Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 594 of 770
Found at i:185849383 original size:37 final size:36
Alignment explanation
Indices: 185849333--185849419 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
185849323 TACGAAGTCT
185849333 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
185849369 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
185849406 TCACCCGGAACATA
1 T-ACCCGG-ACATA
185849420 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:185849536 original size:49 final size:49
Alignment explanation
Indices: 185849468--185849714 Score: 388
Period size: 49 Copynumber: 5.1 Consensus size: 49
185849458 ATTCACATTA
* * * * * * *
185849468 GCCATTCGGCTTTACCACATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCG
* *
185849517 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCG
*
185849566 GCCATTAGGCCTCATCACATATACATATACTTTCGCATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCG
*
185849615 GCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA-CACATCG
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCG
185849663 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCG
185849712 GCC
1 GCC
185849715 TAATTATACT
Statistics
Matches: 188, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
48 47 0.25
49 141 0.75
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.30
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCG
Found at i:185849734 original size:128 final size:126
Alignment explanation
Indices: 185849591--185849840 Score: 437
Period size: 128 Copynumber: 2.0 Consensus size: 126
185849581 CACATATACA
185849591 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATT--
*
185849656 CACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCACCACATCGGCCTAAT
64 CACATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
*
185849719 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATACTTTCGCATTCA
1 TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
* * *
185849784 CATCGGCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCGGCC
66 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCC
185849841 ATTAGGCCTC
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
126 55 0.47
128 62 0.53
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.31
Consensus pattern (126 bp):
TATACTTTCGCATTCACCACATCGGCCATTAGGCCTCATCACATATACATATACTTTCGCATTCA
CATCGGCCATTAGGCCTTATCACATATACATACACTTTCGCATTCACCACATCGGCCTAAT
Found at i:185849781 original size:49 final size:49
Alignment explanation
Indices: 185849724--185849969 Score: 381
Period size: 49 Copynumber: 5.1 Consensus size: 49
185849714 CTAATTATAC
* * *
185849724 TTTCGCATTCACCACATCGGCCATTAGGCCTTATCACATATACATATAC
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
185849773 TTTCGCA-T--TCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * *
185849819 TTTCGCATTCATCGCATCGGCCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
185849868 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
* * * *
185849917 TTTCGCATTCATCGCATCGACCATTAGGCCTCATCACATATATATACAT
1 TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
185849966 TTTC
1 TTTC
185849970 ACGATATTGA
Statistics
Matches: 181, Mismatches: 13, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
46 42 0.23
47 1 0.01
48 1 0.01
49 137 0.76
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.33
Consensus pattern (49 bp):
TTTCGCATTCATCACATCGGCCATTAGGCCTTATCACATATACATACAT
Found at i:185853173 original size:28 final size:29
Alignment explanation
Indices: 185853142--185853198 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
185853132 TAAAGTGATT
* *
185853142 TTTGACAAAAATGTCAATT-AGGGTTTAA
1 TTTGACAAAAATGTAAATTGAGGGGTTAA
* *
185853170 TTTGAGAAAAGTGTAAATTGAGGGGTTAA
1 TTTGACAAAAATGTAAATTGAGGGGTTAA
185853199 ATTGTGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.33
Consensus pattern (29 bp):
TTTGACAAAAATGTAAATTGAGGGGTTAA
Found at i:185853207 original size:29 final size:28
Alignment explanation
Indices: 185853143--185853207 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
185853133 AAAGTGATTT
* * * *
185853143 TTGACAAAAATGTCAATTAGGGTTTAAT
1 TTGAGAAAAATGTAAATTAGGGGTTAAA
*
185853171 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATT-AGGGGTTAAA
*
185853200 TTGTGAAA
1 TTGAGAAA
185853208 TAAATGAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (28 bp):
TTGAGAAAAATGTAAATTAGGGGTTAAA
Found at i:185853735 original size:43 final size:43
Alignment explanation
Indices: 185853687--185853852 Score: 183
Period size: 43 Copynumber: 3.9 Consensus size: 43
185853677 GTTATCGAGA
* *
185853687 TGTGATTACATGTAAGACCATGTCTGGGACATTGGTATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
185853730 TGTGATTACGTGTAAGACCATGCCTGGGACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * **
185853773 TATGATTTCGTGTAAGACCCTGTCTGGGACAGCGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
** * *
185853815 ATGTGACAACATGTAAGACCATATCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
185853853 TGTACGAGCT
Statistics
Matches: 103, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
42 7 0.07
43 96 0.93
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:185855831 original size:40 final size:40
Alignment explanation
Indices: 185855766--185855900 Score: 216
Period size: 40 Copynumber: 3.4 Consensus size: 40
185855756 CGGATGTAAC
* * * *
185855766 AACCAGCACGAATGCCTTCGAGACTTAACCCGGTAATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
* *
185855806 AACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTTTAAT
1 AACCCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
185855846 AACCCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
185855886 AACCCGCACGAATGC
1 AACCCGCACGAATGC
185855901 TGTGCACATA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 87 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAAT
Found at i:185858382 original size:26 final size:27
Alignment explanation
Indices: 185858328--185858388 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 27
185858318 CGGCCTAGAT
*
185858328 ACACGGGCGTGTCTATTGGCCGTGTGTGAC
1 ACACGAGCGTGTCTATTGGCC--G-GTGAC
185858358 ACACGAGCGTGTCTATTGGCC-GTGAC
1 ACACGAGCGTGTCTATTGGCCGGTGAC
185858384 ACACG
1 ACACG
185858389 GGTTGGTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 10 0.33
30 20 0.67
ACGTcount: A:0.18, C:0.26, G:0.33, T:0.23
Consensus pattern (27 bp):
ACACGAGCGTGTCTATTGGCCGGTGAC
Found at i:185859716 original size:45 final size:45
Alignment explanation
Indices: 185859649--185859742 Score: 109
Period size: 46 Copynumber: 2.1 Consensus size: 45
185859639 TTTCATTTTT
*
185859649 ATTTTAAGAAAACCACATTCATTTC-CAAATGATTTCATTTCTCC
1 ATTTTAAGAAAACCACAATCATTTCTCAAATGATTTCATTTCTCC
* * * * **
185859693 ATTTTGAAGAAAATCATAATCATTTCTGAATTTTTTTCATTTCTCC
1 ATTTT-AAGAAAACCACAATCATTTCTCAAATGATTTCATTTCTCC
185859739 ATTT
1 ATTT
185859743 CTATTCATTC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 5 0.12
45 17 0.41
46 19 0.46
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.45
Consensus pattern (45 bp):
ATTTTAAGAAAACCACAATCATTTCTCAAATGATTTCATTTCTCC
Found at i:185865456 original size:20 final size:20
Alignment explanation
Indices: 185865428--185865478 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
185865418 GAGAACTCCA
*
185865428 AAAAATTTTCACAAAATTTC
1 AAAATTTTTCACAAAATTTC
* *
185865448 AAAATTTTTCGCAAAATTTT
1 AAAATTTTTCACAAAATTTC
185865468 AAAATTTTTCA
1 AAAATTTTTCA
185865479 AGTTACAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAATTTTTCACAAAATTTC
Found at i:185866816 original size:57 final size:58
Alignment explanation
Indices: 185866755--185866865 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 58
185866745 TTCCAACACC
185866755 TGCTCACA-AGAGCTTA-ATCAGGATTACTC-GT-CAGGACTAAATCCTATCTGTAACATA
1 TGCTCA-AGAGAGCTTATATCAGGATTAC-CAGTCCAGG-CTAAATCCTATCTGTAACATA
* * *
185866812 TGCTCAAGAGGGCTTATATCAGGATTACCAGTCCAGGCTAAATTCTTTCTGTAA
1 TGCTCAAGAGAGCTTATATCAGGATTACCAGTCCAGGCTAAATCCTATCTGTAA
185866866 TGAGGTTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
56 1 0.02
57 14 0.30
58 28 0.60
59 4 0.09
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (58 bp):
TGCTCAAGAGAGCTTATATCAGGATTACCAGTCCAGGCTAAATCCTATCTGTAACATA
Found at i:185868476 original size:27 final size:27
Alignment explanation
Indices: 185868438--185868497 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
185868428 TATGCAACAA
* *
185868438 GTCCAATTCTTTCTGTCATTTCATATG
1 GTCCAATTCTTTCTATAATTTCATATG
185868465 GTCCAATTCTTTCTATAATTTCATATG
1 GTCCAATTCTTTCTATAATTTCATATG
185868492 GTCCAA
1 GTCCAA
185868498 CAAACCGTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.45
Consensus pattern (27 bp):
GTCCAATTCTTTCTATAATTTCATATG
Found at i:185871206 original size:2 final size:2
Alignment explanation
Indices: 185871199--185871228 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
185871189 GCTCTTGCAC
185871199 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
185871229 TTGCACATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:185872018 original size:40 final size:40
Alignment explanation
Indices: 185871918--185872134 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
185871908 CGGATGATAA
* * *
185871918 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
185871958 CCGGGCTAAG-CCCGAAGGCATTCGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
185871997 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
185872037 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
185872077 CCGAGCTAAGTCCTGAAGGCATTTGAGCGAG-TAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
185872117 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
185872135 TACCGGGTTG
Statistics
Matches: 153, Mismatches: 21, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
39 45 0.29
40 108 0.71
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:185872116 original size:80 final size:79
Alignment explanation
Indices: 185871914--185872134 Score: 259
Period size: 79 Copynumber: 2.8 Consensus size: 79
185871904 TATTCGGATG
* * *
185871914 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-TCCGGGCTAAGTCCCGAAGGC
*
185871977 ATTCGTACGAGTTACT
64 ATTCGTACGAGTCACT
* *
185871993 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATATCCGGGCTAAGTCCCGAAGGCA
* *
185872058 TTTGTGCGAGTCACT
65 TTCGTACGAGTCACT
* * * * * *
185872073 ATAACCGAGCTAAGTCCTGAAGGCATTTGAGCGAGTAGTTATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATATCCGGGCTAAGTCCCGAAGG
185872135 TACCGGGTTG
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
79 63 0.51
80 61 0.49
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATATCCGGGCTAAGTCCCGAAGGCAT
TCGTACGAGTCACT
Found at i:185881865 original size:3 final size:3
Alignment explanation
Indices: 185881857--185881885 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
185881847 TAATTACAAA
185881857 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
185881886 CATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:185882364 original size:3 final size:3
Alignment explanation
Indices: 185881887--185882347 Score: 122
Period size: 3 Copynumber: 154.0 Consensus size: 3
185881877 GATGATGATC
* * ** *
185881887 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATAA ATA TTA ACG GTGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A
* ** ** *
185881934 A-A ATTA ATA GA-A ATA ATA ATG ATA ACG ATA AGG ATA ATA ATA CTA
1 ATA A-TA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** * *
185881979 ACA ATA ATA ATG A-A AT- ATA AAA AGC A-A AT- ATA AT- GTA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
185882022 AT- ATA AAA ATA A-A GTA ATTA ATA ATA ATA CT- ATA TATA A-A TATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA -ATA ATA -ATA
* *
185882066 TATA CATA TATA ATA A-A AT- ATA CACTA ATA TTA ATA ATA ATA ATG
1 -ATA -ATA -ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA
* * * **
185882111 ATA ATA GTA ATA ATA TTG A-A ATA CA-A A-A AGC A-A AT- ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * *
185882151 ATA ATA A-A GATA TTA A-A ATA A-A GTA ATTA GA-A ATA ATA CT- ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA A-TA -ATA ATA ATA ATA ATA
185882194 TATA A-A TATAA ATA TATA TATA CAT- ATA CATA TATA ATA A-A A-A ATA
1 -ATA ATA -AT-A ATA -ATA -ATA -ATA ATA -ATA -ATA ATA ATA ATA ATA
*
185882240 CACTA AT- ATA TATA ATA TTA ATA ATA ATA AT- ATAA ATA ATA AT- ATA
1 -A-TA ATA ATA -ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
*
185882286 TATGT ATGA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-
1 -AT-A AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
185882333 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
185882348 GGAGTAGTAA
Statistics
Matches: 338, Mismatches: 66, Indels: 108
0.66 0.13 0.21
Matches are distributed among these distances:
2 49 0.14
3 220 0.65
4 63 0.19
5 6 0.02
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:185882999 original size:14 final size:15
Alignment explanation
Indices: 185882980--185883008 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
185882970 AAAAGGTAAA
185882980 ATTTTTTA-TATTTT
1 ATTTTTTATTATTTT
185882994 ATTTTTTATTATTTT
1 ATTTTTTATTATTTT
185883009 TTTATGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTTTTTATTATTTT
Found at i:185883440 original size:7 final size:7
Alignment explanation
Indices: 185883430--185883563 Score: 52
Period size: 7 Copynumber: 17.7 Consensus size: 7
185883420 TTTAAGGAAG
185883430 TTGGGTT
1 TTGGGTT
*
185883437 TTGGGTA
1 TTGGGTT
185883444 TTGGGTTT
1 TTGGG-TT
*
185883452 TAATGGATT
1 T--TGGGTT
* *
185883461 TAGGGAT
1 TTGGGTT
185883468 TTGGGTT
1 TTGGGTT
* *
185883475 CTGGGTA
1 TTGGGTT
185883482 TTGGGTTT
1 TTGGG-TT
*
185883490 TAATGGATT
1 T--TGGGTT
* *
185883499 TAGGGAT
1 TTGGGTT
*
185883506 TTGGGTA
1 TTGGGTT
185883513 TTGGGTTT
1 TTGGG-TT
* *
185883521 TAATGGATA
1 T--TGGGTT
*
185883530 GTGGGGTT
1 TTG-GGTT
185883538 TTGGGTT
1 TTGGGTT
185883545 TTGGGTT
1 TTGGGTT
*
185883552 TTGGGTA
1 TTGGGTT
185883559 TTGGG
1 TTGGG
185883564 CACTGGCAAT
Statistics
Matches: 90, Mismatches: 27, Indels: 20
0.66 0.20 0.15
Matches are distributed among these distances:
7 64 0.71
8 10 0.11
9 7 0.08
10 9 0.10
ACGTcount: A:0.13, C:0.01, G:0.40, T:0.46
Consensus pattern (7 bp):
TTGGGTT
Found at i:185883471 original size:31 final size:31
Alignment explanation
Indices: 185883436--185883553 Score: 128
Period size: 38 Copynumber: 3.5 Consensus size: 31
185883426 GAAGTTGGGT
185883436 TTTGGGTATTGGGTTTTAATGGATTTAGGGA
1 TTTGGGTATTGGGTTTTAATGGATTTAGGGA
185883467 TTTGGGTTCTGGGTATTGGGTTTTAATGGATTTAGGGA
1 ------TT-TGGGTATTGGGTTTTAATGGATTTAGGGA
* * *
185883505 TTTGGGTATTGGGTTTTAATGGATAGTGGGGT
1 TTTGGGTATTGGGTTTTAATGGAT-TTAGGGA
*
185883537 TTTGGGTTTTGGGTTTT
1 TTTGGGTATTGGGTTTT
185883554 GGGTATTGGG
Statistics
Matches: 75, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
31 22 0.29
32 22 0.29
37 2 0.03
38 29 0.39
ACGTcount: A:0.14, C:0.01, G:0.37, T:0.47
Consensus pattern (31 bp):
TTTGGGTATTGGGTTTTAATGGATTTAGGGA
Found at i:185883480 original size:38 final size:38
Alignment explanation
Indices: 185883430--185883511 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
185883420 TTTAAGGAAG
*
185883430 TTGGGTTTTGGGTATTGGGTTTTAATGGATTTAGGGAT
1 TTGGGTTCTGGGTATTGGGTTTTAATGGATTTAGGGAT
185883468 TTGGGTTCTGGGTATTGGGTTTTAATGGATTTAGGGAT
1 TTGGGTTCTGGGTATTGGGTTTTAATGGATTTAGGGAT
185883506 TTGGGT
1 TTGGGT
185883512 ATTGGGTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.15, C:0.01, G:0.38, T:0.46
Consensus pattern (38 bp):
TTGGGTTCTGGGTATTGGGTTTTAATGGATTTAGGGAT
Found at i:185884310 original size:78 final size:77
Alignment explanation
Indices: 185884148--185884364 Score: 326
Period size: 78 Copynumber: 2.8 Consensus size: 77
185884138 AGAGACTAAA
* ** * * * * *
185884148 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTTTTAAAAAAAAATAAATTGAAAATATCT
1 AGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTTTGAAAAAATAGAAA-TAAAAATACCT
*
185884213 CAGCGTGTGTCCCG
64 CAGCGTGTGACCCG
185884227 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAAATAGAAACTAAAAATACCTC
1 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAAATAGAAA-TAAAAATACCTC
185884292 AGCGTGTGACCCG
65 AGCGTGTGACCCG
185884305 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAAATAGAAATAAAAATA
1 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAAATAGAAATAAAAATA
185884365 TCAGGATACC
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
77 8 0.06
78 91 0.71
79 29 0.23
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (77 bp):
AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAAATAGAAATAAAAATACCTCA
GCGTGTGACCCG
Found at i:185895879 original size:30 final size:30
Alignment explanation
Indices: 185895843--185895906 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
185895833 GGATCAATAA
185895843 TTTTATTTTTTTATTTTTAGGAATTTAGTT
1 TTTTATTTTTTTATTTTTAGGAATTTAGTT
185895873 TTTTATTTTTTTATTTTTAGGAATTTAGTT
1 TTTTATTTTTTTATTTTTAGGAATTTAGTT
185895903 TTTT
1 TTTT
185895907 TTTCAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (30 bp):
TTTTATTTTTTTATTTTTAGGAATTTAGTT
Found at i:185901136 original size:26 final size:26
Alignment explanation
Indices: 185901100--185901235 Score: 209
Period size: 26 Copynumber: 5.2 Consensus size: 26
185901090 ACATGAATTC
*
185901100 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAACCCA
*
185901126 TTATTATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
185901152 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
185901178 TTATTATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
185901204 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
185901230 TTATCA
1 TTATCA
185901236 ATTTGTATCA
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 99 1.00
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:185901181 original size:52 final size:52
Alignment explanation
Indices: 185901100--185901233 Score: 243
Period size: 52 Copynumber: 2.6 Consensus size: 52
185901090 ACATGAATTC
*
185901100 TTATCATGAAACATTTACCTAA-CTCATTATTATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCT-ATTATTATGAAACATTTACCTAACCCA
185901152 TTATCATGGAACATTTACCTAACCTATTATTATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATTATGAAACATTTACCTAACCCA
185901204 TTATCATGGAACATTTACCTAACCTATTAT
1 TTATCATGGAACATTTACCTAACCTATTAT
185901234 CAATTTGTAT
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
52 78 0.98
53 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATTATGAAACATTTACCTAACCCA
Found at i:185903632 original size:35 final size:35
Alignment explanation
Indices: 185903586--185903656 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
185903576 CCTAAGTCGG
185903586 GCAGAGCAAAGAAACAGGCTAAATTAATACTATAT
1 GCAGAGCAAAGAAACAGGCTAAATTAATACTATAT
* *
185903621 GCAGAGCAAAGAAATAGGCTAAATTAATAGTATAT
1 GCAGAGCAAAGAAACAGGCTAAATTAATACTATAT
185903656 G
1 G
185903657 TTATTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21
Consensus pattern (35 bp):
GCAGAGCAAAGAAACAGGCTAAATTAATACTATAT
Found at i:185904381 original size:16 final size:16
Alignment explanation
Indices: 185904360--185904393 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
185904350 CAAATTTTGG
185904360 TTTATTTAATTTAATT
1 TTTATTTAATTTAATT
* *
185904376 TTTATTTTATTTAGTT
1 TTTATTTAATTTAATT
185904392 TT
1 TT
185904394 CCACGTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTATTTAATTTAATT
Found at i:185908904 original size:26 final size:26
Alignment explanation
Indices: 185908875--185908930 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
185908865 TGATAAAAAT
185908875 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
185908901 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
185908927 TGAT
1 TGAT
185908931 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:185910133 original size:8 final size:8
Alignment explanation
Indices: 185910110--185910145 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
185910100 CTAGATCGGC
*
185910110 AAAAGCCA
1 AAAAGCCG
185910118 AAAAGCCG
1 AAAAGCCG
185910126 AAAAGCCG
1 AAAAGCCG
*
185910134 AAATGCCG
1 AAAAGCCG
185910142 AAAA
1 AAAA
185910146 CGGTATTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.56, C:0.22, G:0.19, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:185922173 original size:24 final size:24
Alignment explanation
Indices: 185921977--185922171 Score: 345
Period size: 24 Copynumber: 8.1 Consensus size: 24
185921967 GCAAAGACCA
185921977 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
185922001 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
185922025 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
185922049 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
185922073 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
185922097 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
185922121 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
185922145 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
185922169 TAT
1 TAT
185922172 AGTCACATTC
Statistics
Matches: 165, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 165 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:185924090 original size:29 final size:29
Alignment explanation
Indices: 185924002--185924104 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
185923992 TACTCAATCA
* * *
185924002 CGCACACTTTGTGCCATATGATT-CAAGCC
1 CGCACACTTAGTGCCATA-CATTACAAGCT
* *
185924031 CGCACACATAGTGCCATATAGTCTA-AA-CT
1 CGCACACTTAGTGCCATACA-T-TACAAGCT
*
185924060 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATACATTACAAGCT
*
185924089 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
185924105 ATCTTGTCAC
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
27 2 0.03
28 4 0.07
29 51 0.85
30 3 0.05
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTACAAGCT
Found at i:185929189 original size:46 final size:45
Alignment explanation
Indices: 185929035--185929203 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
185929025 GGCATTCAAA
*
185929035 CTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCGAG
*** * *
185929080 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT-CCGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGCCGAG
185929127 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCGAG
**
185929173 CTTATTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
185929204 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 16 0.16
46 45 0.44
47 31 0.30
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (45 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCGAG
Found at i:185930934 original size:14 final size:14
Alignment explanation
Indices: 185930882--185930934 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
185930872 TAGAGGTTTT
185930882 GGATTTCTTTATTC
1 GGATTTCTTTATTC
* * *
185930896 TGGGTTTCTCTATCTT
1 -GGATTTCTTTAT-TC
185930912 GGATTTCTTTATTC
1 GGATTTCTTTATTC
*
185930926 GGTTTTCTT
1 GGATTTCTT
185930935 GTTATCTTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
14 9 0.30
15 20 0.67
16 1 0.03
ACGTcount: A:0.09, C:0.15, G:0.17, T:0.58
Consensus pattern (14 bp):
GGATTTCTTTATTC
Found at i:185933458 original size:45 final size:45
Alignment explanation
Indices: 185933301--185933474 Score: 206
Period size: 45 Copynumber: 3.8 Consensus size: 45
185933291 ATTTGGGCAT
* *
185933301 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ACGC
*** * * * *
185933347 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGACGC
*
185933392 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACGC
*
185933439 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
185933475 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
45 38 0.35
46 34 0.31
47 36 0.33
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACGC
Found at i:185944965 original size:57 final size:54
Alignment explanation
Indices: 185944870--185944980 Score: 136
Period size: 57 Copynumber: 2.0 Consensus size: 54
185944860 GAAAAGAAAA
185944870 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAGG
1 AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAGG
***
185944924 AAAGAAAAGAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAGG
1 AAAGAAAA-AAAAAA--TGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAGG
185944981 GAAAAGGGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
54 8 0.16
55 6 0.12
56 2 0.04
57 30 0.61
58 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (54 bp):
AAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAGG
Found at i:185946294 original size:39 final size:40
Alignment explanation
Indices: 185946171--185946336 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
185946161 AAATTGAATG
* * *
185946171 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTAATT
* * ***
185946210 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
*
185946250 ATATCCGGGCTAAG-CCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTAATT
* * *
185946289 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTAATT
185946329 ATATCCGG
1 ATATCCGG
185946337 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 44 0.42
40 55 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
Found at i:185946303 original size:79 final size:79
Alignment explanation
Indices: 185946171--185946320 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
185946161 AAATTGAATG
*
185946171 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
185946236 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * ** *
185946250 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
185946313 ATTTGTGC
64 AATTGTGC
185946321 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 4 0.06
79 58 0.94
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:185952952 original size:58 final size:58
Alignment explanation
Indices: 185952851--185952972 Score: 147
Period size: 58 Copynumber: 2.1 Consensus size: 58
185952841 TATGGAAAAA
**
185952851 GAAAAAAAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAATGTACTAAG
1 GAAAAAAAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAATACTAAG
* ** ***
185952909 GAAAGAAAAGAAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAAATACTAAG
1 GAAAAAAAAGAAAAAAAAATGTTCATCCTTCTC-CATAGGCTTGGCCGAAAATACTAAG
*
185952967 GGAAAA
1 GAAAAA
185952973 GGGGGATTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 2 0.04
58 51 0.96
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (58 bp):
GAAAAAAAAGAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAATACTAAG
Found at i:185957032 original size:40 final size:40
Alignment explanation
Indices: 185956987--185957153 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
185956977 CGGAATATAA
185956987 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
185957027 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
185957067 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
185957107 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
185957146 CCGGATAT
1 CCGGATAT
185957154 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:185965026 original size:40 final size:40
Alignment explanation
Indices: 185964981--185965147 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
185964971 CGGAATATAA
185964981 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
185965021 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
185965061 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
185965101 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
185965140 CCGGATAT
1 CCGGATAT
185965148 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:185973036 original size:40 final size:40
Alignment explanation
Indices: 185972991--185973120 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
185972981 CGGAATACAA
185972991 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
185973031 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
185973071 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
185973111 CCGGATATAA
1 CCGGATATAA
185973121 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:185973135 original size:40 final size:40
Alignment explanation
Indices: 185972991--185973154 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
185972981 CGGAATACAA
* **
185972991 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
185973031 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
185973071 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
185973111 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
185973151 CCGG
1 CCGG
185973155 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:185981776 original size:9 final size:9
Alignment explanation
Indices: 185981762--185982019 Score: 168
Period size: 9 Copynumber: 28.6 Consensus size: 9
185981752 TATTTAAGTA
185981762 TTATGTAAG
1 TTATGTAAG
*
185981771 TTATGTAAT
1 TTATGTAAG
*
185981780 TTATGATATG
1 TTATG-TAAG
* * *
185981790 ATATAT-AT
1 TTATGTAAG
*
185981798 TTATGTAAA
1 TTATGTAAG
* *
185981807 TTATAT-AT
1 TTATGTAAG
*
185981815 TTATCTAAG
1 TTATGTAAG
*
185981824 TTATATAAG
1 TTATGTAAG
185981833 TTATGTAAG
1 TTATGTAAG
*
185981842 TTATGTAAA
1 TTATGTAAG
*
185981851 TTATGATATAAAA
1 TTATG---T-AAG
*
185981864 TTATTTAAG
1 TTATGTAAG
185981873 TATTATGTAAG
1 --TTATGTAAG
185981884 TTATGTAAG
1 TTATGTAAG
185981893 TTATGT-A-
1 TTATGTAAG
**
185981900 TTA--TATT
1 TTATGTAAG
*
185981907 TTATCTAAG
1 TTATGTAAG
*
185981916 TTATATAAG
1 TTATGTAAG
*
185981925 TTATATAAG
1 TTATGTAAG
*
185981934 TTATGTAGG
1 TTATGTAAG
*
185981943 TTATATAAG
1 TTATGTAAG
185981952 TTATGTAAG
1 TTATGTAAG
* *
185981961 TTATATATG
1 TTATGTAAG
*
185981970 TTATATAAG
1 TTATGTAAG
185981979 TTATGTAAG
1 TTATGTAAG
* *
185981988 TTATATATG
1 TTATGTAAG
*
185981997 TTATATAAG
1 TTATGTAAG
*
185982006 TTATGTAAA
1 TTATGTAAG
185982015 TTATG
1 TTATG
185982020 ATATCAAATA
Statistics
Matches: 198, Mismatches: 38, Indels: 26
0.76 0.15 0.10
Matches are distributed among these distances:
5 1 0.01
7 6 0.03
8 11 0.06
9 158 0.80
10 6 0.03
11 8 0.04
12 1 0.01
13 7 0.04
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:185981841 original size:18 final size:18
Alignment explanation
Indices: 185981762--185982018 Score: 185
Period size: 18 Copynumber: 14.7 Consensus size: 18
185981752 TATTTAAGTA
* *
185981762 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
185981780 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
185981798 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
185981815 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
185981833 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
*
185981851 TTATG--A--TATA-AAA
1 TTATGTAAGTTATATAAG
* *
185981864 TTATTTAAGTATTATGTAAG
1 TTATGTAAG--TTATATAAG
*
185981884 TTATGTAAGTTATGT-A-
1 TTATGTAAGTTATATAAG
** *
185981900 TTA--TATTTTATCTAAG
1 TTATGTAAGTTATATAAG
*
185981916 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
185981934 TTATGTAGGTTATATAAG
1 TTATGTAAGTTATATAAG
*
185981952 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* *
185981970 TTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAG
* *
185981988 TTATATATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
185982006 TTATGTAAATTAT
1 TTATGTAAGTTAT
185982019 GATATCAAAT
Statistics
Matches: 191, Mismatches: 35, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
13 7 0.04
14 10 0.05
15 2 0.01
16 7 0.04
17 23 0.12
18 122 0.64
19 10 0.05
20 10 0.05
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:185981854 original size:27 final size:27
Alignment explanation
Indices: 185981815--185982019 Score: 185
Period size: 27 Copynumber: 7.2 Consensus size: 27
185981805 AATTATATAT
*
185981815 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
185981842 TTATGTAAATTATGATATAAAATTATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGTTATGTAAG
* *
185981873 TATTATGTAAGTTATGTAAGTTATGTATTATATT
1 --TTATGTAAGTTATATAAGTTATG---TA-A-G
* *
185981907 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
185981934 TTATGTAGGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
185981961 TTATATATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
185981988 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
185982015 TTATG
1 TTATG
185982020 ATATCAAATA
Statistics
Matches: 147, Mismatches: 20, Indels: 22
0.78 0.11 0.12
Matches are distributed among these distances:
27 84 0.57
28 4 0.03
29 9 0.06
30 7 0.05
31 11 0.07
32 25 0.17
33 7 0.05
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:185983446 original size:21 final size:21
Alignment explanation
Indices: 185983420--185983459 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
185983410 ACACTAATTC
*
185983420 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
185983441 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
185983460 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:185985762 original size:133 final size:133
Alignment explanation
Indices: 185985518--185985766 Score: 462
Period size: 133 Copynumber: 1.9 Consensus size: 133
185985508 GAATTCAACA
185985518 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
* *
185985583 TAAGTTGGATAGAAACATGGAAACAGACCAAAAGAACATCTGAATAACCAAAATATAACAATTTT
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
185985648 ATT
131 ATT
185985651 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
1 ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
* *
185985716 TAAGTTGGATAGAAACATGAAAACAGACCAAAATAACGTCTAAATAACCAA
66 TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAA
185985767 GATGGAATCA
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 112 1.00
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.20
Consensus pattern (133 bp):
ATATAAAACGTGAGCAACAAGACAGCAATAAACTCTTAAATCAATCTAAGTCCACACTAAACACA
TAAGTTGGATAGAAACATGAAAACAGACCAAAAGAACATCTAAATAACCAAAATATAACAATTTT
ATT
Found at i:185988797 original size:40 final size:40
Alignment explanation
Indices: 185988752--185988881 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
185988742 CGGAATATAA
185988752 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
185988792 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
185988832 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
185988872 CCGGATATAA
1 CCGGATATAA
185988882 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:185988896 original size:40 final size:40
Alignment explanation
Indices: 185988768--185988917 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
185988758 ATAAGCATGT
* * *
185988768 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
185988808 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
185988848 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* *
185988888 GCATAATTGTCTT-GGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
185988918 CATTCAATTT
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
38 13 0.14
39 5 0.05
40 72 0.78
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:185990259 original size:12 final size:13
Alignment explanation
Indices: 185990227--185990257 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
185990217 TTTTTTTTTT
*
185990227 TTTTTTTTGCTTA
1 TTTTTTATGCTTA
185990240 TTTTTTATGCTTA
1 TTTTTTATGCTTA
185990253 TTTTT
1 TTTTT
185990258 ATTATAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.77
Consensus pattern (13 bp):
TTTTTTATGCTTA
Found at i:185993025 original size:40 final size:40
Alignment explanation
Indices: 185992940--185993090 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
185992930 AATTGAATGA
* * *
185992940 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
185992980 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
185993021 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
185993060 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
185993091 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:185993104 original size:40 final size:40
Alignment explanation
Indices: 185992977--185993106 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
185992967 ATGCTGGAAA
* * * *
185992977 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
185993017 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
185993057 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
185993097 TTATATCCGG
1 TTATATCCGG
185993107 TTATATTCCA
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:185999428 original size:28 final size:29
Alignment explanation
Indices: 185999361--185999461 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
185999351 ATAGTGAATC
*
185999361 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
185999390 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
185999418 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
185999448 CGCACACTTAGTGC
1 CGCACACTTAGTGC
185999462 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:186007239 original size:28 final size:29
Alignment explanation
Indices: 186007172--186007272 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
186007162 ATAGTGAATC
*
186007172 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
186007201 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
186007229 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
186007259 CGCACACTTAGTGC
1 CGCACACTTAGTGC
186007273 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:186012445 original size:51 final size:49
Alignment explanation
Indices: 186012314--186012508 Score: 203
Period size: 49 Copynumber: 3.9 Consensus size: 49
186012304 TAGCCGAAGC
* * * * * *
186012314 TATCTAGTACGCATAGCAGCCTGCACTTAGTATTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* ** * *
186012363 AATCTGGTACATGTAGTAGCTTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* ** * *
186012414 TTTCTGGTATGCATAGTAGCCTGCA-TGTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACT-TAGTACTACACACGTGACCAAT
*
186012463 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
186012509 TCACAATAGT
Statistics
Matches: 115, Mismatches: 27, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
49 75 0.65
50 4 0.03
51 36 0.31
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:186012445 original size:100 final size:100
Alignment explanation
Indices: 186012324--186012506 Score: 305
Period size: 100 Copynumber: 1.8 Consensus size: 100
186012314 TATCTAGTAC
* * *
186012324 GCATAGCAGCCTGCACTTAGTATTACACATGCGACCAATAATCTGGTACATGTAGTAGCTTGCAC
1 GCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCCTGCAC
186012389 TTAGTACTACACACGTGATCACAGTTTTCTGGTAT
66 TTAGTACTACACACGTGATCACAGTTTTCTGGTAT
* *
186012424 GCATAGTAGCCTGCA-TGTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCA
1 GCATAGCAGCCTGCACT-TAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCCTGCA
186012488 CTTAGTACTACACACGTGA
65 CTTAGTACTACACACGTGA
186012507 CCTCACAATA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
99 1 0.01
100 76 0.99
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (100 bp):
GCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCCTGCAC
TTAGTACTACACACGTGATCACAGTTTTCTGGTAT
Found at i:186012484 original size:49 final size:49
Alignment explanation
Indices: 186012331--186012501 Score: 209
Period size: 49 Copynumber: 3.4 Consensus size: 49
186012321 TACGCATAGC
* * *
186012331 AGCCTGCACTTAGTATTACACATGCGACCAATAATCTGGTACATGTAGT
1 AGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGT
* * * * * ** *
186012380 AGCTTGCACTTAGTACTACACACGTGATCACAGTTTTCTGGTATGCATAGT
1 AGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCTGGTACACGTAGT
186012431 AGCCTGCA-TGTAGTACTACACATGCGACCAATTATCTGGTACACGTAGT
1 AGCCTGCACT-TAGTACTACACATGCGACCAATTATCTGGTACACGTAGT
186012480 AGCCTGCACTTAGTACTACACA
1 AGCCTGCACTTAGTACTACACA
186012502 CGTGACCTCA
Statistics
Matches: 99, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 59 0.60
50 4 0.04
51 36 0.36
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (49 bp):
AGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGT
Found at i:186015983 original size:40 final size:39
Alignment explanation
Indices: 186015928--186016061 Score: 198
Period size: 40 Copynumber: 3.4 Consensus size: 39
186015918 TGATAACCGA
186015928 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-G
*
186015968 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCAG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-G
*
186016008 GCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCG
* *
186016047 GCTAAATCCCAAAGG
1 GCTAAGTCCCGAAGG
186016062 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.18
40 71 0.82
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:186024143 original size:39 final size:40
Alignment explanation
Indices: 186024042--186024220 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
186024032 TTCGAATGGT
* * *
186024042 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
186024083 ATCCGGG-TCAA-TCCCGAAGGCATTTGTGCGAGTTACCAA
1 ATCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
186024122 A-CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
186024161 ATCCGGGCT-AGTTCCCGAAGGCAATTGTGCGAATTACTATA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTA-A
*
186024202 A-CCGGGCTATGTCCCGAAG
1 ATCCGGGCTAAGTCCCGAAG
186024221 ACAATCGAGC
Statistics
Matches: 122, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
38 7 0.06
39 39 0.32
40 64 0.52
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:186024177 original size:79 final size:80
Alignment explanation
Indices: 186024044--186024220 Score: 234
Period size: 79 Copynumber: 2.2 Consensus size: 80
186024034 CGAATGGTAT
* *
186024044 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATCCCGAAGGCAATTG
*
186024109 TGCGAGTTACCA-AA
66 TGCGAATTACCATAA
* * * *
186024123 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAGTTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-A-ATCCCGAAGGCAAT
*
186024186 TGTGCGAATTACTATAA
64 TGTGCGAATTACCATAA
*
186024203 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
186024221 ACAATCGAGC
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
77 1 0.01
78 16 0.19
79 50 0.59
80 18 0.21
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATCCCGAAGGCAATTG
TGCGAATTACCATAA
Found at i:186024245 original size:80 final size:79
Alignment explanation
Indices: 186024078--186024246 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 79
186024068 GTGCTAAGTG
* * * *
186024078 ACTAAATCCGGG-TCA-ATCCCGAAGGCATTTGTGCGAGTTACCAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGCT-AGTTCCCGAAGGCAATTGTGCGAATTACCAAACCGGGCTAAGTCCCGAAG
* * * * *
186024141 GCATTTGTGCGAGTT
65 ACAATCGAGCGAGTC
* *
186024156 ACTAAATCCGGGCTAGTTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGCTAGTTCCCGAAGGCAATTGTGCGAATTACCA-AACCGGGCTAAGTCCCGAAG
186024221 ACAATCGAGCGAGTC
65 ACAATCGAGCGAGTC
* *
186024236 GCTATATCCGG
1 ACTAAATCCGG
186024247 TTAAATTCCG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 13 0.17
79 25 0.33
80 37 0.49
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (79 bp):
ACTAAATCCGGGCTAGTTCCCGAAGGCAATTGTGCGAATTACCAAACCGGGCTAAGTCCCGAAGA
CAATCGAGCGAGTC
Found at i:186031344 original size:39 final size:39
Alignment explanation
Indices: 186031279--186031408 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
186031269 CGGGACTTTA
* * *
186031279 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACTACTTGCAC-AATGCCTTCGGGTCTTAG
*
186031319 CCCGGATTTAAC-ACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACTACTTGCAC-AATGCCTTCGGGTCTTAG
* * *
186031358 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACTACTTGCACAA-TGCCTTCGGGTCTTAG
186031398 CCCGGATATAA
1 CCCGGATATAA
186031409 ATTTCAGCAT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 37 0.47
40 42 0.53
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (39 bp):
CCCGGATATAACTACTTGCACAATGCCTTCGGGTCTTAG
Found at i:186031402 original size:40 final size:38
Alignment explanation
Indices: 186031296--186031446 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 38
186031286 ATCACGATTT
* *
186031296 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACACTT
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACACTA
*
186031335 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAAC-ACTA
* *
186031375 GCACAATTGCCTTCGGGTCTTAACCCGGATATAA-ATTTCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACA-CT-A
* * *
186031415 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
186031447 CATTCAATTT
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 35 0.36
40 61 0.63
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACACTA
Found at i:186050780 original size:40 final size:39
Alignment explanation
Indices: 186050675--186050787 Score: 156
Period size: 40 Copynumber: 2.8 Consensus size: 39
186050665 GTTATAATAG
**
186050675 CTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTGGGAA
1 CTCGCACAAATG-CTTC-GGATCTTAGTCCGGATTTGGGAA
186050715 CTCGCACAAATGGCTTCGGATCTTAGTCCGGATTTGGGAA
1 CTCGCACAAAT-GCTTCGGATCTTAGTCCGGATTTGGGAA
*
186050755 CTCGCACAAATGCTTTCGGATCTTAGTTCGGAT
1 CTCGCACAAATGC-TTCGGATCTTAGTCCGGAT
186050788 ATGGTCACTT
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
39 5 0.07
40 61 0.91
41 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (39 bp):
CTCGCACAAATGCTTCGGATCTTAGTCCGGATTTGGGAA
Found at i:186054303 original size:40 final size:39
Alignment explanation
Indices: 186054143--186054305 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
186054133 TGTGTATGAA
*
186054143 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
186054182 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
186054221 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
186054260 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
186054300 TGTGCG
1 TGTGCG
186054306 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:186054321 original size:40 final size:39
Alignment explanation
Indices: 186054143--186054336 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
186054133 TGTGTATGAA
* *
186054143 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
186054182 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
186054221 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
186054260 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
186054300 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
186054337 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:186062231 original size:40 final size:39
Alignment explanation
Indices: 186062071--186062233 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
186062061 TGTGTATGAA
*
186062071 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
186062110 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
186062149 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
186062188 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
186062228 TGTGCG
1 TGTGCG
186062234 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:186062249 original size:40 final size:39
Alignment explanation
Indices: 186062071--186062264 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
186062061 TGTGTATGAA
* *
186062071 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
186062110 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
186062149 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
186062188 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
186062228 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
186062265 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:186067164 original size:40 final size:40
Alignment explanation
Indices: 186067095--186067287 Score: 210
Period size: 40 Copynumber: 4.8 Consensus size: 40
186067085 GTGTGCATGA
* * * **
186067095 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAGTTGTTATATCCGGGCTAAGACCCGAAGG-CATTCGT
* ** *
186067135 GCTAGTAATTATATCCAGGCTAAGACCCGAAGGCATTCGT
1 GCAAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGT
186067175 GCAAGTTGTTA-ATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGT
* *
186067214 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGT
* * * * * *
186067254 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAGTTGTTATATCCGGGCTAAGACCCGAAGGC
186067288 CTTGGTGCGG
Statistics
Matches: 130, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
39 38 0.29
40 89 0.68
41 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
GCAAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGT
Found at i:186067241 original size:79 final size:79
Alignment explanation
Indices: 186067107--186067257 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
186067097 AAATTGTGAT
* * * *
186067107 ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCAGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAGGACATTCATGCAAGTAATTAAATCCAGGCTAAGACCCGAAGGCATT
186067172 CGTGCAAGTTGTTA
66 CGTGCAAGTTGTTA
* ** *
186067186 ATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCG-AGGACATTCATGCAAGTAATTAAATCCAGGCTAAGACCCGAAGGCAT
*
186067250 TTGTGCAA
65 TCGTGCAA
186067258 ATCGTGATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
79 59 0.95
80 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (79 bp):
ATCCGGGCTAAGACCCGAGGACATTCATGCAAGTAATTAAATCCAGGCTAAGACCCGAAGGCATT
CGTGCAAGTTGTTA
Found at i:186075452 original size:80 final size:79
Alignment explanation
Indices: 186075303--186075453 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
186075293 AAATTGTGAT
* * * *
186075303 ATCCGGGCTAAGTCCCGAGGACATTTATGCTAGTAATTATATCCGGCTAAGACCCGAAGGCATTC
1 ATCCGGGCTAAGACCCGAGGACATTCATGCAAGTAATTAAATCCGGCTAAGACCCGAAGGCATTC
186075368 GTGCAAGTTGTTAA
66 GTGCAAGTTGTTAA
* **
186075382 ATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCG-AGGACATTCATGCAAGTAATTAAATCC-GGCTAAGACCCGAAGGCAT
*
186075446 TTGTGCAA
64 TCGTGCAA
186075454 ATCGTGATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 33 0.53
80 29 0.47
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (79 bp):
ATCCGGGCTAAGACCCGAGGACATTCATGCAAGTAATTAAATCCGGCTAAGACCCGAAGGCATTC
GTGCAAGTTGTTAA
Found at i:186075466 original size:40 final size:40
Alignment explanation
Indices: 186075291--186075473 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 40
186075281 GTGTGCATGA
* * * **
186075291 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAGTTGTTATATCCGGGCTAAGACCCGAAGG-CATTCGT
* **
186075331 GCTAGTAATTATATCC-GGCTAAGACCCGAAGGCATTCGT
1 GCAAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGT
*
186075370 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTCGT
1 GCAAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGT
* *
186075410 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGT
* * * *
186075450 GCAAATCGTGATATCCGGGTTAAG
1 GCAAGTTGTTATATCCGGGCTAAG
186075474 TCCGTAGGCC
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 28 0.23
40 95 0.77
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
GCAAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCGT
Found at i:186081006 original size:40 final size:39
Alignment explanation
Indices: 186080949--186081133 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
186080939 ATTAAATGAT
* * *
186080949 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
186080989 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
186081029 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
186081069 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
186081109 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
186081134 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:186081085 original size:80 final size:80
Alignment explanation
Indices: 186080948--186081154 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
186080938 AATTAAATGA
* * ** * *
186080948 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
186081013 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
186081026 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
186081091 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
186081108 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
186081155 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:186081139 original size:40 final size:39
Alignment explanation
Indices: 186080947--186081154 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
186080937 CAATTAAATG
* * ** *
186080947 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
186080987 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
186081027 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
186081067 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
186081107 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
186081147 ATATCCGG
1 ATATCCGG
186081155 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:186084939 original size:46 final size:46
Alignment explanation
Indices: 186084872--186085126 Score: 209
Period size: 46 Copynumber: 5.8 Consensus size: 46
186084862 TATTTGGGCA
* * *
186084872 TCCGAACTCGTTGGGTTGAGTCCCAGTGCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
186084918 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
* *
186084965 TCCGAGCTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
186085011 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-----GA-GAG-ATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
186085048 T---AACTAGTTGAGTTGAGTCCGTGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
186085091 CCCGAGCTCGTTGAGTTGA-TCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
186085127 GCGGGTTACA
Statistics
Matches: 163, Mismatches: 27, Indels: 39
0.71 0.12 0.17
Matches are distributed among these distances:
34 22 0.13
36 1 0.01
37 4 0.02
38 2 0.01
39 2 0.01
41 2 0.01
42 2 0.01
43 3 0.02
44 4 0.02
45 16 0.10
46 69 0.42
47 31 0.19
48 1 0.01
49 3 0.02
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:186085027 original size:93 final size:93
Alignment explanation
Indices: 186084868--186085054 Score: 329
Period size: 93 Copynumber: 2.0 Consensus size: 93
186084858 AGGATATTTG
* *
186084868 GGCATCCGAACTCGTTGGGTTGAGTCCCAGTGCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTAAGTCCCAGTGCACTTATGGATGCGAATGTCCGAACTCGTTGAG
186084933 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
186084961 GGCATCCGAGCTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTAAGTCCCAGTGCACTTATGGATGCGAATGTCCGAACTCGTTGAG
186085026 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
186085054 G
1 G
186085055 TTGAGTTGAG
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 89 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTAAGTCCCAGTGCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:186088087 original size:15 final size:15
Alignment explanation
Indices: 186088049--186088117 Score: 72
Period size: 15 Copynumber: 4.7 Consensus size: 15
186088039 CATATCTTGG
*
186088049 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
186088064 TCT-TTTATTCTGGA
1 TTTCTTTATTCTGGA
*
186088078 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
186088093 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
186088108 TTTC-TTATTC
1 TTTCTTTATTC
186088118 GTTTTCTTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
14 16 0.36
15 28 0.64
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:186090638 original size:30 final size:30
Alignment explanation
Indices: 186090602--186090731 Score: 160
Period size: 28 Copynumber: 4.5 Consensus size: 30
186090592 GACAAGATTG
* * *
186090602 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
*
186090632 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
186090660 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
186090690 GCACTAAGTGTGCGAG-CTGAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
186090718 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
186090732 GATTCACTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
28 43 0.49
29 3 0.03
30 42 0.48
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:186090693 original size:58 final size:58
Alignment explanation
Indices: 186090602--186090731 Score: 181
Period size: 58 Copynumber: 2.2 Consensus size: 58
186090592 GACAAGATTG
* * * * * *
186090602 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
186090660 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
186090718 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
186090732 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 2 0.03
58 62 0.97
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:186093713 original size:46 final size:45
Alignment explanation
Indices: 186093660--186093928 Score: 249
Period size: 46 Copynumber: 5.8 Consensus size: 45
186093650 TATTTGGGCA
*
186093660 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *** * *
186093706 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAGGCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAATG
*
186093754 T-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
*** * *
186093799 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAATG
* *
186093846 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
186093892 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
186093929 GCGGGTTACA
Statistics
Matches: 181, Mismatches: 28, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.01
44 7 0.04
45 3 0.02
46 97 0.54
47 60 0.33
48 3 0.02
49 7 0.04
50 2 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:186093781 original size:47 final size:47
Alignment explanation
Indices: 186093712--186093874 Score: 192
Period size: 47 Copynumber: 3.5 Consensus size: 47
186093702 AATGTCCGAA
*
186093712 CTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAGGCATTCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATTCGAG
*** * * *
186093759 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT-T-CGAG
186093805 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-TCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATTC-GAG
186093852 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
186093875 ACTTATGGAT
Statistics
Matches: 95, Mismatches: 13, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 31 0.33
47 52 0.55
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATTCGAG
Found at i:186093815 original size:93 final size:93
Alignment explanation
Indices: 186093656--186093921 Score: 453
Period size: 93 Copynumber: 2.9 Consensus size: 93
186093646 AGGATATTTG
* * *
186093656 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
186093721 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
186093749 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
186093814 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
186093842 GGCA-TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCGAGCTCGTTGA
1 GGCATTC-GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGA
186093906 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
186093922 CTTATGGGCG
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
92 2 0.01
93 163 0.99
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (93 bp):
GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:186095793 original size:13 final size:14
Alignment explanation
Indices: 186095760--186095793 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
186095750 CATATATTCT
*
186095760 TTTTTTTGTATGAA
1 TTTTTTTGTACGAA
186095774 TTTTTTT-TACGAA
1 TTTTTTTGTACGAA
186095787 TTTTTTT
1 TTTTTTT
186095794 CACTGACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (14 bp):
TTTTTTTGTACGAA
Found at i:186098781 original size:68 final size:70
Alignment explanation
Indices: 186098709--186098904 Score: 267
Period size: 69 Copynumber: 2.8 Consensus size: 70
186098699 ACACCCTGTA
* * * *
186098709 GTAGCTAGGTCACATGTGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
186098771 ATAAAT
65 ATAAAT
* *
186098777 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
186098842 ATAAAT
65 ATAAAT
*
186098848 GTAGCTAGGT--CATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
186098905 AGACAAATCG
Statistics
Matches: 118, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
68 23 0.19
69 50 0.42
70 1 0.01
71 44 0.37
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:186098900 original size:69 final size:70
Alignment explanation
Indices: 186098743--186098904 Score: 308
Period size: 69 Copynumber: 2.3 Consensus size: 70
186098733 GAGATGTATC
186098743 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTC-CATGCGTGATTCCAAGTGA
186098808 AGGACA
65 AGGACA
186098814 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGT-CATGCGTGATTCCAAGTGAA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCCATGCGTGATTCCAAGTGAA
186098878 GGACA
66 GGACA
186098883 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
186098905 AGACAAATCG
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
69 47 0.52
71 44 0.48
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (70 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCCATGCGTGATTCCAAGTGAA
GGACA
Found at i:186105381 original size:31 final size:29
Alignment explanation
Indices: 186105336--186105402 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 29
186105326 AAAATTTTGT
* * *
186105336 TATACACATGAAACTTGAATTTTGGTTCATA
1 TATATACAAGAAACTTG-ATTTTGATTCA-A
186105367 TATATACAAGAAACTTGATTTTGATTCAA
1 TATATACAAGAAACTTGATTTTGATTCAA
186105396 T-TATACA
1 TATATACA
186105403 CATTTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 6 0.18
29 2 0.06
30 10 0.30
31 15 0.45
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
TATATACAAGAAACTTGATTTTGATTCAA
Found at i:186109551 original size:46 final size:46
Alignment explanation
Indices: 186109498--186109673 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
186109488 TATTTGGGCA
186109498 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
186109544 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
186109591 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
186109637 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
186109674 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:186109653 original size:93 final size:93
Alignment explanation
Indices: 186109494--186109665 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
186109484 AGGATATTTG
* *
186109494 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
186109559 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
186109587 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
186109652 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
186109666 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:186112645 original size:15 final size:15
Alignment explanation
Indices: 186112625--186112693 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
186112615 GTATCTTGGG
186112625 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
186112640 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
186112655 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
186112670 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
186112685 TTTCTTTAT
1 TTTCTTTAT
186112694 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:186112694 original size:30 final size:30
Alignment explanation
Indices: 186112616--186112703 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
186112606 CATAGTATCG
* * * *
186112616 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
186112646 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
186112676 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
186112704 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:186115120 original size:46 final size:46
Alignment explanation
Indices: 186115067--186115242 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
186115057 TATTTGGGCA
186115067 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
186115113 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
186115160 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
186115206 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
186115243 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:186115222 original size:93 final size:93
Alignment explanation
Indices: 186115063--186115234 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
186115053 AGGATATTTG
* *
186115063 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
186115128 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
186115156 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
186115221 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
186115235 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:186117420 original size:26 final size:26
Alignment explanation
Indices: 186117399--186117450 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
186117389 GGCTGATTTA
186117399 GGCCTGTGGATGAGAAATCTGAGTAT
1 GGCCTGTGGATGAGAAATCTGAGTAT
186117425 GGCCTGTGGATGAGAAATCTGAGTAT
1 GGCCTGTGGATGAGAAATCTGAGTAT
186117451 AAGGCCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.35, T:0.27
Consensus pattern (26 bp):
GGCCTGTGGATGAGAAATCTGAGTAT
Found at i:186119406 original size:46 final size:46
Alignment explanation
Indices: 186119339--186119513 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
186119329 TGTAACCCGC
186119339 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
186119385 CCATAAGTGAACTAGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * * *
186119435 CTC-T---CGAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
186119478 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
186119514 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 62 0.57
47 25 0.23
48 1 0.01
49 1 0.01
50 6 0.06
51 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:186119461 original size:93 final size:93
Alignment explanation
Indices: 186119347--186119517 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
186119337 GCCCATAAGT
* *
186119347 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTAGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTAGGACTCAACTCAA
186119412 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
186119440 GAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTAGGACTCAACTCAA
*
186119505 CGAGTTCGGATGC
66 CGAGCTCGGATGC
186119518 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTAGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:186119533 original size:46 final size:45
Alignment explanation
Indices: 186119344--186119533 Score: 147
Period size: 46 Copynumber: 4.1 Consensus size: 45
186119334 CCCGCCCATA
** *
186119344 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-ACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACATCC-T
*
186119389 AAGTGAACTAGGACTCAACTCAACGAGCTCGGATGC-CTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACATC-CT
* * * *** *
186119439 --CGAACTCGGGCTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACATCC-T
*
186119482 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAA-CATCCT
186119529 AGTGA
1 AGTGA
186119534 CATGTCACTT
Statistics
Matches: 113, Mismatches: 18, Indels: 26
0.72 0.11 0.17
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
45 1 0.01
46 66 0.58
47 27 0.24
48 6 0.05
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACATCCT
Found at i:186124100 original size:15 final size:16
Alignment explanation
Indices: 186124071--186124100 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
186124061 CAAACATGCT
186124071 TTAACACATTATCAAA
1 TTAACACATTATCAAA
186124087 TTAACACA-TATCAA
1 TTAACACATTATCAA
186124101 TAAGGTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:186129057 original size:12 final size:12
Alignment explanation
Indices: 186129040--186129069 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
186129030 TTTGAGCTGT
186129040 TTAAGTAATGAA
1 TTAAGTAATGAA
186129052 TTAAGTAATGAA
1 TTAAGTAATGAA
186129064 TTAAGT
1 TTAAGT
186129070 CTGTTAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (12 bp):
TTAAGTAATGAA
Found at i:186132417 original size:46 final size:46
Alignment explanation
Indices: 186132367--186132539 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
186132357 TGGTTGAGCA
186132367 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
186132413 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
186132458 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
186132506 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
186132540 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:186132523 original size:93 final size:93
Alignment explanation
Indices: 186132364--186132534 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
186132354 GGATGGTTGA
* *
186132364 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
186132429 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
186132457 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
186132522 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
186132535 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:186148238 original size:43 final size:42
Alignment explanation
Indices: 186148150--186148260 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 42
186148140 TGAGATTACG
* * * *
186148150 TGTAAGACCATA-TCTAGGATAT-GAATCGATATGAGACTTCG
1 TGTAAGACCATAGT-TGGGATATGGCATCGATATGAGACTCCA
*
186148191 TGTAAGACCATAGTTGGGCTATTGGCATCGATATGAGA-TCCCA
1 TGTAAGACCATAGTTGGGATA-TGGCATCGATATGAGACT-CCA
*
186148234 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATAGTTGGGATATGGCAT
186148261 TGGTATGGTA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
41 17 0.29
42 9 0.15
43 33 0.56
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATAGTTGGGATATGGCATCGATATGAGACTCCA
Found at i:186150757 original size:26 final size:26
Alignment explanation
Indices: 186150728--186150835 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
186150718 TGATACAAAT
186150728 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
186150754 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
186150780 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
186150806 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
186150832 TGAT
1 TGAT
186150836 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:186157848 original size:26 final size:26
Alignment explanation
Indices: 186157819--186157925 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
186157809 TGATACAAAT
*
186157819 TGATAATGGGTTAGGTACATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
186157845 TGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
186157870 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
186157896 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
186157922 TGAT
1 TGAT
186157926 GGGAATTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 23 0.31
26 51 0.69
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:186157874 original size:51 final size:52
Alignment explanation
Indices: 186157819--186157925 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 52
186157809 TGATACAAAT
*
186157819 TGATAATGGGTTAGGTACATGTTCCATGATAATGGATTAGGTAAATATT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
186157870 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
186157922 TGAT
1 TGAT
186157926 GGGAATTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 46 0.88
52 6 0.12
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:186165419 original size:40 final size:40
Alignment explanation
Indices: 186165374--186165541 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
186165364 CGGAATATAA
186165374 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
186165414 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
186165454 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
186165494 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
186165534 CCGGATAT
1 CCGGATAT
186165542 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:186173435 original size:40 final size:40
Alignment explanation
Indices: 186173390--186173557 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
186173380 CGGAATATAA
186173390 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
186173430 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
186173470 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
186173510 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
186173550 CCGGATAT
1 CCGGATAT
186173558 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:186175216 original size:13 final size:13
Alignment explanation
Indices: 186175198--186175224 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
186175188 CGAAACCAAT
186175198 TCCGGCTAGGGTC
1 TCCGGCTAGGGTC
186175211 TCCGGCTAGGGTC
1 TCCGGCTAGGGTC
186175224 T
1 T
186175225 ATTTTGGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.30, G:0.37, T:0.26
Consensus pattern (13 bp):
TCCGGCTAGGGTC
Found at i:186181034 original size:40 final size:40
Alignment explanation
Indices: 186180968--186181134 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
186180958 AAATTGAATG
* * *
186180968 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
186181007 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
186181047 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
186181087 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
186181127 ATATCCGG
1 ATATCCGG
186181135 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:186189038 original size:40 final size:40
Alignment explanation
Indices: 186188972--186189138 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
186188962 AAATTGAATG
* * *
186188972 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
186189011 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
186189051 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
186189091 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
186189131 ATATCCGG
1 ATATCCGG
186189139 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:186193267 original size:46 final size:46
Alignment explanation
Indices: 186193217--186193392 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
186193207 TGGTTGAGCA
*
186193217 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
186193263 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
186193310 TCCGAAATCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
186193356 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
186193393 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:186193373 original size:93 final size:93
Alignment explanation
Indices: 186193214--186193385 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
186193204 GGATGGTTGA
* * * *
186193214 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
186193279 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
186193307 GCATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
*
186193372 TGAGTTCGAGTTCG
66 TGAGTCCGAGTTCG
186193386 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:186196622 original size:36 final size:36
Alignment explanation
Indices: 186196570--186196643 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
186196560 GTGATTTTTG
* *
186196570 TTGTTTAATGGTGAAATATGAAAGACATGTTTTAGA
1 TTGTCTAATGGTGAAATAGGAAAGACATGTTTTAGA
186196606 TTGTCTAATGGTGAAATAGGAAAGACATGTTTTAGA
1 TTGTCTAATGGTGAAATAGGAAAGACATGTTTTAGA
186196642 TT
1 TT
186196644 AACATATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (36 bp):
TTGTCTAATGGTGAAATAGGAAAGACATGTTTTAGA
Found at i:186207167 original size:40 final size:40
Alignment explanation
Indices: 186207057--186207243 Score: 254
Period size: 40 Copynumber: 4.7 Consensus size: 40
186207047 TGAATGATAC
* * * *
186207057 CCGGGCTAAGTCCCGAAGGCATTTATG-GTAG-TGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCG-AGTTG-CTATAT
186207097 CCGGGTTAAGA-CCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
186207136 CTGGGTTAAGACCCGAAGGCATTTGTACGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
186207176 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
186207216 CCGGGTTAAGACCCGAAGGCATTTGTGC
1 CCGGGTTAAGACCCGAAGGCATTTGTGC
186207244 TTGTGGTTAT
Statistics
Matches: 131, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 31 0.24
40 100 0.76
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:186207222 original size:80 final size:78
Alignment explanation
Indices: 186207053--186207263 Score: 273
Period size: 80 Copynumber: 2.7 Consensus size: 78
186207043 CAATTGAATG
* * * * *
186207053 ATACCCGGGCTAAGTCCCGAAGGCATTTATGGTAG-TGATTATATCCGGGTTAAGACCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTCG-AGTTG-TTATATCCGGGCTAAGACCGAAGGCA
186207117 TTTGTGCGAGTTGCT
64 TTTGTGCGAGTTGCT
* *
186207132 ATATCTGGGTTAAGACCCGAAGGCATTTGTACGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGT-CGAGTTGTTATATCCGGGCTAAGA-CCGAAGGCA
186207197 TTTGTGCGAGTTGCT
64 TTTGTGCGAGTTGCT
** *
186207212 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGT-CGAGTTGTTATATCCGGGCTAA
186207264 ATTCTGAAGA
Statistics
Matches: 116, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
79 49 0.42
80 67 0.58
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (78 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTCGAGTTGTTATATCCGGGCTAAGACCGAAGGCATT
TGTGCGAGTTGCT
Found at i:186217068 original size:40 final size:40
Alignment explanation
Indices: 186216977--186217225 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
186216967 GAACATTGAA
186216977 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-TTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
186217016 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
186217056 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
186217096 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
186217136 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
186217175 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
186217216 CTATATCCGG
1 ATATATCCGG
186217226 TTAAATCCCG
Statistics
Matches: 190, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 38 0.20
40 152 0.80
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:186225203 original size:40 final size:40
Alignment explanation
Indices: 186225148--186225396 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
186225138 AACATTGGAA
186225148 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
186225188 ATATATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
186225227 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
186225267 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
186225307 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
186225346 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
186225387 CTATATCCGG
1 ATATATCCGG
186225397 TTAAATCCCG
Statistics
Matches: 189, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 41 0.22
40 148 0.78
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:186227803 original size:46 final size:46
Alignment explanation
Indices: 186227753--186227925 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
186227743 TGGTTGAGCA
*
186227753 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
186227799 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
186227846 TTCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
186227892 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
186227926 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 28 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:186227914 original size:93 final size:93
Alignment explanation
Indices: 186227750--186227920 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
186227740 GGATGGTTGA
***
186227750 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
186227815 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
186227843 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
186227908 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
186227921 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Done.