTCCCAGACATGGTCTTACATGGGA-TCACATGTCACTAT-CG
1 AATGCCATATCCCAGATATGGTCTTACATGGGACT-AC--GTAACGATACG
*
38803105 AA-GCCATATCCTAGATATGGTCTTA
1 AATGCCATATCCCAGATATGGTCTTA
38803130 TACGGGGGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
47 1 0.02
48 53 0.84
49 3 0.05
50 6 0.10
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (48 bp):
AATGCCATATCCCAGATATGGTCTTACATGGGACTACGTAACGATACG
Found at i:38805081 original size:40 final size:40
Alignment explanation
Indices: 38804998--38805137 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
38804988 TTCTAACACG
* * * * * *
38804998 AGCCTACGGGTCTTT-AACCCAGATTCCATTCTAGCACAA
1 AGCCTGCGGGTCTTTAAACCCAGATACAATTCCAGCATAT
*
38805037 AGCCTGCAGGTCTTTAAACCCAGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAACCCAGATACAATTCCAGCATAT
* * *
38805077 AGCCTACGGGTCTTTAAACCCGGATACAATTCCAACATAT
1 AGCCTGCGGGTCTTTAAACCCAGATACAATTCCAGCATAT
38805117 AGCCTGCGGGTCTTTAAACCC
1 AGCCTGCGGGTCTTTAAACCC
38805138 GAATACCACT
Statistics
Matches: 88, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 13 0.15
40 75 0.85
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAACCCAGATACAATTCCAGCATAT
Found at i:38805151 original size:80 final size:79
Alignment explanation
Indices: 38804998--38805153 Score: 197
Period size: 80 Copynumber: 2.0 Consensus size: 79
38804988 TTCTAACACG
* * * *
38804998 AGCCTACGGGTCTTTAACCCAGATTCCATTCTAGCACAAAGCCTGCAGGTCTTTAAACCCAGATA
1 AGCCTACGGGTCTTTAACCCAGATACAATTCCAACACAAAGCCTGCAGGTCTTTAAACCCAGATA
*
38805063 CAATTCCAGCATAT
66 CAACTCCAGCATAT
* * * *
38805077 AGCCTACGGGTCTTTAAACCCGGATACAATTCCAACATATAGCCTGCGGGTCTTTAAACCC-GAA
1 AGCCTACGGGTCTTT-AACCCAGATACAATTCCAACACAAAGCCTGCAGGTCTTTAAACCCAG-A
*
38805141 TACCACTCCAGCA
64 TACAACTCCAGCA
38805154 CTGATACGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
79 16 0.25
80 49 0.75
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (79 bp):
AGCCTACGGGTCTTTAACCCAGATACAATTCCAACACAAAGCCTGCAGGTCTTTAAACCCAGATA
CAACTCCAGCATAT
Found at i:38806601 original size:30 final size:29
Alignment explanation
Indices: 38806567--38806662 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 29
38806557 TAAACTAAAA
38806567 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGT-AGCTAAAGT
* * * * *
38806597 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGT-AGCTAAAGT
* *
38806627 TGAGCTAAGGTTTAGCTCGTAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTAGCT-AAAGT
38806656 TGAGCTA
1 TGAGCTA
38806663 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
29 12 0.24
30 35 0.70
31 3 0.06
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (29 bp):
TGAGCTAAGCTTTAGCTCGTAGCTAAAGT
Found at i:38808943 original size:30 final size:30
Alignment explanation
Indices: 38808891--38808975 Score: 93
Period size: 30 Copynumber: 2.8 Consensus size: 30
38808881 TTCTTTTGTT
* *
38808891 TCAATTTCTTTTTCA-TCTTCTTTTTCACTC
1 TCAATTTCCTTTTCATTC-TCTTTTTCAATC
*
38808921 TCAAATTT-CTTTTCGTTCTCTTTTTCAATC
1 TC-AATTTCCTTTTCATTCTCTTTTTCAATC
* *
38808951 TCATTTTCCTTTTCATTTTCTTTTT
1 TCAATTTCCTTTTCATTCTCTTTTT
38808976 GATTTTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
29 4 0.09
30 35 0.76
31 7 0.15
ACGTcount: A:0.13, C:0.24, G:0.01, T:0.62
Consensus pattern (30 bp):
TCAATTTCCTTTTCATTCTCTTTTTCAATC
Found at i:38809054 original size:5 final size:5
Alignment explanation
Indices: 38809044--38809100 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
38809034 CTCTTGCCTC
* * *
38809044 TCTTT TCTTTT TATTT TATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TC-TTT TCTTT TCTTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
38809091 TCTTT TCTTT
1 TCTTT TCTTT
38809101 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 3 0.07
5 31 0.70
6 6 0.14
7 4 0.09
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:38809076 original size:25 final size:25
Alignment explanation
Indices: 38809048--38809096 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
38809038 TGCCTCTCTT
38809048 TTCTTTT-TATTTTATTTTCTTTTTC
1 TTCTTTTCT-TTTTATTTTCTTTTTC
*
38809073 TTCTTTTGCTTTTTCTTTTCTTTT
1 TTCTTTT-CTTTTTATTTTCTTTT
38809097 CTTTGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 13 0.62
27 1 0.05
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (25 bp):
TTCTTTTCTTTTTATTTTCTTTTTC
Found at i:38809101 original size:21 final size:20
Alignment explanation
Indices: 38809062--38809111 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
38809052 TTTTATTTTA
38809062 TTTTCTTTTTCTTCTTTTGCT
1 TTTTCTTTTTCTTCTTTTG-T
*
38809083 TTTTC-TTTTCTTTTCTTTGT
1 TTTTCTTTTTCTTCT-TTTGT
38809103 TTTCTCTTT
1 TTT-TCTTT
38809112 ACAAGAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 12 0.48
21 11 0.44
22 2 0.08
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTCTTTTTCTTCTTTTGT
Found at i:38809982 original size:11 final size:11
Alignment explanation
Indices: 38809968--38810008 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
38809958 TTTTTCTCAG
38809968 ATTTTTTTCGA
1 ATTTTTTTCGA
*
38809979 ATTTTTTTTGA
1 ATTTTTTTCGA
38809990 ATTTTTTTCGA
1 ATTTTTTTCGA
38810001 ATTTTTTT
1 ATTTTTTT
38810009 TTTGACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (11 bp):
ATTTTTTTCGA
Found at i:38809993 original size:22 final size:22
Alignment explanation
Indices: 38809968--38810009 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
38809958 TTTTTCTCAG
38809968 ATTTTTTTCGAATTTTTTTTGA
1 ATTTTTTTCGAATTTTTTTTGA
38809990 ATTTTTTTCGAATTTTTTTT
1 ATTTTTTTCGAATTTTTTTT
38810010 TTGACTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (22 bp):
ATTTTTTTCGAATTTTTTTTGA
Found at i:38813436 original size:30 final size:30
Alignment explanation
Indices: 38813402--38813498 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
38813392 TAAACTAAAA
*
38813402 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCCTGAGCTAAAGT
* * * * *
38813432 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCCTGAGCTAAAGT
* * *
38813462 TGAGCTAAGGTTTAGCTCTTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCCTGAGCT-AAAGT
38813492 TGAGCTA
1 TGAGCTA
38813499 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCCTGAGCTAAAGT
Found at i:38813611 original size:639 final size:639
Alignment explanation
Indices: 38812387--38813665 Score: 2371
Period size: 639 Copynumber: 2.0 Consensus size: 639
38812377 TAATGTCCAT
38812387 ACATGCATTCGACACATGCATGAATTTGTAGAAACCTTGCATCTAGCCGTACATGCACCAGCATT
1 ACATGCATTCGACACATGCATGAATTTGTAGAAACCTTGCATCTAGCCGTACATGCACCAGCATT
*
38812452 TAATACTTCTTCATTCATGAGTGTGGAATGCCCAAAAGAGATGTTTCTTCATCCATAGATTGTAC
66 TAATACTTCTTCATTCATGAGTGTGGAATGCCCAAAAGAGATGTTTCTTCATCCATACATTGTAC
* *
38812517 TATCCAAAGGGATGTACCTACATGAAATAAACAAGTCATTAAGATATCTCATGGACACTCATAAA
131 CATCCAAAGGGATGTACCTACATGAAATAAACAAGTCATTAAGATATCTCATGAACACTCATAAA
38812582 TTCAGCATGATGTGAACACATTAATGTCATGCATTAATTCAGCTATGTGAACATAATCAATTTAT
196 TTCAGCATGATGTGAACACATTAATGTCATGCATTAATTCAGCTATGTGAACATAATCAATTTAT
*
38812647 GTAATGACTATGGCACATTAATAACAAATATTAATATAAGACAAGTTTAATGCTTAAATAAATAT
261 GTAATGACTATGACACATTAATAACAAATATTAATATAAGACAAGTTTAATGCTTAAATAAATAT
*
38812712 GTGTAAATTTTTATTTAATGCATTAAAGACAAAACCGAGTTTAAACTAAAATGAGCTAAGCTTTA
326 GTGCAAATTTTTATTTAATGCATTAAAGACAAAACCGAGTTTAAACTAAAATGAGCTAAGCTTTA
38812777 GCTCGTGAGCTAAAGTTGAGATGAGGCTAAACTCCTAAGCTGAAGTTGAGCTAAGGTTTAGCTCG
391 GCTCGTGAGCTAAAGTTGAGATGAGGCTAAACTCCTAAGCTGAAGTTGAGCTAAGGTTTAGCTCG
*
38812842 TGAGTTGAAAGTGAGCTAGGAGTGAGCTCGGTTTAGCTCAGGCAAGATGGATTGAGCTTGAATAA
456 TGAGTTGAAAGTGAGCTAGGAGTGAGCTCGGTTTAGCTCAGGCAAGATGGATTGAGCTCGAATAA
* * *
38812907 GCTGGATTTGAGCTGGACGGAGCTCGTGGAGCTGGAAACGAGCTTGGATCAGCTTGCCAACATGT
521 GCTGGATTTGAGCTAGACGGAGCTCATGGAGCTGGAAACGAGCTGGGATCAGCTTGCCAACATGT
*
38812972 CATTGCTCGGCTTGACAGACTTGCTCGATAAAGTTCGC-GGGTCGTGCTCGTATC
586 CATTGCTCGGCTTGACAGACTTACTCGATAAAGTTCGCAGGG-CGTGCTCGTATC
*
38813026 ACATGTATTCGACACATGCATGAATTTGTAGAAACCTTGCATCTAGCCGTACATGCACCAGCATT
1 ACATGCATTCGACACATGCATGAATTTGTAGAAACCTTGCATCTAGCCGTACATGCACCAGCATT
*
38813091 TAATACTTCTTCATTCATGAGTGTGGAATGCCCAAAAGAGATGTTTCTTCATCTATACATTGTAC
66 TAATACTTCTTCATTCATGAGTGTGGAATGCCCAAAAGAGATGTTTCTTCATCCATACATTGTAC
*
38813156 CGTCCAAAGGGATGTACCTACATGAAATAAACAAGTCATTAAGATATCTCATGAACACTCATAAA
131 CATCCAAAGGGATGTACCTACATGAAATAAACAAGTCATTAAGATATCTCATGAACACTCATAAA
*
38813221 TTCGGCATGATGTGAACACATTAATGTCATGCATTAATTCAGCTATGTGAACATAATCAATTTAT
196 TTCAGCATGATGTGAACACATTAATGTCATGCATTAATTCAGCTATGTGAACATAATCAATTTAT
*
38813286 GTAATGACTATGACATATTAATAACAAATATTAATATAAGACAAGTTTAATGCTTAAATAAATAT
261 GTAATGACTATGACACATTAATAACAAATATTAATATAAGACAAGTTTAATGCTTAAATAAATAT
*
38813351 GTGCAAATTTTTATTTAATGCATTGAAGACAAAACCGAGTTTAAACTAAAATGAGCTAAGCTTTA
326 GTGCAAATTTTTATTTAATGCATTAAAGACAAAACCGAGTTTAAACTAAAATGAGCTAAGCTTTA
* *
38813416 GCTCGTGAGCTAAAGTTGAGCTGAGGCTAAACTCCTAAGCTGAAGTTGAGCTAAGGTTTAGCTCT
391 GCTCGTGAGCTAAAGTTGAGATGAGGCTAAACTCCTAAGCTGAAGTTGAGCTAAGGTTTAGCTCG
38813481 TGAGTTGAAAGTGAGCTAGGAGTGAGCTCGGTTTAGCTCAGGCAAGATGGATTGAGCTCGAATAA
456 TGAGTTGAAAGTGAGCTAGGAGTGAGCTCGGTTTAGCTCAGGCAAGATGGATTGAGCTCGAATAA
38813546 GCTGGATTTGAGCTAGACGGAGCTCATGGAGCTGGAAACGAGCTGGGATCAGCTTGCCAACATGT
521 GCTGGATTTGAGCTAGACGGAGCTCATGGAGCTGGAAACGAGCTGGGATCAGCTTGCCAACATGT
*
38813611 CATTGCTCGGCTTGACAGACTTACTCGATAAATTTCGCAGGGCGTGCTCGTATC
586 CATTGCTCGGCTTGACAGACTTACTCGATAAAGTTCGCAGGGCGTGCTCGTATC
38813665 A
1 A
38813666 AGCACGAAGC
Statistics
Matches: 620, Mismatches: 19, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
639 617 1.00
640 3 0.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (639 bp):
ACATGCATTCGACACATGCATGAATTTGTAGAAACCTTGCATCTAGCCGTACATGCACCAGCATT
TAATACTTCTTCATTCATGAGTGTGGAATGCCCAAAAGAGATGTTTCTTCATCCATACATTGTAC
CATCCAAAGGGATGTACCTACATGAAATAAACAAGTCATTAAGATATCTCATGAACACTCATAAA
TTCAGCATGATGTGAACACATTAATGTCATGCATTAATTCAGCTATGTGAACATAATCAATTTAT
GTAATGACTATGACACATTAATAACAAATATTAATATAAGACAAGTTTAATGCTTAAATAAATAT
GTGCAAATTTTTATTTAATGCATTAAAGACAAAACCGAGTTTAAACTAAAATGAGCTAAGCTTTA
GCTCGTGAGCTAAAGTTGAGATGAGGCTAAACTCCTAAGCTGAAGTTGAGCTAAGGTTTAGCTCG
TGAGTTGAAAGTGAGCTAGGAGTGAGCTCGGTTTAGCTCAGGCAAGATGGATTGAGCTCGAATAA
GCTGGATTTGAGCTAGACGGAGCTCATGGAGCTGGAAACGAGCTGGGATCAGCTTGCCAACATGT
CATTGCTCGGCTTGACAGACTTACTCGATAAAGTTCGCAGGGCGTGCTCGTATC
Found at i:38819777 original size:25 final size:25
Alignment explanation
Indices: 38819748--38819795 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38819738 TTATAATATG
* * *
38819748 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
38819773 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38819796 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
Done.