Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 130 of 203
Found at i:41230807 original size:4 final size:4
Alignment explanation
Indices: 41230798--41230822 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
41230788 AAGGACAAGG
41230798 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
41230823 TAGAGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:41232314 original size:18 final size:19
Alignment explanation
Indices: 41232288--41232323 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
41232278 ACATTTGTAC
41232288 TTGGACTATT-TTATTATT
1 TTGGACTATTATTATTATT
*
41232306 TTGGTCTATTATTATTAT
1 TTGGACTATTATTATTAT
41232324 GATGGGCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (19 bp):
TTGGACTATTATTATTATT
Found at i:41232691 original size:22 final size:22
Alignment explanation
Indices: 41232663--41232707 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
41232653 GCTAAGAATG
*
41232663 GTTTGCATAAAGTCTGAAGCAT
1 GTTTGCACAAAGTCTGAAGCAT
41232685 GTTTGCACAAAGTCTGAAGCAT
1 GTTTGCACAAAGTCTGAAGCAT
41232707 G
1 G
41232708 AGTACCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (22 bp):
GTTTGCACAAAGTCTGAAGCAT
Found at i:41232719 original size:22 final size:22
Alignment explanation
Indices: 41232671--41232712 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
41232661 TGGTTTGCAT
** *
41232671 AAAGTCTGAAGCATGTTTGCAC
1 AAAGTCTGAAGCATGAGTACAC
41232693 AAAGTCTGAAGCATGAGTAC
1 AAAGTCTGAAGCATGAGTAC
41232713 CATAAGTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (22 bp):
AAAGTCTGAAGCATGAGTACAC
Found at i:41233598 original size:15 final size:16
Alignment explanation
Indices: 41233578--41233610 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
41233568 CATTTCACTA
41233578 TTATGTC-TTTTATAT
1 TTATGTCTTTTTATAT
41233593 TTATGTCTTTTTATAT
1 TTATGTCTTTTTATAT
41233609 TT
1 TT
41233611 TGTACGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (16 bp):
TTATGTCTTTTTATAT
Found at i:41235986 original size:14 final size:14
Alignment explanation
Indices: 41235967--41235993 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41235957 GCGACCATTT
41235967 TACTATTATGTTGC
1 TACTATTATGTTGC
41235981 TACTATTATGTTG
1 TACTATTATGTTG
41235994 TTATTGTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (14 bp):
TACTATTATGTTGC
Found at i:41237817 original size:19 final size:19
Alignment explanation
Indices: 41237793--41237830 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
41237783 TTTTAAAGCT
41237793 TTTGCTGAAATA-AAAAATA
1 TTTGCT-AAATACAAAAATA
*
41237812 TTTGCTTAATACAAAAATA
1 TTTGCTAAATACAAAAATA
41237831 GTAATTAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (19 bp):
TTTGCTAAATACAAAAATA
Found at i:41241949 original size:15 final size:16
Alignment explanation
Indices: 41241929--41241961 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
41241919 CATTTCACTA
41241929 TTATGTC-TTTTATAT
1 TTATGTCTTTTTATAT
41241944 TTATGTCTTTTTATAT
1 TTATGTCTTTTTATAT
41241960 TT
1 TT
41241962 TGCACGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (16 bp):
TTATGTCTTTTTATAT
Found at i:41243625 original size:37 final size:35
Alignment explanation
Indices: 41243572--41243642 Score: 83
Period size: 37 Copynumber: 2.0 Consensus size: 35
41243562 ATTCCAAAAA
41243572 TAATATTATTTCAATAGT-TTAATATTAAATTTAATT
1 TAATATTATTTCAATAGTATT-ATATT-AATTTAATT
*
41243608 TAATACTTATCTT-AATAGTATTTTATTAATTTAAT
1 TAATA-TTAT-TTCAATAGTATTATATTAATTTAAT
41243643 ATTTAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
36 13 0.42
37 14 0.45
38 4 0.13
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (35 bp):
TAATATTATTTCAATAGTATTATATTAATTTAATT
Found at i:41244639 original size:41 final size:41
Alignment explanation
Indices: 41244589--41244719 Score: 165
Period size: 41 Copynumber: 3.2 Consensus size: 41
41244579 TGGCACTTCA
* * * * *
41244589 CCTGATAGGCTTATAGTCTAATTCCGTTCGCCGACACTTAG
1 CCTGCTAGGCATATAGTCTGATTCAGTTCACCGACACTTAG
* * *
41244630 CCTGCTAGGCCTATAGCCTGATTCAGTTCACCGGCACTTAG
1 CCTGCTAGGCATATAGTCTGATTCAGTTCACCGACACTTAG
*
41244671 CCTGCTAGACATATAGTCTGATTCAGTTCACC-AGCACTTAG
1 CCTGCTAGGCATATAGTCTGATTCAGTTCACCGA-CACTTAG
41244712 CCTGCTAG
1 CCTGCTAG
41244720 ACGAATAGTC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 78 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (41 bp):
CCTGCTAGGCATATAGTCTGATTCAGTTCACCGACACTTAG
Found at i:41244742 original size:41 final size:41
Alignment explanation
Indices: 41244623--41244742 Score: 127
Period size: 41 Copynumber: 2.9 Consensus size: 41
41244613 CGTTCGCCGA
* * * * *
41244623 CACTTAGCCTGCTAGGCCTATAG-CCTGATTCAGTTCACCGG
1 CACTTAGCCTGCTAGACATATAGTCC-GAATAAGTTCACCAG
* * *
41244664 CACTTAGCCTGCTAGACATATAGTCTGATTCAGTTCACCAG
1 CACTTAGCCTGCTAGACATATAGTCCGAATAAGTTCACCAG
*
41244705 CACTTAGCCTGCTAGACGA-ATAGTCCGAATAATTTCAC
1 CACTTAGCCTGCTAGAC-ATATAGTCCGAATAAGTTCAC
41244743 TGGCAATAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 67 0.97
42 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (41 bp):
CACTTAGCCTGCTAGACATATAGTCCGAATAAGTTCACCAG
Found at i:41245386 original size:40 final size:40
Alignment explanation
Indices: 41245331--41245411 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
41245321 AATACAACAA
41245331 ATTTTACATATATATACATGTATATTCGAATATAATTTAT
1 ATTTTACATATATATACATGTATATTCGAATATAATTTAT
41245371 ATTTTACATATATATACATGTATATTCGAATATAATTTAT
1 ATTTTACATATATATACATGTATATTCGAATATAATTTAT
41245411 A
1 A
41245412 CATATATGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (40 bp):
ATTTTACATATATATACATGTATATTCGAATATAATTTAT
Found at i:41246704 original size:11 final size:11
Alignment explanation
Indices: 41246675--41246712 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
41246665 GTTGTTACAT
*
41246675 TATTATTTTAA
1 TATTAATTTAA
*
41246686 TAAT-ATTTAA
1 TATTAATTTAA
41246696 TATTAATTTAA
1 TATTAATTTAA
41246707 TATTAA
1 TATTAA
41246713 AGTGATTGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:41249242 original size:25 final size:26
Alignment explanation
Indices: 41249192--41249243 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
41249182 AGTTGTAGAG
*
41249192 AGAAAATTCTCTGAAGAGATTATTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
* *
41249218 AGAAAATT-TCTAAAGATATTTTTCT
1 AGAAAATTCTCTAAAGAGATTATTCT
41249243 A
1 A
41249244 ATTTACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGAGATTATTCT
Found at i:41253034 original size:28 final size:29
Alignment explanation
Indices: 41252998--41253061 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
41252988 TAAATAAAAA
*
41252998 TTCTATTACCATAC-GA-ATTATAACTATT
1 TTCTTTTACC-TACGGACATTATAACTATT
*
41253026 TTCTTTTACCTACGGATCATTATAATTATT
1 TTCTTTTACCTACGGA-CATTATAACTATT
41253056 TTCTTT
1 TTCTTT
41253062 ATTATTATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 3 0.10
28 11 0.35
30 17 0.55
ACGTcount: A:0.28, C:0.17, G:0.05, T:0.50
Consensus pattern (29 bp):
TTCTTTTACCTACGGACATTATAACTATT
Found at i:41261144 original size:11 final size:10
Alignment explanation
Indices: 41261099--41261147 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 10
41261089 ATGGAGTTTT
41261099 AAATCTATATA
1 AAAT-TATATA
*
41261110 TAATATATATA
1 AAAT-TATATA
41261121 TAAATTATATA
1 -AAATTATATA
41261132 AAATTATACTA
1 AAATTATA-TA
41261143 AAATT
1 AAATT
41261148 TAGCACATGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 8 0.24
11 22 0.67
12 3 0.09
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (10 bp):
AAATTATATA
Found at i:41261144 original size:20 final size:20
Alignment explanation
Indices: 41261106--41261144 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
41261096 TTTAAATCTA
*
41261106 TATATAATATATATATAAAT
1 TATATAAAATATATATAAAT
41261126 TATATAAAAT-TATACTAAA
1 TATATAAAATATATA-TAAA
41261145 ATTTAGCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TATATAAAATATATATAAAT
Found at i:41261186 original size:15 final size:14
Alignment explanation
Indices: 41261166--41261196 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
41261156 GAAGTGAAAA
41261166 ATAAATATTATACAT
1 ATAAATATTATA-AT
41261181 ATAAATATTATAAT
1 ATAAATATTATAAT
41261195 AT
1 AT
41261197 TTTTGGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAAATATTATAAT
Found at i:41275086 original size:44 final size:44
Alignment explanation
Indices: 41275023--41275971 Score: 785
Period size: 44 Copynumber: 21.5 Consensus size: 44
41275013 TAAAAAACAA
* * * * *
41275023 CAGATCTTGCCTTCATATATTGGCGTGAAGTAGATCGAAAATAA
1 CAGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAG
* *
41275067 CAGATGC-TGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-G
1 CAGAT-CTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAG
* * * * *
41275111 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAG
* * * * *
41275156 TAGATCTTGTCTTCATGTATTGGTGTGAAGGAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAG
* * *
41275200 CAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAG
* *
41275244 CAGATCTTGTCTTTCC-ATACTAGTG-GTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTC-TTCCTATA-TTG-GAGTGAAGTAGATCGAAGATAG
* * * *
41275289 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAG
* * ** * *
41275333 CAGATCATGCCTTCCTATATTGGTAGCAAAGTGGGTCGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAG
* * * * *
41275377 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAG
* * * *
41275422 CAGATCTTGTCTTCATGTATTGGTGTAAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAG
* * *
41275466 CAGATCTTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAGAT-G
1 CAGATCTTGTCTTCCTATATT-GGAGTGAAGTAGATCGAAGATAG
* * * *
41275510 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAG
* * *
41275555 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAG
* * * * *
41275599 CAGATCTTATCTTCCTATATT-GATATGAAATGGATTGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGA-GTGAAGTAGATCGAAGATAG
* * * * *
41275642 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAG
* * * * *
41275687 CAGATCTTGTTTTCATGTATTGGCGTGGAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAG
** * * * *
41275731 CAGATCTTACCTTCCTATATT-GATATGAAATGGATTGAAGAT-G
1 CAGATCTTGTCTTCCTATATTGGA-GTGAAGTAGATCGAAGATAG
* * * * *
41275774 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAG
* * * * *
41275819 CAGATCCTGCCTTCCTATATTGGTAG-GAAGTGGGTCGAAG--AC
1 CAGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAG
* * * * * *
41275861 CAGATCTTGTATTCCCATATTGGTGGCGAAGTAGATCGTAGAAAG
1 CAGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAG
* * * *
41275906 CAGATCTTGTCTTCATGTATTGGCA-TGAAGTGGATCGAAAATAG
1 CAGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAG
* *
41275950 CAGATCATGTCTTCTTATATTG
1 CAGATCTTGTCTTCCTATATTG
41275972 AGGCAGGCTG
Statistics
Matches: 713, Mismatches: 165, Indels: 54
0.77 0.18 0.06
Matches are distributed among these distances:
42 22 0.03
43 53 0.07
44 436 0.61
45 201 0.28
46 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
CAGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAG
Found at i:41275262 original size:133 final size:133
Alignment explanation
Indices: 41275023--41275919 Score: 1284
Period size: 133 Copynumber: 6.8 Consensus size: 133
41275013 TAAAAAACAA
* * * *
41275023 CAGATCTTGCCTTCATATATTGGCGTGAAGTAGATCGAAAATAACAGATGC-TGTCTTCCTATAT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGAT-CTTGTCTTCCTATAT
41275087 TGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
65 TGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
41275152 AAAG
130 AAAG
* * * *
41275156 TAGATCTTGTCTTCATGTATTGGTGTGAAGGAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATT
* * *
41275221 GGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTTCCATACTAGTGGTGAAGTAGATCGAAGA
66 GGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
41275286 AAG
131 AAG
* * *
41275289 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGATCATGCCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATT
* *
41275354 GGTAGCAAAGTGGGTCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
66 GGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
41275419 AAG
131 AAG
* *
41275422 CAGATCTTGTCTTCATGTATTGGTGTAAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATT
* *
41275487 AGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGA
66 GGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
41275552 AAG
131 AAG
*
41275555 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTATCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATT
* * * *
41275620 GATA-TGAAATGGATTGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
66 GGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
41275684 AAG
131 AAG
* * **
41275687 CAGATCTTGTTTTCATGTATTGGCGTGGAGTAGATCGAAGATAGCAGATCTTACCTTCCTATATT
1 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATT
* * * * *
41275752 GATA-TGAAATGGATTGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGA
66 GGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
*
41275816 TAG
131 AAG
* * * * * * * * * *
41275819 CAGATCCTGCCTTCCTATATTGGTAG-GAAGTGGGTCGAAG--ACCAGATCTTGTATTCCCATAT
1 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATAT
* * * *
41275881 TGGTGGCGAAGTAGATCGTAGAAAGCAGATCTTGTCTTC
65 TGGTAGCGAAGTGGATCGAAG-ATGCAGATCTTGTCTTC
41275920 ATGTATTGGC
Statistics
Matches: 694, Mismatches: 66, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
130 20 0.03
131 10 0.01
132 232 0.33
133 432 0.62
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (133 bp):
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATT
GGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA
AAG
Found at i:41277719 original size:18 final size:19
Alignment explanation
Indices: 41277696--41277734 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
41277686 AAAATATATA
*
41277696 TATGT-ATATTTATTTTTT
1 TATGTAATAATTATTTTTT
41277714 TATGTACATAATTATTTTTT
1 TATGTA-ATAATTATTTTTT
41277734 T
1 T
41277735 TAAACTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
20 13 0.72
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (19 bp):
TATGTAATAATTATTTTTT
Found at i:41278142 original size:17 final size:18
Alignment explanation
Indices: 41278120--41278165 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
41278110 TCTTTATCAA
**
41278120 TTTATTTTTTTCATTT-T
1 TTTATTTTGCTCATTTAT
41278137 TTTATTTTGCTCATTTAT
1 TTTATTTTGCTCATTTAT
41278155 TTGTATTTTGC
1 TT-TATTTTGC
41278166 GTGTCATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 14 0.56
18 3 0.12
19 8 0.32
ACGTcount: A:0.13, C:0.09, G:0.07, T:0.72
Consensus pattern (18 bp):
TTTATTTTGCTCATTTAT
Found at i:41281447 original size:23 final size:23
Alignment explanation
Indices: 41281421--41281471 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
41281411 AATTATTTTA
*
41281421 TTAAATTTAAATTTATTACAATG
1 TTAAATTCAAATTTATTACAATG
* * *
41281444 TTAAATTCAATTTTATTACTATT
1 TTAAATTCAAATTTATTACAATG
41281467 TTAAA
1 TTAAA
41281472 ATATCATACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAAATTCAAATTTATTACAATG
Found at i:41281449 original size:17 final size:15
Alignment explanation
Indices: 41281404--41281450 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
41281394 TCAAGTTCAA
* *
41281404 TTATTAAAATT-ATT
1 TTATTAAATTTAAAT
41281418 TTATTAAATTTAAAT
1 TTATTAAATTTAAAT
41281433 TTATTACAATGTTAAAT
1 TTATTA-AAT-TTAAAT
41281450 T
1 T
41281451 CAATTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 10 0.36
15 8 0.29
16 3 0.11
17 7 0.25
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (15 bp):
TTATTAAATTTAAAT
Found at i:41291622 original size:18 final size:18
Alignment explanation
Indices: 41291577--41291622 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
41291567 AAAAGTTAAA
*
41291577 ATTGGTAACAGAGGGCCG
1 ATTGGTAACTGAGGGCCG
41291595 ATTGGTAACTGAGGGCCG
1 ATTGGTAACTGAGGGCCG
41291613 ATTGGTAACT
1 ATTGGTAACT
41291623 ATAAGTGCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (18 bp):
ATTGGTAACTGAGGGCCG
Found at i:41296338 original size:97 final size:96
Alignment explanation
Indices: 41296159--41296348 Score: 238
Period size: 97 Copynumber: 2.0 Consensus size: 96
41296149 ATTCATTTTG
* * * *
41296159 TATCTTAGCAAATTTGCTATCTTGATTGATTCATTCATGTCAAGCTTTGCTCTCAATAAAATTTC
1 TATCTTAGAAAATTTGCTATCTTGATTAATTCATTCATGTCAAGCTTTGCTCTCAACAAAATATC
*
41296224 CTCTTATCCATTGTGATAATCTTTTTCATCT
66 CTCTTATCCATTATGATAATCTTTTTCATCT
* * * * *
41296255 TATCTTAGTAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTAT-TTCTCGACAAAATA
1 TATCTTAG-AAAATTTGCTATCTTGATTAATTCATTCATGTCAAGCTT-TGCTCTCAACAAAATA
* * *
41296319 TCGTCTTGTCTATTATGATAATCTTTTTCA
64 TCCTCTTATCCATTATGATAATCTTTTTCA
41296349 AGCATTTTTT
Statistics
Matches: 79, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
96 8 0.10
97 70 0.89
98 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.47
Consensus pattern (96 bp):
TATCTTAGAAAATTTGCTATCTTGATTAATTCATTCATGTCAAGCTTTGCTCTCAACAAAATATC
CTCTTATCCATTATGATAATCTTTTTCATCT
Found at i:41296985 original size:44 final size:44
Alignment explanation
Indices: 41296821--41297553 Score: 422
Period size: 44 Copynumber: 17.1 Consensus size: 44
41296811 CAGTGAAGTG
* * *
41296821 GATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
*** * *
41296865 GA-TCGCATC-TAG-TCTTATCTCCCTGAAGTTGTAGTGGAGCA
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
** * *
41296906 GACAAAGAAGAT-ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCG
1 GA-TTA-AA-ATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
* ** *
41296952 GATTAAAACCACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCA
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
*** * * *
41296996 GA-TCGCATC-TAG-TCTTATCTCTCTGAAGTTGCAGTGGAGCG
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
* * ** *
41297037 GATTAAAACCACAAATCTTATCTCTTTGAAGTTGCAGTAGAGCA
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
*** * *
41297081 GA-TCGCATC-TAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCG
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
* * *
41297122 GATTAAAATCACAGATCTTATCTCTCTGAAGTTCCAGTAGAGCA
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
* *** * * *
41297166 -AATCGTATC-CAG-TCTTATCTCCATGAAGTTGCAGGGGAACA
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
** * * *
41297207 GACGAAAGA-AACCA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCG
1 GATTAAA-ATCA-CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
* * * * *
41297251 GATTAAAACCACAGATTTTATCTCTCTAAAGTTGCAGTAGAGCA
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
*** * * **
41297295 GA-TCGCATCA-AG-TCTTATCTCCCT-AAGTTACAGGGGAATA
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
** * * * *
41297335 GACGAAAGA-AACCA-ATCCTATCTCCCTGAAGTTGGAGTGGAGCG
1 GATTAAA-ATCA-CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
* * * * *
41297379 GGTTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGTGCA
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
*** * * *
41297423 GA-TCGCATCA-AG-TCTTATCTCCCT-AAGTTACAGGGGAACA
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
** * * *
41297463 GACGAAAGA-AACCA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCG
1 GATTAAA-ATCA-CAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
** * * *
41297507 GATTAAAGCCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTA
1 GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
41297551 GAT
1 GAT
41297554 CGCATTCAGT
Statistics
Matches: 501, Mismatches: 152, Indels: 72
0.69 0.21 0.10
Matches are distributed among these distances:
40 26 0.05
41 129 0.26
42 22 0.04
43 59 0.12
44 232 0.46
45 4 0.01
46 29 0.06
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
GATTAAAATCACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCA
Found at i:41297000 original size:131 final size:129
Alignment explanation
Indices: 41296768--41297079 Score: 446
Period size: 131 Copynumber: 2.4 Consensus size: 129
41296758 CATGTTCCCA
* * * * * *
41296768 AGTGGAGCAGACAAAAGCTACTAATCCTATCTCCTTAAAGTTACAGTGAAGTGGATTAAAACCAC
1 AGTGGAGCAGACAAAAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCAC
*
41296833 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGT
66 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGC
* *
41296897 AGTGGAGCAGACAAAGAAGATACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
1 AGTGGAGCAGAC-AA-AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACC
* *
41296962 ACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTG
64 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTG
41297027 C
129 C
* * * * *
41297028 AGTGGAGCGGATTAAAA-CCACAAATCTTATCTCTTTGAAGTTGCAGTAGAGC
1 AGTGGAGCAGA-CAAAAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGC
41297080 AGATCGCATC
Statistics
Matches: 162, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
129 42 0.26
130 4 0.02
131 116 0.72
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (129 bp):
AGTGGAGCAGACAAAAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCAC
AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGC
Found at i:41297032 original size:85 final size:85
Alignment explanation
Indices: 41296923--41297199 Score: 473
Period size: 85 Copynumber: 3.3 Consensus size: 85
41296913 AAGATACAAA
41296923 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTTTGAAGTTGCA
41296988 GTAGAGCAGATCGCATCTAG
66 GTAGAGCAGATCGCATCTAG
* *
41297008 TCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTTTGAAGTTGCA
41297073 GTAGAGCAGATCGCATCTAG
66 GTAGAGCAGATCGCATCTAG
* * *
41297093 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTCCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTTTGAAGTTGCA
* * *
41297158 GTAGAGCAAATCGTATCCAG
66 GTAGAGCAGATCGCATCTAG
*
41297178 TCTTATCTCCATGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAG
41297200 GGGAACAGAC
Statistics
Matches: 181, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 181 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (85 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTTTGAAGTTGCA
GTAGAGCAGATCGCATCTAG
Found at i:41297147 original size:129 final size:126
Alignment explanation
Indices: 41297008--41297548 Score: 525
Period size: 128 Copynumber: 4.2 Consensus size: 126
41296998 TCGCATCTAG
* * * **
41297008 TCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTTTGAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGC-AAATAAAACC-C-AATCTTATCTCCATGAAGTTGCA
* * * * * * * *
41297073 GTAGAGCAGATC-GCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGA
63 GGAGAACAGA-CAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGA
* *** * * *
41297137 TCTTATCTCTCTGAAGTTCCAGTAGAGCAAATCGTATCCAGTCTTATCTCCATGAAGTTGCAGGG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAAATAAAACCCAATCTTATCTCCATGAAGTTGCAGGA
41297202 GAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGA
66 GAACAGAC---AGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGA
* * * *** * * *
41297266 TTTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCA-TCAAGTCTTATCTCCCT-AAGTTACAGG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAAATAAAACCCAA-TCTTATCTCCATGAAGTTGCAGG
* * * *
41297329 GGAATAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGGAGTGGAGCGGGTTAAAACCACAGA
65 AGAACAGAC---AGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGA
* * *** * * *
41297394 TCTTATCTCTCTGAAGTTGCAGTAGTGCAGATCGCA-TCAAGTCTTATCTCCCT-AAGTTACAGG
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAAATAAAACCCAA-TCTTATCTCCATGAAGTTGCAGG
* *
41297457 GGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCCACAGA
65 AGAACAGAC---AGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGA
41297522 TCTTATCTCTCTGAAGTTGCAGTAGAG
1 TCTTATCTCTCTGAAGTTGCAGTAGAG
41297549 TAGATCGCAT
Statistics
Matches: 367, Mismatches: 40, Indels: 11
0.88 0.10 0.03
Matches are distributed among these distances:
125 1 0.00
126 27 0.07
127 1 0.00
128 224 0.61
129 114 0.31
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (126 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAAATAAAACCCAATCTTATCTCCATGAAGTTGCAGGA
GAACAGACAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGA
Found at i:41297229 original size:85 final size:82
Alignment explanation
Indices: 41296923--41297249 Score: 375
Period size: 85 Copynumber: 3.8 Consensus size: 82
41296913 AAGATACAAA
* * *
41296923 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTTTGAAGTTGCA
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCGGATAAAAAAC-CA-ATCTTATCTCTCTGAAGTTGCA
41296988 GTAGAGCAGATCGCATCTAG
63 GTAGAGCAGATCGCATCTAG
* * *
41297008 TCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTTTGAAGTTGCA
1 TCTTATCTC-CTGAAGTTGCAGTGGAGCGGA-TAAAA-AACCAATCTTATCTCTCTGAAGTTGCA
41297073 GTAGAGCAGATCGCATCTAG
63 GTAGAGCAGATCGCATCTAG
* * *
41297093 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTCCA
1 TCTTATCT-CCTGAAGTTGCAGTGGAGCGGATAAAAAAC-CA-ATCTTATCTCTCTGAAGTTGCA
* * *
41297158 GTAGAGCAAATCGTATCCAG
63 GTAGAGCAGATCGCATCTAG
* * * * * *
41297178 TCTTATCTCCATGAAGTTGCAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCC-TGAAGTTGCAGTGGAGCGGA-TAAA-AAACCAATCTTATCTCTCTGAAGTTGCA
*
41297243 GTGGAGC
63 GTAGAGC
41297250 GGATTAAAAC
Statistics
Matches: 210, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
83 1 0.00
84 8 0.04
85 187 0.89
86 10 0.05
87 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (82 bp):
TCTTATCTCCTGAAGTTGCAGTGGAGCGGATAAAAAACCAATCTTATCTCTCTGAAGTTGCAGTA
GAGCAGATCGCATCTAG
Found at i:41297239 original size:170 final size:170
Alignment explanation
Indices: 41296923--41297249 Score: 469
Period size: 170 Copynumber: 1.9 Consensus size: 170
41296913 AAGATACAAA
* *
41296923 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTCCA
* * * * * ** *
41296988 GTAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAAT
66 GTAGAGCAAATCGCATCCAGTCTTATCTCTCTGAAGTTGCAGGGGAACAGACGAAAACAACAAAT
* **
41297053 CTTATCTCTTTGAAGTTGCAGTAGAGCAGATCGCATCTAG
131 CCTATCTCCCTGAAGTTGCAGTAGAGCAGATCGCATCTAG
*
41297093 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTCCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTCCA
* *
41297158 GTAGAGCAAATCGTATCCAGTCTTATCTC-CATGAAGTTGCAGGGGAACAGACGAAAGA-AACCA
66 GTAGAGCAAATCGCATCCAGTCTTATCTCTC-TGAAGTTGCAGGGGAACAGACGAAA-ACAACAA
*
41297221 ATCCTATCTCCCTGAAGTTGCAGTGGAGC
129 ATCCTATCTCCCTGAAGTTGCAGTAGAGC
41297250 GGATTAAAAC
Statistics
Matches: 138, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
169 1 0.01
170 136 0.99
171 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (170 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTCCA
GTAGAGCAAATCGCATCCAGTCTTATCTCTCTGAAGTTGCAGGGGAACAGACGAAAACAACAAAT
CCTATCTCCCTGAAGTTGCAGTAGAGCAGATCGCATCTAG
Found at i:41297387 original size:128 final size:128
Alignment explanation
Indices: 41297096--41297577 Score: 795
Period size: 128 Copynumber: 3.8 Consensus size: 128
41297086 CATCTAGTCT
* *
41297096 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTCCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
* * * * *
41297161 GAGCAAATCGTATCCAGTCTTATCTCCATGAAGTTGCAGGGGAACAGACGAAAGAAACCAATCC
66 GAGCAGATCGCATCAAGTCTTATCTCCCT-AAGTTACAGGGGAACAGACGAAAGAAACCAATCC
* *
41297225 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATTTTATCTCTCTAAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
*
41297290 GAGCAGATCGCATCAAGTCTTATCTCCCTAAGTTACAGGGGAATAGACGAAAGAAACCAATCC
66 GAGCAGATCGCATCAAGTCTTATCTCCCTAAGTTACAGGGGAACAGACGAAAGAAACCAATCC
* *
41297353 TATCTCCCTGAAGTTGGAGTGGAGCGGGTTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
*
41297418 GTGCAGATCGCATCAAGTCTTATCTCCCTAAGTTACAGGGGAACAGACGAAAGAAACCAATCC
66 GAGCAGATCGCATCAAGTCTTATCTCCCTAAGTTACAGGGGAACAGACGAAAGAAACCAATCC
*
41297481 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCCACAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
* *
41297546 GAGTAGATCGCATTC-AGTCTTATCTCTCTAAG
66 GAGCAGATCGCA-TCAAGTCTTATCTCCCTAAG
41297578 CAGTAGTGGA
Statistics
Matches: 330, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
128 242 0.73
129 88 0.27
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (128 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
GAGCAGATCGCATCAAGTCTTATCTCCCTAAGTTACAGGGGAACAGACGAAAGAAACCAATCC
Found at i:41298969 original size:6 final size:6
Alignment explanation
Indices: 41298958--41298986 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
41298948 CATTAGTTGG
41298958 GTTGAA GTTGAA GTTGAA GTTGAA GTTGA
1 GTTGAA GTTGAA GTTGAA GTTGAA GTTGA
41298987 GAGCAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (6 bp):
GTTGAA
Found at i:41299409 original size:20 final size:21
Alignment explanation
Indices: 41299386--41299425 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
41299376 AAAGTTTTCT
*
41299386 AAAATTTTAAATAT-ATTAAA
1 AAAATGTTAAATATAATTAAA
*
41299406 AAAATGTTAAGTATAATTAA
1 AAAATGTTAAATATAATTAA
41299426 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATGTTAAATATAATTAAA
Found at i:41299535 original size:17 final size:17
Alignment explanation
Indices: 41299513--41299565 Score: 70
Period size: 17 Copynumber: 3.0 Consensus size: 17
41299503 TTAAAAAACT
41299513 TTAAAAAATTAAATATA
1 TTAAAAAATTAAATATA
**
41299530 TTAAAATTTTAAATATA
1 TTAAAAAATTAAATATA
41299547 TTAAAAAATGTTAAATATA
1 TTAAAAAA--TTAAATATA
41299566 ACTAATTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 21 0.70
19 9 0.30
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TTAAAAAATTAAATATA
Found at i:41299561 original size:36 final size:35
Alignment explanation
Indices: 41299488--41299565 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 35
41299478 AGATTTTCTT
41299488 AATATATTTAAAATTTTAAAAAACTTTAAAAAATTA
1 AATATATTTAAAATTTTAAAAAAC-TTAAAAAATTA
*
41299524 AATATA-TTAAAATTTTAAATATA-TTAAAAAATGTTA
1 AATATATTTAAAATTTTAAA-AAACTTAAAAAA--TTA
41299560 AATATA
1 AATATA
41299566 ACTAATTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
34 8 0.21
35 13 0.34
36 17 0.45
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (35 bp):
AATATATTTAAAATTTTAAAAAACTTAAAAAATTA
Found at i:41299669 original size:72 final size:72
Alignment explanation
Indices: 41299538--41299674 Score: 222
Period size: 72 Copynumber: 1.9 Consensus size: 72
41299528 TATTAAAATT
* **
41299538 TTAAATATATTAAAAAATGTTAAATATAACTAATTTTAAAATTTTAATATATTTGATATA-TTTT
1 TTAAATATATTAAAAAATGTTAAATATAACCAATTTTAAAATTTTAATATATTCAATATAGTTTT
41299602 AAAAAAA
66 AAAAAAA
*
41299609 TTAAATATATTAAAAAATTGTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATATAGTTT
1 TTAAATATATTAAAAAA-TGTTAAATATAACCAATTTTAAAATTTTAATATATTCAATATAGTTT
41299674 T
65 T
41299675 TTAAAATATA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 17 0.28
72 39 0.65
73 4 0.07
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (72 bp):
TTAAATATATTAAAAAATGTTAAATATAACCAATTTTAAAATTTTAATATATTCAATATAGTTTT
AAAAAAA
Found at i:41299698 original size:20 final size:20
Alignment explanation
Indices: 41299673--41299712 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41299663 CAATATAGTT
41299673 TTTTAAAATATATTTTAATA
1 TTTTAAAATATATTTTAATA
* *
41299693 TTTTAATATATTTTTTAATA
1 TTTTAAAATATATTTTAATA
41299713 GGTAAAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTAAAATATATTTTAATA
Found at i:41299794 original size:8 final size:8
Alignment explanation
Indices: 41299781--41299820 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
41299771 GAGTATAACC
41299781 AATTTTAA
1 AATTTTAA
41299789 AATTTTAA
1 AATTTTAA
41299797 AATATTTAA
1 AAT-TTTAA
*
41299806 ATATATTAA
1 A-ATTTTAA
41299815 AATTTT
1 AATTTT
41299821 GAACCTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 15 0.54
9 11 0.39
10 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AATTTTAA
Found at i:41302211 original size:6 final size:6
Alignment explanation
Indices: 41302200--41302243 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
41302190 TGGAGAAAGA
*
41302200 ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT ACATGT ATAT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATAT
41302244 ATTTATACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 4 0.12
6 30 0.88
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (6 bp):
ATATGT
Found at i:41302223 original size:18 final size:16
Alignment explanation
Indices: 41302200--41302243 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
41302190 TGGAGAAAGA
41302200 ATATGTATATGTATATGT
1 ATATGTATATG--TATGT
41302218 ATATGTATATGTATGT
1 ATATGTATATGTATGT
*
41302234 ACATGTATAT
1 ATATGTATAT
41302244 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 14 0.56
18 11 0.44
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (16 bp):
ATATGTATATGTATGT
Found at i:41308019 original size:23 final size:23
Alignment explanation
Indices: 41307991--41308084 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
41307981 ATGTGTGTAT
* *
41307991 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
41308014 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
41308037 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
41308060 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
41308083 CT
1 CT
41308085 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:41312526 original size:23 final size:23
Alignment explanation
Indices: 41312498--41312591 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
41312488 ATGTGTGTAT
* *
41312498 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
41312521 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
41312544 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
41312567 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
41312590 CT
1 CT
41312592 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:41317000 original size:18 final size:19
Alignment explanation
Indices: 41316977--41317067 Score: 69
Period size: 17 Copynumber: 5.2 Consensus size: 19
41316967 TAACTTTTTT
41316977 GTATAATTATT-TTAGTTA
1 GTATAATTATTGTTAGTTA
41316995 GTATAATTATTGTTAG-T-
1 GTATAATTATTGTTAGTTA
41317012 -TAT--TT-TTGTATAAGTTTA
1 GTATAATTATTGT-T-AG-TTA
41317030 GT-T-ATTATTGTTAGTTA
1 GTATAATTATTGTTAGTTA
*
41317047 --ATAATTATTGTTACTTA
1 GTATAATTATTGTTAGTTA
41317064 GTAT
1 GTAT
41317068 TATTGTTAGT
Statistics
Matches: 59, Mismatches: 1, Indels: 25
0.69 0.01 0.29
Matches are distributed among these distances:
13 4 0.07
14 3 0.05
15 2 0.03
16 4 0.07
17 17 0.29
18 15 0.25
19 10 0.17
20 4 0.07
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (19 bp):
GTATAATTATTGTTAGTTA
Found at i:41317250 original size:76 final size:77
Alignment explanation
Indices: 41317044--41317261 Score: 201
Period size: 76 Copynumber: 2.8 Consensus size: 77
41317034 TTATTGTTAG
* * *
41317044 TTAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATTATGGTTAGTTA
1 TTAATTATTATTGTTAGTTAGTAATATTGTTAGTAAAAAAC---TATTATTA-T-T-GTTAGTTA
41317109 TTAGGATTAGTAAAAACC
60 TTAGGATTAGTAAAAACC
* ** *** * * **
41317127 CTAATTATTATT-TTAGTTAGTACGATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATT
1 TTAATTATTATTGTTAGTTAGTAATATTGTTAG-TAAAAAACTATTATTATTGTTAGTTATTAGG
*
41317190 TTTAGT-AAAACC
65 ATTAGTAAAAACC
* *
41317202 TTAATTATTATTGTTAGTTAGTAATATTTTTAGTAAAAAACTATTATTATTATTA-TTATT
1 TTAATTATTATTGTTAGTTAGTAATATTGTTAGTAAAAAACTATTATTATTGTTAGTTATT
41317262 GTTATTATTA
Statistics
Matches: 109, Mismatches: 23, Indels: 14
0.75 0.16 0.10
Matches are distributed among these distances:
75 27 0.25
76 43 0.39
77 1 0.01
78 1 0.01
79 5 0.05
80 2 0.02
82 17 0.16
83 13 0.12
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (77 bp):
TTAATTATTATTGTTAGTTAGTAATATTGTTAGTAAAAAACTATTATTATTGTTAGTTATTAGGA
TTAGTAAAAACC
Found at i:41317251 original size:3 final size:3
Alignment explanation
Indices: 41317243--41317273 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
41317233 AGTAAAAAAC
*
41317243 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
41317274 GTGTTAGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:41320862 original size:18 final size:18
Alignment explanation
Indices: 41320825--41320862 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
41320815 GAGCTTTGGC
* *
41320825 TCAGGCTCCGATTCAGGA
1 TCAGGCTCCGAATCAAGA
41320843 TCAGGCTCCGAATCAAGA
1 TCAGGCTCCGAATCAAGA
41320861 TC
1 TC
41320863 TGCTGCAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (18 bp):
TCAGGCTCCGAATCAAGA
Found at i:41322766 original size:157 final size:159
Alignment explanation
Indices: 41322480--41323684 Score: 1941
Period size: 159 Copynumber: 7.6 Consensus size: 159
41322470 ACTTCAAAAC
* *
41322480 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTTGTATTTTTCTTTTTTCTCGAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
* *
41322545 ACTTTCCAAAAATATACTATTTTCGTATTTTATTATTTTATA-TATTTT-TTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
41322608 AATGTATACATTTAGTGTGTTTTTTAAAT
131 AATGTATACATTTAGTGTGTTTTTTAAAT
* * *
41322637 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTTGTATTTTTCGTTTTTCTCGAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
* *
41322702 ACTTTCCAAAAATATACTATTTTCGTATTTTATTATTTTATA-TATTTT-TTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
41322765 AATGTATACATTTAGTGTGTTTTTTAAAT
131 AATGTATACATTTAGTGTGTTTTTTAAAT
* *
41322794 AAATTTAGTAAAAAACCCTTATTTCT-GCCATTTGTTTGTATTTTTCTTTTTTCCC-AGATTTTA
1 AAATTTAGTAAAAAACCCTTATTT-TGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGA-ATTTTA
* *
41322857 TTACTTT--AAAAA-ATACTATTTTTGTATTTTATTATTTTATATTATTTTAATACATTATGTTT
64 TTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTACTACATTATGTTT
*
41322919 GAAATGTATACATTTAGTGTGTGTTTTAAAT
129 GAAATGTATACATTTAGTGTGTTTTTTAAAT
* *
41322950 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTCTTCTTTCCCGAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
* * * *
41323015 ACTTT-AAAAAAAATATTATTTTCGTATTTTATTATTTTATATTATTTTATTACATTATTTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
*
41323079 AATGTATACATATAGTGTGTTTTTTAAAT
131 AATGTATACATTTAGTGTGTTTTTTAAAT
41323108 AAATTTAGTAAAAAAACCCTTATTTCT-GCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTA
1 AAATTTAGT-AAAAAACCCTTATTT-TGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTA
* *
41323172 TTACTTTAAAAAAATATACTATTTTTGTATTTTATTATTTTATATTATTTTACTACATTATGTTT
64 TTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTACTACATTATGTTT
*
41323237 GAAATGTATACATATAGTGTGTTTTTTAAAT
129 GAAATGTATACATTTAGTGTGTTTTTTAAAT
*
41323268 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
*
41323333 ACTTTCAAAAAATATACTATTTTTGTATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
41323398 AATGTATACATTTAGTGTGTTTTTTAAAT
131 AATGTATACATTTAGTGTGTTTTTTAAAT
* * *
41323427 AAATTTAGTAAAAAAACCCTTATTTTGGCCATTTTTTCGTATTTTTC-TTTTTCCCGGATTTTAT
1 AAATTTAGT-AAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTAT
* *
41323491 TACTTTCAAAAAATTTTCTATTTTTC-TATTTTATTATTTTATATTATTTTACTACATTATGTTT
65 TACTTTCAAAAAATATACTA-TTTTCGTATTTTATTATTTTATATTATTTTACTACATTATGTTT
41323555 GAAATGTATACATTTAGTGTGTTTTTTAAAT
129 GAAATGTATACATTTAGTGTGTTTTTTAAAT
* * * *
41323586 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTCTTCGTATTTTTATTTTTTCTCGGATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
*
41323651 ACTTTCAAAAAATATACTATTTTCATATTTTATT
66 ACTTTCAAAAAATATACTATTTTCGTATTTTATT
41323685 TCTTTTCGTA
Statistics
Matches: 992, Mismatches: 40, Indels: 30
0.93 0.04 0.03
Matches are distributed among these distances:
154 28 0.03
155 11 0.01
156 106 0.11
157 225 0.23
158 124 0.12
159 368 0.37
160 130 0.13
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.53
Consensus pattern (159 bp):
AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
ACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
AATGTATACATTTAGTGTGTTTTTTAAAT
Found at i:41323683 original size:51 final size:48
Alignment explanation
Indices: 41323627--41323736 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 48
41323617 TTCTTCGTAT
41323627 TTTTATTTTTTCTCGGATTTTATTACTTTCAAAAAATATACTATTTTCA-TA
1 TTTTATTTTTT-TCGGATTTTATT-CTTTC-AAAAATATA-TATTTTCAGTA
* * * *
41323678 TTTTATTTCTTTTCGTATTTTATTTTTTCATAAATATATTTTTTCAGTA
1 TTTTATTT-TTTTCGGATTTTATTCTTTCAAAAATATATATTTTCAGTA
41323727 TTTTATTTTT
1 TTTTATTTTT
41323737 AATGCTATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
48 9 0.17
49 18 0.34
50 4 0.08
51 19 0.36
52 3 0.06
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.63
Consensus pattern (48 bp):
TTTTATTTTTTTCGGATTTTATTCTTTCAAAAATATATATTTTCAGTA
Found at i:41323733 original size:16 final size:15
Alignment explanation
Indices: 41323670--41323736 Score: 71
Period size: 16 Copynumber: 4.2 Consensus size: 15
41323660 AAATATACTA
41323670 TTTTCATATTTTATTT
1 TTTTCATATTTTA-TT
*
41323686 CTTTTCGTATTTTATT
1 -TTTTCATATTTTATT
* *
41323702 TTTTCATAAATATATT
1 TTTTCAT-ATTTTATT
41323718 TTTTCAGTATTTTATT
1 TTTTCA-TATTTTATT
41323734 TTT
1 TTT
41323737 AATGCTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
15 6 0.14
16 23 0.55
17 13 0.31
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTCATATTTTATT
Found at i:41323736 original size:17 final size:16
Alignment explanation
Indices: 41323670--41323736 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 16
41323660 AAATATACTA
41323670 TTTTCATATTTTATTT
1 TTTTCATATTTTATTT
*
41323686 CTTTTCGTATTTTA-TT
1 -TTTTCATATTTTATTT
**
41323702 TTTTCATA-AATATATT
1 TTTTCATATTTTAT-TT
41323718 TTTTCAGTATTTTATTT
1 TTTTCA-TATTTTATTT
41323735 TT
1 TT
41323737 AATGCTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
14 2 0.05
15 7 0.17
16 10 0.25
17 18 0.45
18 3 0.08
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTCATATTTTATTT
Found at i:41323944 original size:18 final size:19
Alignment explanation
Indices: 41323918--41323954 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
41323908 TTTTTTACAC
*
41323918 AAATTATACAAA-AAATTA
1 AAATAATACAAATAAATTA
41323936 AAATAATACAAATAAATTA
1 AAATAATACAAATAAATTA
41323955 CCTTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (19 bp):
AAATAATACAAATAAATTA
Found at i:41324087 original size:13 final size:13
Alignment explanation
Indices: 41324071--41324099 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
41324061 TTTATTTTTT
41324071 TTCTTTCTTCTCC
1 TTCTTTCTTCTCC
41324084 TTCTTTCTTCTCC
1 TTCTTTCTTCTCC
41324097 TTC
1 TTC
41324100 AGCCGAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTTTCTTCTCC
Found at i:41324170 original size:27 final size:27
Alignment explanation
Indices: 41324132--41324203 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
41324122 AATATAAGGG
* *
41324132 TTGGTGCCGCCTGTGGCAGTGGCACCT
1 TTGGTGCCGCCTGTGGCACTGGCACCA
* *
41324159 TTGGTGCCGCCTCTGCCACTGGCACCA
1 TTGGTGCCGCCTGTGGCACTGGCACCA
*
41324186 CTGGTGCCGCCTGTGGCA
1 TTGGTGCCGCCTGTGGCA
41324204 AGCCCTCCAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.08, C:0.35, G:0.33, T:0.24
Consensus pattern (27 bp):
TTGGTGCCGCCTGTGGCACTGGCACCA
Found at i:41325543 original size:69 final size:69
Alignment explanation
Indices: 41325418--41325548 Score: 163
Period size: 69 Copynumber: 1.9 Consensus size: 69
41325408 AAGAGTTTTA
* * * *
41325418 AGGTGAAAGACTACAGTTTGGCTATGGAAACCAATAGAGTCCGTCGAGACAATAAACATGAGGAT
1 AGGTGAAAGACTACAGCTCGGCTATGGAAACCAATAGAGTCCGCCAAGACAATAAACATGAGGAT
41325483 TACG
66 TACG
* * * * * * *
41325487 AGGTGTAAGACTATAGCTCGGCTATGGAAACTAATGGAGTCTGCCAATACATTAAACATGAG
1 AGGTGAAAGACTACAGCTCGGCTATGGAAACCAATAGAGTCCGCCAAGACAATAAACATGAG
41325549 ACCTGATGGG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 51 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (69 bp):
AGGTGAAAGACTACAGCTCGGCTATGGAAACCAATAGAGTCCGCCAAGACAATAAACATGAGGAT
TACG
Found at i:41327974 original size:25 final size:25
Alignment explanation
Indices: 41327919--41327976 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
41327909 TTTTACCAAT
*
41327919 GGTAAAA-TGTCAAAATGTTATTAG
1 GGTAAAATTATCAAAATGTTATTAG
*
41327943 GGATAAAATTATCAAAATTTTATTAG
1 GG-TAAAATTATCAAAATGTTATTAG
41327969 GGTAAAAT
1 GGTAAAAT
41327977 AGGGATAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 11 0.37
26 17 0.57
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.34
Consensus pattern (25 bp):
GGTAAAATTATCAAAATGTTATTAG
Found at i:41329512 original size:24 final size:24
Alignment explanation
Indices: 41329484--41329532 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
41329474 GGAGACAATA
41329484 AATCGAGGGTTCTCGACGGAGAGG
1 AATCGAGGGTTCTCGACGGAGAGG
41329508 AATCGAGGGTTCTCGACGGAGAGG
1 AATCGAGGGTTCTCGACGGAGAGG
41329532 A
1 A
41329533 CATCATGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.41, T:0.16
Consensus pattern (24 bp):
AATCGAGGGTTCTCGACGGAGAGG
Found at i:41331458 original size:21 final size:22
Alignment explanation
Indices: 41331425--41331465 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
41331415 AGAATTAACA
**
41331425 GTTCATCTGCAACG-ACTAGTG
1 GTTCATCCACAACGTACTAGTG
41331446 GTTCATCCACAACGTACTAG
1 GTTCATCCACAACGTACTAG
41331466 CAGCTTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (22 bp):
GTTCATCCACAACGTACTAGTG
Found at i:41331651 original size:106 final size:108
Alignment explanation
Indices: 41331423--41331675 Score: 339
Period size: 106 Copynumber: 2.3 Consensus size: 108
41331413 GAAGAATTAA
* * *
41331423 CAGTTCATCTGCAACGACTAGTGGTTCATCCACAACGTACTAGCAGCTTGTTTGCAAACTTCTTT
1 CAGTTCATCTGCAACGACTAATGGTTTATCCACAACGTACTAGCAGCTTGTCTGCAAA--TC-TT
* *
41331488 TTTTATCTAAAAATTTTGGTGGTTCATCCACAATTTTTATTACTAG
63 TTTTATCTAAAAATTCTAGTGGTTCATCCACAATTTTTATTACTAG
* * *
41331534 CAGTTCATCTGCAACGACTAATGGTTTATCCACAACGTATTGGCAGCTTGTCTGTAAA-C-TTTT
1 CAGTTCATCTGCAACGACTAATGGTTTATCCACAACGTACTAGCAGCTTGTCTGCAAATCTTTTT
* * *
41331597 TATTTGAAAATTCTAGTGGTTCATCCACAATTTTTATTACTGG
66 TATCTAAAAATTCTAGTGGTTCATCCACAATTTTTATTACTAG
** *
41331640 CAGTTCATCTGCAATTACTAATGGTTTATCTACAAC
1 CAGTTCATCTGCAACGACTAATGGTTTATCCACAAC
41331676 ACAGTGTGTA
Statistics
Matches: 128, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
106 75 0.59
108 1 0.01
111 52 0.41
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (108 bp):
CAGTTCATCTGCAACGACTAATGGTTTATCCACAACGTACTAGCAGCTTGTCTGCAAATCTTTTT
TATCTAAAAATTCTAGTGGTTCATCCACAATTTTTATTACTAG
Found at i:41353909 original size:20 final size:20
Alignment explanation
Indices: 41353884--41353933 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
41353874 AAATTACTTG
*
41353884 TTTTTTCAAAATATAATTAT
1 TTTTTTCAAAAAATAATTAT
* *
41353904 TTTTTTAAAAAAATTATTAT
1 TTTTTTCAAAAAATAATTAT
41353924 TTTGTTTCAA
1 TTT-TTTCAA
41353934 TTTAATTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTTCAAAAAATAATTAT
Found at i:41353918 original size:17 final size:19
Alignment explanation
Indices: 41353884--41353926 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
41353874 AAATTACTTG
41353884 TTTTTTCAAAATATAATTA
1 TTTTTTCAAAATATAATTA
*
41353903 TTTTTTTAAAA-A-AATTA
1 TTTTTTCAAAATATAATTA
41353920 TTATTTT
1 TT-TTTT
41353927 GTTTCAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 5 0.23
19 10 0.45
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTTCAAAATATAATTA
Found at i:41363871 original size:34 final size:34
Alignment explanation
Indices: 41363819--41363928 Score: 118
Period size: 34 Copynumber: 3.2 Consensus size: 34
41363809 TTAATACTCA
*
41363819 ATAAGCATGACTT-TTGCTAACGTATTGATATGTT
1 ATAAGCAT-ACTTACTGCTAACGTATTGATATGTT
* * * *
41363853 ATAAGCATA-TCTGCTGCTATCGTATTGATCTATT
1 ATAAGCATACT-TACTGCTAACGTATTGATATGTT
*
41363887 ATAAGCATACTTATTGCT-ACTGTATTGATATGTT
1 ATAAGCATACTTACTGCTAAC-GTATTGATATGTT
41363921 ATAAGCAT
1 ATAAGCAT
41363929 GCCATATTGC
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
32 1 0.02
33 3 0.05
34 58 0.92
35 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (34 bp):
ATAAGCATACTTACTGCTAACGTATTGATATGTT
Found at i:41364055 original size:45 final size:44
Alignment explanation
Indices: 41364005--41364157 Score: 173
Period size: 45 Copynumber: 3.4 Consensus size: 44
41363995 TGTTTACATC
* *
41364005 GATTAGTGGTTTATCCACAACATATTAGCATCTTTTATCTGTATT
1 GATTAGTGGTTTATCCA-AACATATTAGCATCTTTTATCTGCACT
* * * *
41364050 GATTAGTAGTTTATCCAAACCGTATTAGCAACTTTTATCTGCCCT
1 GATTAGTGGTTTATCCAAA-CATATTAGCATCTTTTATCTGCACT
* *
41364095 GATTAGTGGTTTATATCCATATCATATTAGCAGT-TTTTATCTACACT
1 GATTAGTGG-TT-TATCCA-AACATATTAGCA-TCTTTTATCTGCACT
41364142 GATTAGTGGTTTATCC
1 GATTAGTGGTTTATCC
41364158 CCACCGTATT
Statistics
Matches: 91, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
44 2 0.02
45 49 0.54
46 4 0.04
47 35 0.38
48 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (44 bp):
GATTAGTGGTTTATCCAAACATATTAGCATCTTTTATCTGCACT
Found at i:41364153 original size:23 final size:23
Alignment explanation
Indices: 41364082--41364153 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
41364072 TATTAGCAAC
* *
41364082 TTTTATCTGCCCTGATTAGTGGT
1 TTTTATCTACACTGATTAGTGGT
* **
41364105 TTATATCCATATCA-T-ATTAGCAGT
1 TTTTAT-C-TA-CACTGATTAGTGGT
41364129 TTTTATCTACACTGATTAGTGGT
1 TTTTATCTACACTGATTAGTGGT
41364152 TT
1 TT
41364154 ATCCCCACCG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
21 2 0.06
22 3 0.08
23 15 0.42
24 13 0.36
25 2 0.06
26 1 0.03
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.47
Consensus pattern (23 bp):
TTTTATCTACACTGATTAGTGGT
Found at i:41366945 original size:25 final size:21
Alignment explanation
Indices: 41366920--41366962 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
41366910 TTTGAGGAAT
41366920 AAATAAATTGGAAATTAACTA
1 AAATAAATTGGAAATTAACTA
41366941 AAATAAATTGGAAATTAACTA
1 AAATAAATTGGAAATTAACTA
41366962 A
1 A
41366963 GTTTTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (21 bp):
AAATAAATTGGAAATTAACTA
Found at i:41370269 original size:40 final size:40
Alignment explanation
Indices: 41370171--41370473 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
41370161 TCCTCGTTCA
* * * * *
41370171 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
41370210 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
41370250 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41370290 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41370330 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
41370370 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
41370410 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
41370450 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
41370474 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 39 0.16
40 193 0.80
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:41384757 original size:19 final size:19
Alignment explanation
Indices: 41384733--41384786 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
41384723 AATTTTTGAG
41384733 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
41384752 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
41384771 GATATTCAATCTTAGA
1 GATATGCAATCTTAGA
41384787 ATATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:41385404 original size:25 final size:25
Alignment explanation
Indices: 41385353--41385404 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
41385343 AATTTTGTTA
**
41385353 ATGTAATTATTATTATTATTTTCAT
1 ATGTAATTATTATTATTATTAGCAT
41385378 ATGTAATTATTATTATT-TTAGCTAT
1 ATGTAATTATTATTATTATTAGC-AT
41385403 AT
1 AT
41385405 ATATATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 21 0.88
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.58
Consensus pattern (25 bp):
ATGTAATTATTATTATTATTAGCAT
Found at i:41386009 original size:19 final size:20
Alignment explanation
Indices: 41385970--41386009 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
41385960 TTCTAGGCCT
* *
41385970 TTGTAATATTTATTATTGCA
1 TTGTAATATTTAATATAGCA
41385990 TTGT-ATATTTAATATAGCA
1 TTGTAATATTTAATATAGCA
41386009 T
1 T
41386010 CACATCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (20 bp):
TTGTAATATTTAATATAGCA
Found at i:41386371 original size:98 final size:98
Alignment explanation
Indices: 41386250--41386444 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
41386240 TTAAAAACAA
* * *
41386250 TAAAGGAAATATTCTGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
41386315 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
41386348 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
41386413 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
41386445 ATTTTATTGT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:41390164 original size:20 final size:20
Alignment explanation
Indices: 41390141--41390180 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41390131 AAAAAAGAGG
41390141 AAAAAGAAAAGGAAAAAGGA
1 AAAAAGAAAAGGAAAAAGGA
* *
41390161 AAAAAGAAAATGTAAAAGGA
1 AAAAAGAAAAGGAAAAAGGA
41390181 GAGGCCAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (20 bp):
AAAAAGAAAAGGAAAAAGGA
Found at i:41391691 original size:132 final size:132
Alignment explanation
Indices: 41391379--41391896 Score: 930
Period size: 132 Copynumber: 3.9 Consensus size: 132
41391369 AACAGATCAG
* * *
41391379 TGAAAGTTGTAGATCTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGACGGCGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
*
41391444 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAG-CTTGTCTCCCTGAGCAGCAGTGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
41391508 GT
131 GT
* *
41391510 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGCGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
* *
41391575 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAACGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
41391640 GT
131 GT
*
41391642 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
* *
41391707 TTCCAAGATAATGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGAAG
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
41391772 GT
131 GT
41391774 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
1 TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
41391839 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGC
66 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGC
41391897 TTCTGAAGAT
Statistics
Matches: 372, Mismatches: 14, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
131 98 0.26
132 274 0.74
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
TGAAAATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAG
GT
Found at i:41391702 original size:44 final size:44
Alignment explanation
Indices: 41391391--41391838 Score: 151
Period size: 44 Copynumber: 10.2 Consensus size: 44
41391381 AAAGTTGTAG
* * * * *
41391391 ATCTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * * *
41391435 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCAA
* * * * * * * ** * *
41391478 AGCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAAATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * *
41391522 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACAGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * * *
41391566 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCAA
** * * * * ** * * * ** * *
41391610 GCCTTGTCTCCCTGAGTAGCAACGGAGAAGGTTGAAAATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* *
41391654 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * * * *
41391698 ATCTTATCTTTCC-AAG-A-TAATGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACAGCAA
** * * * * * * * * ** * *
41391742 GCCTTGTCTCCCTGAGTAGCAGCGGAGAAGGTTGAAAATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
* * *
41391786 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
41391830 ATCTTATCT
1 ATCTTATCT
41391839 TTCCAAGATA
Statistics
Matches: 267, Mismatches: 118, Indels: 38
0.63 0.28 0.09
Matches are distributed among these distances:
42 14 0.05
43 33 0.12
44 200 0.75
45 18 0.07
46 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACAGCAA
Found at i:41392073 original size:19 final size:19
Alignment explanation
Indices: 41392049--41392180 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
41392039 AATTTTTGAG
41392049 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
41392068 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
41392087 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
41392106 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
41392127 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
41392146 TATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
41392165 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
41392181 ATATATGATT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 84 0.82
21 19 0.18
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:41392116 original size:59 final size:57
Alignment explanation
Indices: 41392049--41392187 Score: 210
Period size: 59 Copynumber: 2.4 Consensus size: 57
41392039 AATTTTTGAG
*
41392049 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
* * *
41392106 GATATATGCAATCTTAGATATGATATGCAATCTTAGATATTATATATAATCTTAGATAT
1 G--ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
41392165 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
41392188 ATTTTGTAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 16 0.21
59 53 0.70
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
Found at i:41393437 original size:98 final size:98
Alignment explanation
Indices: 41393268--41393462 Score: 363
Period size: 98 Copynumber: 2.0 Consensus size: 98
41393258 NNNAAAATAA
* *
41393268 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
41393333 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
41393366 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
41393431 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
41393463 ATTTTATTGT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:41413475 original size:8 final size:8
Alignment explanation
Indices: 41413457--41413500 Score: 79
Period size: 8 Copynumber: 5.4 Consensus size: 8
41413447 ATGAGATGCT
41413457 ATGGACTAA
1 ATGG-CTAA
41413466 ATGGCTAA
1 ATGGCTAA
41413474 ATGGCTAA
1 ATGGCTAA
41413482 ATGGCTAA
1 ATGGCTAA
41413490 ATGGCTAA
1 ATGGCTAA
41413498 ATG
1 ATG
41413501 AACTAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 31 0.89
9 4 0.11
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (8 bp):
ATGGCTAA
Found at i:41419984 original size:26 final size:26
Alignment explanation
Indices: 41419948--41419997 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
41419938 CTGATCAAAA
41419948 AGGGGTTGCTAAGTGCGGATTCCCTT
1 AGGGGTTGCTAAGTGCGGATTCCCTT
*
41419974 AGGGGTTGCTAAGTGCTGATTCCC
1 AGGGGTTGCTAAGTGCGGATTCCC
41419998 CGAATTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.20, G:0.34, T:0.30
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCGGATTCCCTT
Found at i:41419986 original size:67 final size:68
Alignment explanation
Indices: 41419907--41420038 Score: 187
Period size: 67 Copynumber: 2.0 Consensus size: 68
41419897 ATTGAATGTA
*
41419907 AGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGA-TCAAAAAGG-GGTTGCTAAGTGCGGATTC
1 AGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATTC-AAAAGGTGGTTGCGAAGTGCGGATTC
41419970 CCTT
65 CCTT
* * * * *
41419974 AGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCGAAGTGCTGATTCC
1 AGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATTCAAAAGGTGGTTGCGAAGTGCGGATTCC
41420039 ACCGTATCCT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 37 0.65
68 20 0.35
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (68 bp):
AGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATTCAAAAGGTGGTTGCGAAGTGCGGATTCC
CTT
Found at i:41420024 original size:42 final size:42
Alignment explanation
Indices: 41419977--41420122 Score: 170
Period size: 42 Copynumber: 3.5 Consensus size: 42
41419967 TTCCCTTAGG
* * *
41419977 GGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGGT
* * *
41420019 GGTTGCGAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTAT-AAAGGT
* * *
41420062 GGTTGCTAAGTGCTGATTCCCCGTATCACTGAATAT-AAGTT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGGT
*
41420103 GGTTGCTATGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
41420123 ACGGAGTAAC
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
40 3 0.03
41 19 0.21
42 31 0.35
43 31 0.35
44 5 0.06
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAAGGT
Found at i:41425963 original size:19 final size:20
Alignment explanation
Indices: 41425915--41425963 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
41425905 ATCTCTAATC
41425915 CTTATTCTCTCAAACTTATCA
1 CTTATTCTCTCAAACTTAT-A
*
41425936 CTT-TTCTCTCAAATTTAT-
1 CTTATTCTCTCAAACTTATA
41425954 CTTATTCTCT
1 CTTATTCTCT
41425964 TACACTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 6 0.23
20 14 0.54
21 3 0.12
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (20 bp):
CTTATTCTCTCAAACTTATA
Found at i:41427794 original size:42 final size:42
Alignment explanation
Indices: 41427568--41427795 Score: 156
Period size: 42 Copynumber: 5.4 Consensus size: 42
41427558 TTTAGTCGAC
* * * * * * * *
41427568 GATGCATTTATGTGCTAGTGTATTTTCTTTGGTTCATCTGAT
1 GATGCACTTACGTGCCAGTATATTTGCTTCGGCTCATCCGAT
* *
41427610 GATGCACTTACGTGCCAGTATATTTGCTTCGGCTCATCCAAA
1 GATGCACTTACGTGCCAGTATATTTGCTTCGGCTCATCCGAT
* * * * * *
41427652 GATGCATTTACATGTCATTATATTTGCTTCGGTTCATTCGAT
1 GATGCACTTACGTGCCAGTATATTTGCTTCGGCTCATCCGAT
* * * * *
41427694 GATGCACCTTATGTGCCATTATAATTGCTTTGGC-C-TGCCAAT
1 GATGCA-CTTACGTGCCAGTATATTTGCTTCGGCTCAT-CCGAT
* ** *
41427736 AATGCACTATGTGTGCCAGTATATTTCCTTCGGC-CTATCCGAT
1 GATGCACT-TACGTGCCAGTATATTTGCTTCGGCTC-ATCCGAT
* *
41427779 GATGCACTAAGGTGCCA
1 GATGCACTTACGTGCCA
41427796 AATTGATATG
Statistics
Matches: 143, Mismatches: 38, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
41 3 0.02
42 108 0.76
43 31 0.22
44 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (42 bp):
GATGCACTTACGTGCCAGTATATTTGCTTCGGCTCATCCGAT
Found at i:41429290 original size:21 final size:20
Alignment explanation
Indices: 41429253--41429298 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
41429243 AAAATTTATT
41429253 AAAAATTAAAAAGATTACAA
1 AAAAATTAAAAAGATTACAA
* * *
41429273 AAAATATTTAAAATATTATAA
1 AAAA-ATTAAAAAGATTACAA
41429294 AAAAA
1 AAAAA
41429299 ATTCAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAATTAAAAAGATTACAA
Found at i:41435264 original size:44 final size:44
Alignment explanation
Indices: 41435198--41435302 Score: 167
Period size: 44 Copynumber: 2.4 Consensus size: 44
41435188 ACATCACTTG
*
41435198 TCACTTGTCACTGATCAGATAAGTGTA-CATAAAGCTACCACCTA
1 TCACTTGTCACTGATCAAATAAGTGTAGC-TAAAGCTACCACCTA
*
41435242 TCACTTGTCACTGATCAAATAAGTGTAGCTAAAGCTACCACTTA
1 TCACTTGTCACTGATCAAATAAGTGTAGCTAAAGCTACCACCTA
*
41435286 TCACTTGTTACTGATCA
1 TCACTTGTCACTGATCA
41435303 GAAGTACTCA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 56 0.98
45 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (44 bp):
TCACTTGTCACTGATCAAATAAGTGTAGCTAAAGCTACCACCTA
Found at i:41438528 original size:24 final size:27
Alignment explanation
Indices: 41438487--41438535 Score: 68
Period size: 24 Copynumber: 1.9 Consensus size: 27
41438477 ATACTGGGTT
41438487 TTTTCTCCTAGTTAAACTCT-ATTATC
1 TTTTCTCCTAGTTAAACTCTGATTATC
*
41438513 TTTT-TCC-AGTTGAACTCTGATTA
1 TTTTCTCCTAGTTAAACTCTGATTA
41438536 ATGTAGGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 7 0.33
26 4 0.19
ACGTcount: A:0.22, C:0.20, G:0.08, T:0.49
Consensus pattern (27 bp):
TTTTCTCCTAGTTAAACTCTGATTATC
Found at i:41443313 original size:92 final size:91
Alignment explanation
Indices: 41443172--41443346 Score: 244
Period size: 92 Copynumber: 1.9 Consensus size: 91
41443162 ATGTGCCCGG
* * * *
41443172 CCATGTGAGATATACGGGCGTATGAGCCACACGGTCTAGTTGAGGTAGGGTATGTAGGCCATACA
1 CCATGTGAGACACACAGGCGTATGAGCCACACGGTCTAGTTGAGGTAGGG-ATGTAGGCCACACA
** *
41443237 TTTTTTCCTGGTGGGCTGTATGCTCAA
65 TTTTGGCCTAGTGGGCTGTATGCTCAA
* *
41443264 CCATGTGAGACACACAGGCGTGTGAGCCACACGGTCTAGTT-ATGGTAGGGATGTGGGCCACACA
1 CCATGTGAGACACACAGGCGTATGAGCCACACGGTCTAGTTGA-GGTAGGGATGTAGGCCACACA
41443328 TTTTGGCCTAGTGGGCTGT
65 TTTTGGCCTAGTGGGCTGT
41443347 GTGGGTCACA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
91 29 0.40
92 44 0.60
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (91 bp):
CCATGTGAGACACACAGGCGTATGAGCCACACGGTCTAGTTGAGGTAGGGATGTAGGCCACACAT
TTTGGCCTAGTGGGCTGTATGCTCAA
Found at i:41449972 original size:25 final size:24
Alignment explanation
Indices: 41449926--41449974 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
41449916 GTCATTAGGG
* *
41449926 TTACCGATTCCAGCTCATATGAGC
1 TTACCGATACCAGCTCACATGAGC
*
41449950 TTACCGATACTCAGCTCGCATGAGC
1 TTACCGATAC-CAGCTCACATGAGC
41449975 ATACATGTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (24 bp):
TTACCGATACCAGCTCACATGAGC
Found at i:41453861 original size:15 final size:15
Alignment explanation
Indices: 41453843--41453872 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41453833 CTCTATTATA
41453843 ATAATAATTACTACT
1 ATAATAATTACTACT
*
41453858 ATAATAATTATTACT
1 ATAATAATTACTACT
41453873 CTTAAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATAATTACTACT
Found at i:41454422 original size:42 final size:41
Alignment explanation
Indices: 41454276--41454414 Score: 181
Period size: 42 Copynumber: 3.3 Consensus size: 41
41454266 ACAAAAACGC
* * *
41454276 CGCTAAAGAACATGTTCTTTAGCAGC-GTTTATTCTTAAGCG
1 CGCTAAAGAACATGGTCTTTAGCGGCATTTTATTC-TAAGCG
*
41454317 CTGCTAAAGAACATGGTCTTTAGCGGCATTTTCTTCTAAGCG
1 C-GCTAAAGAACATGGTCTTTAGCGGCATTTTATTCTAAGCG
*
41454359 CCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTCTAAGCG
1 -CGCTAAAGAACATGGTCTTTAGCGGCATTTTATTCTAAGCG
*
41454401 TCACTAAAGAACAT
1 -CGCTAAAGAACAT
41454415 TATCTTTAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
41 1 0.01
42 80 0.91
43 7 0.08
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (41 bp):
CGCTAAAGAACATGGTCTTTAGCGGCATTTTATTCTAAGCG
Found at i:41454781 original size:21 final size:21
Alignment explanation
Indices: 41454747--41454817 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
41454737 TTTTGTTCTG
*
41454747 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
41454768 CTCCGCTTCCCTCGCTGTAG-
1 CTCTGCTTCCCTCGCTGCAGC
*
41454788 CTGCTGCTTCCCTCGCTGCCGC
1 CT-CTGCTTCCCTCGCTGCAGC
41454810 CTCTGCTT
1 CTCTGCTT
41454818 TAAGTTGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 38 0.90
22 2 0.05
ACGTcount: A:0.03, C:0.45, G:0.20, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:41455569 original size:109 final size:111
Alignment explanation
Indices: 41455367--41455677 Score: 412
Period size: 113 Copynumber: 2.8 Consensus size: 111
41455357 CGCTTTTGCT
* * * * * * *
41455367 AAAGCGCCGC-AAAAAACTAAGCACAACGACGCCGTTTTCTAAGCTTCTGGGGGGTTTATCGGCG
1 AAAGCGCCGCAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTT-TCGGGGGTTTAGCGGCG
* * *
41455431 TTTTTAATAATGCACCGCTAATGCAGGG-TTTAGCGGC-ATTTTATG
65 TTTTTAATAAAGCGCCGCTAATGCTGGGTTTTAGCGGCGATTTTATG
* * *
41455476 GAAGCACCGCAAAAAAATTAAACCCAACGACACCGTTTTCTTTGCTTTCGGGGGTTTAGCGGCGT
1 AAAGCGCCGCAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCGGGGGTTTAGCGGCGT
* * *
41455541 TTTTAGTAAAGCGTCGCTAATGCTGGGTTTTTAGCGGCGCTTTTATG
66 TTTTAATAAAGCGCCGCTAATGCTGGG-TTTTAGCGGCGATTTTATG
* *
41455588 AAAGCGCCGCAAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCAGGGGTTTAGCAGCG
1 AAAGCGCCGC-AAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCGGGGGTTTAGCGGCG
41455653 TTTTTAATAAAGCGCCGCTAATGCT
65 TTTTTAATAAAGCGCCGCTAATGCT
41455678 CAGGGATTTA
Statistics
Matches: 174, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
109 46 0.26
110 30 0.17
111 9 0.05
112 15 0.09
113 74 0.43
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (111 bp):
AAAGCGCCGCAAAAAAATTAAACCCAACGACACCGTTTTCTTAGCTTTCGGGGGTTTAGCGGCGT
TTTTAATAAAGCGCCGCTAATGCTGGGTTTTAGCGGCGATTTTATG
Found at i:41456032 original size:35 final size:35
Alignment explanation
Indices: 41455987--41456075 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
41455977 AGGGTTTGGT
* * ***
41455987 TTTATAGTTTAGGGTTTAAGGGTTATGCTTTAAGG
1 TTTATGGTTTAGGGTTTAAGAGTTACAATTTAAGG
* *
41456022 TTTATGGTTTAAGATTTAAGAGTTACAATTTAAGG
1 TTTATGGTTTAGGGTTTAAGAGTTACAATTTAAGG
*
41456057 TTTATGGATTATGGGTTTA
1 TTTATGGTTTA-GGGTTTA
41456076 GTGATTATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
35 38 0.88
36 5 0.12
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.46
Consensus pattern (35 bp):
TTTATGGTTTAGGGTTTAAGAGTTACAATTTAAGG
Found at i:41456039 original size:14 final size:14
Alignment explanation
Indices: 41455993--41456039 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
41455983 TGGTTTTATA
*
41455993 GTTTAGGGTTTAAG
1 GTTTATGGTTTAAG
* *
41456007 GGTTATGCTTTAAG
1 GTTTATGGTTTAAG
41456021 GTTTATGGTTTAAG
1 GTTTATGGTTTAAG
*
41456035 ATTTA
1 GTTTA
41456040 AGAGTTACAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.23, C:0.02, G:0.28, T:0.47
Consensus pattern (14 bp):
GTTTATGGTTTAAG
Found at i:41465338 original size:21 final size:21
Alignment explanation
Indices: 41465308--41465376 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
41465298 CAACAACTTA
* *
41465308 AAGCAAAGGCAGCAACGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
* *
41465329 AAGTAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
*
41465350 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCAGCAGCGAGAG
41465371 AAGCAG
1 AAGCAG
41465377 CGGTAGAAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.39, C:0.19, G:0.39, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:41465875 original size:42 final size:42
Alignment explanation
Indices: 41465819--41466142 Score: 172
Period size: 42 Copynumber: 7.6 Consensus size: 42
41465809 AGCGTTGCAA
*
41465819 AAAGAATACTACTTTTAGCGGCGTTTTTAAAC-AAGCGCCGCT
1 AAAGAACA-TACTTTTAGCGGCGTTTTTAAACTAAGCGCCGCT
* * ***
41465861 ATAGAACAGTACTTTTAGCGGCATTTTTGTCCTAAGCGCCGCT
1 AAAGAACA-TACTTTTAGCGGCGTTTTTAAACTAAGCGCCGCT
** * *
41465904 AAAGAACATGA-TCTTTAGCGGCGTTTATT-TCCTTAGTGCCGCT
1 AAAGAACAT-ACT-TTTAGCGGCGTTT-TTAAACTAAGCGCCGCT
* *
41465947 AAAGAACATGA-TCTTTAGTGGCGTTTATT--TCTAAGCGCCGCT
1 AAAGAACAT-ACT-TTTAGCGGCGTTT-TTAAACTAAGCGCCGCT
* * * *
41465989 AAAGAACATGCTCTTTAGTGGCGTTTATT--TCTAAGCGTCGCT
1 AAAGAACATACT-TTTAGCGGCGTTT-TTAAACTAAGCGCCGCT
** * ** *
41466031 AAAGAACATGGTCTTTAGTGGCGTTTATT--TTTTAGCGCCGCT
1 AAAGAACATACT-TTTAGCGGCGTTT-TTAAACTAAGCGCCGCT
* *
41466073 AAAGAACATGA-TCTTTAGCGGTGTTTCTT--TCTAAGCGCCGCT
1 AAAGAACAT-ACT-TTTAGCGGCGTTT-TTAAACTAAGCGCCGCT
*
41466115 AAAGAACATGA-TCTTTAGTGGCGTTTTT
1 AAAGAACAT-ACT-TTTAGCGGCGTTTTT
41466143 TTCCTGTAAG
Statistics
Matches: 247, Mismatches: 29, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
41 2 0.01
42 173 0.70
43 70 0.28
44 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (42 bp):
AAAGAACATACTTTTAGCGGCGTTTTTAAACTAAGCGCCGCT
Found at i:41466071 original size:84 final size:84
Alignment explanation
Indices: 41465893--41466144 Score: 398
Period size: 84 Copynumber: 3.0 Consensus size: 84
41465883 ATTTTTGTCC
* *
41465893 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGTGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTT-CTAAGCGCCGCTAAAGAACATGA
*
41465958 TCTTTAGTGGCGTTTATTTC
65 TCTTTAGTGGCGTTTATTTT
* * * *
41465978 TAAGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTTATTTCTAAGCGTCGCTAAAGAACATGGT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCTAAGCGCCGCTAAAGAACATGAT
41466043 CTTTAGTGGCGTTTATTTT
66 CTTTAGTGGCGTTTATTTT
* * *
41466062 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTCTTTCTAAGCGCCGCTAAAGAACATGAT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCTAAGCGCCGCTAAAGAACATGAT
41466127 CTTTAGTGGCGTTT-TTTT
66 CTTTAGTGGCGTTTATTTT
41466145 CCTGTAAGCG
Statistics
Matches: 153, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
83 4 0.03
84 110 0.72
85 39 0.25
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCTAAGCGCCGCTAAAGAACATGAT
CTTTAGTGGCGTTTATTTT
Found at i:41466114 original size:126 final size:126
Alignment explanation
Indices: 41465851--41466143 Score: 419
Period size: 126 Copynumber: 2.3 Consensus size: 126
41465841 GTTTTTAAAC
* * * *
41465851 AAGCGCCGCTATAGAACAGTACT-TTTAGCGGCATTTTTGTCCTAAGCGCCGCTAAAGAACATGA
1 AAGCGCCGCTAAAGAACA-TGCTCTTTAGTGGCGTTTTT-T-CTAAGCGCCGCTAAAGAACATGA
* *
41465915 TCTTTAGCGGCGTTTATTTCCTTAGTGCCGCTAAAGAACATGATCTTTAGTGGCGTTTATTTCT
63 TCTTTAGCGGCGTTTATTTCCTTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCT
* *
41465979 AAGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTTATTTCTAAGCGTCGCTAAAGAACATGGTC
1 AAGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTT-TTTCTAAGCGCCGCTAAAGAACATGATC
* * * *
41466044 TTTAGTGGCGTTTATTT-TTTAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTCTTTCT
65 TTTAGCGGCGTTTATTTCCTTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCT
*
41466105 AAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTT
1 AAGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTTTTT
41466144 TCCTGTAAGC
Statistics
Matches: 150, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
125 3 0.02
126 74 0.49
127 42 0.28
128 29 0.19
129 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (126 bp):
AAGCGCCGCTAAAGAACATGCTCTTTAGTGGCGTTTTTTCTAAGCGCCGCTAAAGAACATGATCT
TTAGCGGCGTTTATTTCCTTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCT
Found at i:41469964 original size:8 final size:7
Alignment explanation
Indices: 41469939--41469969 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
41469929 TTTGGGATTT
41469939 AACCCTA
1 AACCCTA
41469946 AACCCTA
1 AACCCTA
41469953 AACCCTTA
1 AACCC-TA
41469961 AACCCTA
1 AACCCTA
41469968 AA
1 AA
41469970 ATCTTAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:41469964 original size:15 final size:14
Alignment explanation
Indices: 41469939--41469969 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
41469929 TTTGGGATTT
41469939 AACCCTAAACCCTA
1 AACCCTAAACCCTA
41469953 AACCCTTAAACCCTA
1 AACCC-TAAACCCTA
41469968 AA
1 AA
41469970 ATCTTAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (14 bp):
AACCCTAAACCCTA
Found at i:41470039 original size:21 final size:20
Alignment explanation
Indices: 41470000--41470039 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
41469990 TAAACCTTAA
*
41470000 ACCCTAAAACCAACAACCAG
1 ACCCCAAAACCAACAACCAG
*
41470020 ACCCCAAAATCCAACCACCA
1 ACCCCAAAA-CCAACAACCA
41470040 ATATACCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.45, G:0.03, T:0.05
Consensus pattern (20 bp):
ACCCCAAAACCAACAACCAG
Found at i:41470443 original size:22 final size:22
Alignment explanation
Indices: 41470418--41470467 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
41470408 TCTAAACCCC
* * *
41470418 AAACCTTAAACCCCAAACTCCT
1 AAACCTTAAACCCAAAACACCA
41470440 AAACCTTAAACCCAAAACACCA
1 AAACCTTAAACCCAAAACACCA
41470462 AAACCT
1 AAACCT
41470468 ACATCATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (22 bp):
AAACCTTAAACCCAAAACACCA
Found at i:41470444 original size:15 final size:14
Alignment explanation
Indices: 41470409--41470468 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
41470399 CTAAAGTAGT
41470409 CTAAACCCCAAACC
1 CTAAACCCCAAACC
*
41470423 TTAAACCCCAAACTC
1 CTAAACCCCAAAC-C
**
41470438 CTAAACCTTAAACC
1 CTAAACCCCAAACC
* * *
41470452 CAAAACACCAAAAC
1 CTAAACCCCAAACC
41470466 CTA
1 CTA
41470469 CATCATAAAC
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
14 24 0.69
15 11 0.31
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (14 bp):
CTAAACCCCAAACC
Found at i:41470718 original size:49 final size:47
Alignment explanation
Indices: 41470611--41470718 Score: 108
Period size: 49 Copynumber: 2.2 Consensus size: 47
41470601 ACTTTCAAAC
* * *
41470611 CCTAAACTAAAAACACTAAACCTACATCATAAACCCTAAACCTTAAA
1 CCTAAACCAAAAACACTAAACCTACATAATAAACCCTAAACCCTAAA
* * * * * *
41470658 CTGTAATCCAAAAATACTAAACATTATATAATGAACCCTAATACCCTAAA
1 C-CTAAACCAAAAACACTAAAC-CTACATAATAAACCCTAA-ACCCTAAA
41470708 CCTAAACCAAA
1 CCTAAACCAAA
41470719 TATGATAAAC
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
47 1 0.02
48 16 0.34
49 22 0.47
50 8 0.17
ACGTcount: A:0.50, C:0.27, G:0.02, T:0.21
Consensus pattern (47 bp):
CCTAAACCAAAAACACTAAACCTACATAATAAACCCTAAACCCTAAA
Found at i:41471032 original size:114 final size:113
Alignment explanation
Indices: 41470797--41471547 Score: 726
Period size: 114 Copynumber: 6.6 Consensus size: 113
41470787 ATATTTTGCG
* * * * * * * *
41470797 GCGCTCACTAATTTTAGTATAAATCAAGACCAAAACGTTGCGTTTTTGTTATGGTATTTTGCGGA
1 GCGC-CACTAATTCTAG-ATACATCAAGACCAAAATGCTGCGTTTTGGTTAAGATATTTTGCGGC
* * * * *
41470862 GCTAGCCACAAATCGCCGCTAATACTATGCTTTAGCGGCGTTTCACCGTAA
64 GCT-TCCACAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTACCATAA
* * * * *
41470913 TCGCCACTAAATCAAGATACATCAAGACCAAAATGTTGCGTTTTGGTTTAGATATTTTGCGGCGC
1 GCGCCACTAATTCTAGATACATCAAGACCAAAATGCTGCGTTTTGGTTAAGATATTTTGCGGCGC
* * * ***
41470978 TTCCAAAAAGCACCG-TAAATACTATCCGTTAGCGGCGTTTTTGTAATAA
66 TTCCACAAAGCGCCGCT-AATACTATCCTTTAGCGGCG-TTTTACCATAA
* * * *
41471027 GCGCCACTAATTCTTACATACCTCAAGACCAAACT-CTACGTTTTGGTTAAGATATTTTGCGGCG
1 GCGCCACTAATTC-TAGATACATCAAGACCAAAATGCTGCGTTTTGGTTAAGATATTTTGCGGCG
* * * *
41471091 CTTTGCTA-AAAGCGCCGCTAATACTATGCTTTAACGGCG-TTT-CCCTAA
65 C-TT-CCACAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTACCATAA
* *
41471139 GCGCCACTAATTCTAGTATACATCAAGACCAAAACT-ATACGTTTTGGTTAAGATATTTTGCGGC
1 GCGCCACTAATTCTAG-ATACATCAAGACCAAAA-TGCTGCGTTTTGGTTAAGATATTTTGCGGC
* * * * * * *
41471203 GCTTCTCACAAAGCGTCGTTATTAATATTCTTTCGCGGCGGTTTACCATAA
64 GCTTC-CACAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTACCATAA
* * * *
41471254 GCGCCACTAATTTTATATACATCTAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGC
1 GCGCCACTAATTCTAGATACATCAAGACCAAAATGCTGCGTTTTGGTTAAGATATTTTGCGGCGC
* * * * * * *
41471319 TAGCCACGAATCGCCGCTAATACTATACTTTAGCGGCGTTTCACCGTAG
66 T-TCCACAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTACCATAA
* * * * *
41471368 GCGCCACTAATT-TTGTATACATCAAGACCAAAACGATGTGTTTTGGTTCAGATATTTTGCGGCG
1 GCGCCACTAATTCTAG-ATACATCAAGACCAAAATGCTGCGTTTTGGTTAAGATATTTTGCGGCG
* * * * * *
41471432 CTTCCATAAAGCACCGCTATTACTGTCCTTTTGCGGCGTTTTCCCATAA
65 CTTCCACAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTACCATAA
* * *
41471481 ACGCCACTAATTCTAAGATACCTCAAGACCAAACT-CTGCGTTTTGGTTAAGATATTTTGCGGCG
1 GCGCCACTAATTCT-AGATACATCAAGACCAAAATGCTGCGTTTTGGTTAAGATATTTTGCGGCG
41471545 CTT
65 CTT
41471548 AACGGTGTTT
Statistics
Matches: 520, Mismatches: 98, Indels: 37
0.79 0.15 0.06
Matches are distributed among these distances:
111 3 0.01
112 35 0.07
113 160 0.31
114 242 0.47
115 74 0.14
116 6 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (113 bp):
GCGCCACTAATTCTAGATACATCAAGACCAAAATGCTGCGTTTTGGTTAAGATATTTTGCGGCGC
TTCCACAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTACCATAA
Found at i:41471201 original size:227 final size:228
Alignment explanation
Indices: 41470820--41471548 Score: 893
Period size: 227 Copynumber: 3.2 Consensus size: 228
41470810 TTAGTATAAA
* * * * *
41470820 TCAAGACCAAAACGT-TGCGTTTTTGTTATGGTATTTTGCGGAGC-TAGCCACAAATCGCCGCTA
1 TCAAGACC-AAAC-TCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTAGCCACAAAGCGCCGCTA
* * *
41470883 ATACTATGCTTTAGCGGCGTTTCACCGTAATCGCCACTAAATCAAG-ATACATCAAGACCAAAA-
64 ATACTATGCTTTAGCGGCGTTTCACCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAAC
* * * *
41470946 TGTTGCGTTTTGGTTTAGATATTTTGCGGCGCTTCCAAAAAGCACCGTAAATACTATCCGTTAGC
129 T-ATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCAAAAAGCACCGT-ATTACTATCCTTTAGC
***
41471011 GGCGTTTTTGTAATAAGCGCCACTAATTCTTACATACC
192 GGCG-TTTTACCATAAGCGCCACTAATTCTTACATACC
* * *
41471049 TCAAGACCAAACTCTACGTTTTGGTTAAGATATTTTGCGGCGCTTTGCTA-AAAGCGCCGCTAAT
1 TCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTAGCCACAAAGCGCCGCTAAT
*
41471113 ACTATGCTTTAACGGCGTTTC-CC-TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTA
66 ACTATGCTTTAGCGGCGTTTCACCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTA
* * ** * * *
41471176 TACGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGTCGTTATTAATATTCTTTCGCGG
131 TGCGTTTTGGTTAAGATATTTTGCGGCGCTTC-CAAAAAGCACCG-TATTACTATCCTTTAGCGG
* * *
41471241 CGGTTTACCATAAGCGCCACTAATT-TTATATACA
194 CGTTTTACCATAAGCGCCACTAATTCTTACATACC
* * * *
41471275 TCTAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGC-TAGCCACGAATCGCCGCTAA
1 TCAAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTAGCCACAAAGCGCCGCTAA
* * * *
41471339 TACTATACTTTAGCGGCGTTTCACCGTAGGCGCCACTAATT-TTGTATACATCAAGACCAAAACG
65 TACTATGCTTTAGCGGCGTTTCACCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACT
* * * * *
41471403 ATGTGTTTTGGTTCAGATATTTTGCGGCGCTTCCATAAAGCACCGCTATTACTGTCCTTTTGCGG
130 ATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCAAAAAGCACCG-TATTACTATCCTTTAGCGG
* * * *
41471468 CGTTTTCCCATAAACGCCACTAATTCTAAGATACC
194 CGTTTTACCATAAGCGCCACTAATTCTTACATACC
41471503 TCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTA
1 TCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTA
41471549 ACGGTGTTTT
Statistics
Matches: 428, Mismatches: 60, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
226 34 0.08
227 213 0.50
228 154 0.36
229 27 0.06
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (228 bp):
TCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTAGCCACAAAGCGCCGCTAAT
ACTATGCTTTAGCGGCGTTTCACCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTA
TGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCAAAAAGCACCGTATTACTATCCTTTAGCGGCG
TTTTACCATAAGCGCCACTAATTCTTACATACC
Found at i:41471425 original size:341 final size:340
Alignment explanation
Indices: 41470797--41471547 Score: 827
Period size: 341 Copynumber: 2.2 Consensus size: 340
41470787 ATATTTTGCG
* * * * * *
41470797 GCGCTCACTAATTTTAGTATAAATCAAGACCAAAACGTTGCGTTTTTGTTATGGTATTTTGCGGA
1 GCGC-CACTAATTCTAGTATACATCAAGACCAAAAC-TTGCGTTTTGGTTAAGATATTTTGCGGC
* * * * *
41470862 GCTAGCCACAAATCGCCGCTAATACTATGCTTTAGCGGCGTTTCACCGTAATCGCCACTAAATCA
64 GCT-TCCACAAAGCGCCGCTAATAATATGCTTTAGCGGCGTTTCACCATAAGCGCCACTAAATCA
* * * *
41470927 AGATACATCAAGACCAAAATGTTGCGTTTTGGTTTAGATATTTTGCGGCGCTTCCAAAAAGCACC
128 AGATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTGCCAAAAAGCACC
* *** *
41470992 GTAAATACTATCCGTTAGCGGCGTTTTTGTAATAAGCGCCACTAATTCTTACATACCTCAAGACC
193 GTAAATACTATACGTTAGCGGCGTTTTCACAATAAGCGCCACTAATTCTTACATACATCAAGACC
** * * *
41471057 AAACTCTACGTTTTGGTTAAGATATTTTGCGGCGCTTTGC-TAAAAGCGCCGCTAATACTATGCT
258 AAACGATACGTTTTGGTTAAGATATTTTGCGGCGC-TTCCAT-AAAGCACCGCTAATACTATCCT
41471121 TTAACGGCG-TTTCCC-TAA
321 TTAACGGCGTTTTCCCATAA
*
41471139 GCGCCACTAATTCTAGTATACATCAAGACCAAAACTATACGTTTTGGTTAAGATATTTTGCGGCG
1 GCGCCACTAATTCTAGTATACATCAAGACCAAAACT-TGCGTTTTGGTTAAGATATTTTGCGGCG
* * * * * * **
41471204 CTTCTCACAAAGCGTCGTTATTAATATTCTTTCGCGGCGGTTT-ACCATAAGCGCCACTAATTTT
65 CTTC-CACAAAGCGCCGCTAATAATATGCTTTAGCGGC-GTTTCACCATAAGCGCCACTAAATCA
* * ** * *
41471268 ATATACATCTAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTAGCCACGAATCGC
128 AGATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCT-GCCAAAAAGCAC
* ** * **
41471333 CGCT-AATACTATACTTTAGCGGCG-TTTCACCGTAGGCGCCACTAATT-TTGTATACATCAAGA
192 CG-TAAATACTATACGTTAGCGGCGTTTTCACAATAAGCGCCACTAATTCTTACATACATCAAGA
** * * *
41471395 CCAAAACGATGTGTTTTGGTTCAGATATTTTGCGGCGCTTCCATAAAGCACCGCTATTACTGTCC
256 CC-AAACGATACGTTTTGGTTAAGATATTTTGCGGCGCTTCCATAAAGCACCGCTAATACTATCC
**
41471460 TTTTGCGGCGTTTTCCCATAA
320 TTTAACGGCGTTTTCCCATAA
* *
41471481 ACGCCACTAATTCTAAG-ATACCTCAAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGC
1 GCGCCACTAATTCT-AGTATACATCAAGACCAAAACT-TGCGTTTTGGTTAAGATATTTTGCGGC
41471544 GCTT
64 GCTT
41471548 AACGGTGTTT
Statistics
Matches: 342, Mismatches: 57, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
340 44 0.13
341 232 0.68
342 63 0.18
343 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (340 bp):
GCGCCACTAATTCTAGTATACATCAAGACCAAAACTTGCGTTTTGGTTAAGATATTTTGCGGCGC
TTCCACAAAGCGCCGCTAATAATATGCTTTAGCGGCGTTTCACCATAAGCGCCACTAAATCAAGA
TACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTGCCAAAAAGCACCGTA
AATACTATACGTTAGCGGCGTTTTCACAATAAGCGCCACTAATTCTTACATACATCAAGACCAAA
CGATACGTTTTGGTTAAGATATTTTGCGGCGCTTCCATAAAGCACCGCTAATACTATCCTTTAAC
GGCGTTTTCCCATAA
Found at i:41471759 original size:112 final size:112
Alignment explanation
Indices: 41471554--41471764 Score: 248
Period size: 112 Copynumber: 1.9 Consensus size: 112
41471544 GCTTAACGGT
* * *
41471554 GTTTTCCCGTAAACGCCACTACTTTTAGGATACATCAAGACCGAAACGAAGCGTTTTGGTTAAGA
1 GTTTTCCCATAAACGCCACTAATTCTAGGATACATCAAGACCGAAACGAAGCGTTTTGGTTAAGA
* * * * * * *
41471619 TATTTTGCAGCGCTTTTTGGAAGCCGCCGGTAATACGCTGTAGCGGC
66 GATTTCGCAGCACATTGTGGAAGACGCCGCTAATACGCTGTAGCGGC
* * *
41471666 GTTTTCCCATAATCGCCACTAATTCTAGTATACATCAAGA-CGAAAAC-ACTGCGTTTTGGTTAA
1 GTTTTCCCATAAACGCCACTAATTCTAGGATACATCAAGACCG-AAACGA-AGCGTTTTGGTTAA
*
41471729 GAGATTTCGCGGCACATTGTGGTAA-ACGCCGCTAAT
64 GAGATTTCGCAGCACATTGTGG-AAGACGCCGCTAAT
41471765 GATGTTCTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
111 3 0.04
112 77 0.94
113 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (112 bp):
GTTTTCCCATAAACGCCACTAATTCTAGGATACATCAAGACCGAAACGAAGCGTTTTGGTTAAGA
GATTTCGCAGCACATTGTGGAAGACGCCGCTAATACGCTGTAGCGGC
Found at i:41476942 original size:16 final size:16
Alignment explanation
Indices: 41476917--41476959 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
41476907 ATAATTTACC
* * *
41476917 TTAATTATTTTTATTT
1 TTAATAATTTTAAATT
41476933 TTAATAATTTTAAATT
1 TTAATAATTTTAAATT
41476949 TTAATTAATTT
1 TTAA-TAATTT
41476960 ATGGATGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATAATTTTAAATT
Found at i:41479435 original size:18 final size:17
Alignment explanation
Indices: 41479390--41479437 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
41479380 GAAAAGGCAC
*
41479390 GAAAAAGAAGAAAGAAG
1 GAAAAAGAAAAAAGAAG
**
41479407 GAAAATTAAAACAAGAAG
1 GAAAAAGAAAA-AAGAAG
41479425 GAAAAAGAAAAAA
1 GAAAAAGAAAAAA
41479438 ACAGACATGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (17 bp):
GAAAAAGAAAAAAGAAG
Found at i:41481353 original size:21 final size:21
Alignment explanation
Indices: 41481327--41481366 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
41481317 ATCCGATAAG
41481327 TAAATTCATAT-AATTAATATT
1 TAAATT-ATATGAATTAATATT
*
41481348 TAAATTATATGAGTTAATA
1 TAAATTATATGAATTAATA
41481367 ATAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (21 bp):
TAAATTATATGAATTAATATT
Found at i:41482909 original size:40 final size:39
Alignment explanation
Indices: 41482864--41483052 Score: 157
Period size: 40 Copynumber: 4.8 Consensus size: 39
41482854 TTATATTATA
* *
41482864 TACTGAAATGTATGCACTTTCGATCCATGCATATTGAATC
1 TACTGAAATGTATGCACTTTCGAGCCATAC-TATTGAATC
* * *
41482904 TACTGAAATGTATGCGCTTTCGAGCTATATCTACTGAATC
1 TACTGAAATGTATGCACTTTCGAGCCATA-CTATTGAATC
* *
41482944 TACCGAAATGTATGCTCTTTCGAGCCATACCTATTGAATC
1 TACTGAAATGTATGCACTTTCGAGCCATA-CTATTGAATC
** * * * * * *
41482984 TACCAAAAAGCATACGCTTTCGAGCCATACCTACTG-ATT
1 TACTGAAATGTATGCACTTTCGAGCCATA-CTATTGAATC
* * *
41483023 TCCCTGAAA-GTATGCCCTATCGAGCCATAC
1 T-ACTGAAATGTATGCACTTTCGAGCCATAC
41483053 CTACTGATTA
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
38 1 0.01
39 19 0.15
40 102 0.83
41 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (39 bp):
TACTGAAATGTATGCACTTTCGAGCCATACTATTGAATC
Found at i:41483002 original size:80 final size:80
Alignment explanation
Indices: 41482866--41483055 Score: 222
Period size: 80 Copynumber: 2.4 Consensus size: 80
41482856 ATATTATATA
* * * ** * * * *
41482866 CTGAAATGTATGCACTTTCGATCCATGCATATTGAATCTACTGAAATGTATGCGCTTTCGAGCTA
1 CTGAAATGTATGCACTTTCGAGCCATACCTATTGAATCTACCAAAAAGCATACGCTTTCGAGCCA
*
41482931 TATCTACTGAATCTAC
66 TACCTACTG-ATCTAC
*
41482947 C-GAAATGTATGCTCTTTCGAGCCATACCTATTGAATCTACCAAAAAGCATACGCTTTCGAGCCA
1 CTGAAATGTATGCACTTTCGAGCCATACCTATTGAATCTACCAAAAAGCATACGCTTTCGAGCCA
* *
41483011 TACCTACTGATTTCC
66 TACCTACTGATCTAC
* *
41483026 CTGAAA-GTATGCCCTATCGAGCCATACCTA
1 CTGAAATGTATGCACTTTCGAGCCATACCTA
41483056 CTGATTATAT
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 27 0.29
80 65 0.70
81 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (80 bp):
CTGAAATGTATGCACTTTCGAGCCATACCTATTGAATCTACCAAAAAGCATACGCTTTCGAGCCA
TACCTACTGATCTAC
Found at i:41491400 original size:17 final size:18
Alignment explanation
Indices: 41491378--41491418 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
41491368 TAAAAAAATG
41491378 GGCCCACACA-CTC-ATGT
1 GGCCCACACAGCTCAAT-T
*
41491395 GGCCCATACAGCTCAATT
1 GGCCCACACAGCTCAATT
41491413 GGCCCA
1 GGCCCA
41491419 ACCCGTGTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 10 0.48
19 2 0.10
ACGTcount: A:0.24, C:0.39, G:0.20, T:0.17
Consensus pattern (18 bp):
GGCCCACACAGCTCAATT
Found at i:41492368 original size:12 final size:12
Alignment explanation
Indices: 41492353--41492382 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
41492343 AAGAAGAAGC
41492353 AAAAAGCGCAAA
1 AAAAAGCGCAAA
41492365 AAAAAGCGCAAA
1 AAAAAGCGCAAA
41492377 AAAAAG
1 AAAAAG
41492383 TTGCCTACCT
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:0.70, C:0.13, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAGCGCAAA
Found at i:41495500 original size:21 final size:21
Alignment explanation
Indices: 41495474--41495525 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
41495464 GCGGTGGCGG
*
41495474 TGAGATTAGTTACTGTAGCGA
1 TGAGATTAGATACTGTAGCGA
* *
41495495 TGAGATTGGATACTGTAGCGG
1 TGAGATTAGATACTGTAGCGA
41495516 TGAGATTAGA
1 TGAGATTAGA
41495526 AACAATGGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
TGAGATTAGATACTGTAGCGA
Found at i:41498876 original size:16 final size:16
Alignment explanation
Indices: 41498855--41498889 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
41498845 GGAAAAAGGA
41498855 AAAGAAA-ATAATAAAT
1 AAAGAAATA-AATAAAT
41498871 AAAGAAATAAATAAAT
1 AAAGAAATAAATAAAT
41498887 AAA
1 AAA
41498890 AAGAAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAGAAATAAATAAAT
Found at i:41507601 original size:19 final size:18
Alignment explanation
Indices: 41507573--41507611 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
41507563 TTAAACTTTA
*
41507573 TTTAATATTTTTATAAAT
1 TTTAATATTTTTACAAAT
41507591 TTTAATAATTTTTACAAAT
1 TTTAAT-ATTTTTACAAAT
41507610 TT
1 TT
41507612 CTTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAATATTTTTACAAAT
Found at i:41514854 original size:12 final size:12
Alignment explanation
Indices: 41514828--41514866 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
41514818 TTTGTGTTTG
41514828 TATATATATTAAT
1 TATATATA-TAAT
41514841 TATATATATAAT
1 TATATATATAAT
* *
41514853 TATAAATTTAAT
1 TATATATATAAT
41514865 TA
1 TA
41514867 CTTTTGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATATATAAT
Found at i:41518792 original size:12 final size:12
Alignment explanation
Indices: 41518766--41518804 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
41518756 TTTGTGTTTG
41518766 TATATATATTAAT
1 TATATATA-TAAT
41518779 TATATATATAAT
1 TATATATATAAT
* *
41518791 TATAAATTTAAT
1 TATATATATAAT
41518803 TA
1 TA
41518805 CTTTTGGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.67
13 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATATATATAAT
Done.