Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 23 of 425
Found at i:5889054 original size:24 final size:24
Alignment explanation
Indices: 5888979--5889092 Score: 87
Period size: 24 Copynumber: 4.9 Consensus size: 24
5888969 AGCTGATGAG
*
5888979 CAGTAAGCTC-TATTGAGCTG-AAA
1 CAGTAAGCTCTTA-CGAGCTGAAAA
** * *
5889002 TGGTAAGCTCTGACGAGCTG--GA
1 CAGTAAGCTCTTACGAGCTGAAAA
*
5889024 CAGTAAGCT-TATATGAGCT-AAGAA
1 CAGTAAGCTCT-TACGAGCTGAA-AA
5889048 CAGTAAGCTCTTACGAGCTGAAAA
1 CAGTAAGCTCTTACGAGCTGAAAA
* *
5889072 CAGTAAGATCCTACGAGCTGA
1 CAGTAAGCTCTTACGAGCTGA
5889093 TATATCGGTA
Statistics
Matches: 71, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
21 1 0.01
22 14 0.20
23 14 0.20
24 39 0.55
25 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (24 bp):
CAGTAAGCTCTTACGAGCTGAAAA
Found at i:5889065 original size:46 final size:48
Alignment explanation
Indices: 5888943--5889078 Score: 136
Period size: 46 Copynumber: 2.9 Consensus size: 48
5888933 TCGTTCTTTC
* * *
5888943 GAGCTATGAACGGTAAGCTCCTCCTGAGCTGATGAGCAGTAAGCTCTATT
1 GAGCTAAGAACGGTAAGCTCTTAC-GAGCTGA-GAGCAGTAAGCTCTATT
* * *
5888993 GAGCTGA-AATGGTAAGCTCTGACGAGCTG-GA-CAGTAAGCT-TATAT
1 GAGCTAAGAACGGTAAGCTCTTACGAGCTGAGAGCAGTAAGCTCTAT-T
* * *
5889038 GAGCTAAGAACAGTAAGCTCTTACGAGCTGAAAACAGTAAG
1 GAGCTAAGAACGGTAAGCTCTTACGAGCTGAGAGCAGTAAG
5889079 ATCCTACGAG
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
44 3 0.04
45 16 0.23
46 21 0.30
47 1 0.01
48 13 0.18
49 12 0.17
50 5 0.07
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.23
Consensus pattern (48 bp):
GAGCTAAGAACGGTAAGCTCTTACGAGCTGAGAGCAGTAAGCTCTATT
Found at i:5895606 original size:53 final size:51
Alignment explanation
Indices: 5895522--5895626 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 51
5895512 TTTTATTTAT
* *
5895522 TATATTTTTTACTCTTACTTTCAACTTGTTGAAAAGGTTATGCAAAGTTATCA
1 TATAATTTTTACTCTTACTTTCAACTTGTTGAAAAGGTTA--CAAAGTCATCA
*
5895575 TATAATTTTTACTCTTACTTTCTACTTGTTGAAAAGGTTACAAAGTCATCA
1 TATAATTTTTACTCTTACTTTCAACTTGTTGAAAAGGTTACAAAGTCATCA
5895626 T
1 T
5895627 TCATTTCCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
51 11 0.22
53 38 0.78
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.45
Consensus pattern (51 bp):
TATAATTTTTACTCTTACTTTCAACTTGTTGAAAAGGTTACAAAGTCATCA
Found at i:5897415 original size:27 final size:27
Alignment explanation
Indices: 5897384--5897435 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
5897374 ATTTTTGAAT
5897384 TCGAATAACTCGAAT-AACTCGAATAAC
1 TCGAATAACTCGAATAAAC-CGAATAAC
*
5897411 TCGAATAATTCGAATAAACCGAATA
1 TCGAATAACTCGAATAAACCGAATA
5897436 TAAACTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (27 bp):
TCGAATAACTCGAATAAACCGAATAAC
Found at i:5897435 original size:9 final size:9
Alignment explanation
Indices: 5897384--5897427 Score: 79
Period size: 9 Copynumber: 4.9 Consensus size: 9
5897374 ATTTTTGAAT
5897384 TCGAATAAC
1 TCGAATAAC
5897393 TCGAATAAC
1 TCGAATAAC
5897402 TCGAATAAC
1 TCGAATAAC
*
5897411 TCGAATAAT
1 TCGAATAAC
5897420 TCGAATAA
1 TCGAATAA
5897428 ACCGAATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.25
Consensus pattern (9 bp):
TCGAATAAC
Found at i:5897749 original size:12 final size:12
Alignment explanation
Indices: 5897732--5897764 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
5897722 TATTTTTTAG
5897732 TTATTTACTCAC
1 TTATTTACTCAC
*
5897744 TTATTTATTCAC
1 TTATTTACTCAC
5897756 TTATTTACT
1 TTATTTACT
5897765 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:5903003 original size:30 final size:30
Alignment explanation
Indices: 5902967--5903026 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
5902957 AGGGAAAGAA
5902967 AAGAAAAAGGGAAAATTGGGATTTTGAAGC
1 AAGAAAAAGGGAAAATTGGGATTTTGAAGC
5902997 AAGAAAAAGGGAAAATTGGGATTTTGAAGC
1 AAGAAAAAGGGAAAATTGGGATTTTGAAGC
5903027 TTCAAACTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.30, T:0.20
Consensus pattern (30 bp):
AAGAAAAAGGGAAAATTGGGATTTTGAAGC
Found at i:5904469 original size:20 final size:20
Alignment explanation
Indices: 5904441--5904478 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5904431 TACATTAAGT
5904441 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
5904461 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
5904479 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:5911502 original size:20 final size:20
Alignment explanation
Indices: 5911471--5911510 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
5911461 TTAAGATACT
5911471 ATTTTAATAAAATAT-TTAA
1 ATTTTAATAAAATATATTAA
5911490 ATTTTATATAAAATATATTAA
1 ATTTTA-ATAAAATATATTAA
5911511 TTATATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTTAATAAAATATATTAA
Found at i:5916058 original size:70 final size:69
Alignment explanation
Indices: 5915948--5916079 Score: 169
Period size: 70 Copynumber: 1.9 Consensus size: 69
5915938 ACACCTGGAA
* *
5915948 GCTTTTAACTCTCGTTAATTGTTTAGGGGCTGTGAAGTTAAACTTGAAAGCTTTAATATGAAAAC
1 GCTTTTAACTCTCATTAATTGTTTAGGGGCTGTGAAGTTAAACCTGAAA-CTTTAATATGAAAAC
5916013 TGAGC
65 TGAGC
* * **
5916018 GCTTTTAACTCTCATTAATTGTTT-GGGGGT-TGCAGTGTTAAACCTGTGACTTTAATATGAAA
1 GCTTTTAACTCTCATTAATTGTTTAGGGGCTGTG-A-AGTTAAACCTGAAACTTTAATATGAAA
5916080 GTTATGAGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
68 2 0.04
69 19 0.35
70 33 0.61
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (69 bp):
GCTTTTAACTCTCATTAATTGTTTAGGGGCTGTGAAGTTAAACCTGAAACTTTAATATGAAAACT
GAGC
Found at i:5916125 original size:69 final size:68
Alignment explanation
Indices: 5916018--5916388 Score: 275
Period size: 69 Copynumber: 5.3 Consensus size: 68
5916008 AAAACTGAGC
** * * * * * *
5916018 GCTTTTAACTCTCATTAATTGTTTGGGGGTTGCAGTGTTAAACCTGTGACTTTAATATGAAAGTT
1 GCTTTTAACTCTCGCTAACTATTT-GGGGCTGCGGTGTTAAACCTATGACCTTAATATGAAAGTT
*
5916083 ATGA
65 AGGA
* * * * * * *
5916087 GCTTTTAACTTTTGCTAACTATTTAGGGGCTGCGGTGTTGAACCTACGAGCATTAATATGACAGC
1 GCTTTTAACTCTCGCTAACTATTT-GGGGCTGCGGTGTTAAACCTATGA-CCTTAATATGAAAGT
5916152 T-GTGA
64 TAG-GA
* * *
5916157 GATTTTAACTCTCGCTAACTATTTAGAGGCTGTGGTGTTAAACCTACT-AGCCTTAATAATATGA
1 GCTTTTAACTCTCGCTAACTATTT-GGGGCTGCGGTGTTAAACCTA-TGA-CC-T--TAATATGA
*
5916221 TAGTTAGGA
60 AAGTTAGGA
* * * * * **
5916230 GCTTTTAATTCTCAG-TAACTATTTGAGGG-TGTGGTGTCAAACCTACGAGCCTTACTATGGCAG
1 GCTTTTAACTCTC-GCTAACTATTTG-GGGCTGCGGTGTTAAACCTATGA-CCTTAATATGAAAG
5916293 TTAGGA
63 TTAGGA
* * * * *
5916299 GCTTTTAACTATCGCTAACTATTTGGGGGTGCAGTGTTAAACATGTGAACCTTAATATGACAA-T
1 GCTTTTAACTCTCGCTAACTATTTGGGGCTGCGGTGTTAAACCTATG-ACCTTAATATGA-AAGT
*
5916363 TGGGA
64 TAGGA
5916368 GCTTTTAACTCTCGCTAACTA
1 GCTTTTAACTCTCGCTAACTA
5916389 AAGTGTTGCG
Statistics
Matches: 241, Mismatches: 47, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
68 4 0.02
69 118 0.49
70 60 0.25
71 2 0.01
72 20 0.08
73 35 0.15
74 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (68 bp):
GCTTTTAACTCTCGCTAACTATTTGGGGCTGCGGTGTTAAACCTATGACCTTAATATGAAAGTTA
GGA
Found at i:5916283 original size:72 final size:69
Alignment explanation
Indices: 5916069--5916388 Score: 295
Period size: 69 Copynumber: 4.6 Consensus size: 69
5916059 ACCTGTGACT
* * * * * **
5916069 TTAATATGAAAGTTATGAGCTTTTAACTTTTGCTAACTATTT-AGGGGCTGCGGTGTTGAACCTA
1 TTAATATGACAGTTAGGAGCTTTTAACTCTCGCTAACTATTTGA-GGG-TGTGGTGTCAAACCTA
*
5916133 CGAGCA
64 CGAGCC
* * * *
5916139 TTAATATGACAGCT-GTGAGATTTTAACTCTCGCTAACTATTTAGAGGCTGTGGTGTTAAACCTA
1 TTAATATGACAGTTAG-GAGCTTTTAACTCTCGCTAACTATTT-GAGGGTGTGGTGTCAAACCTA
*
5916203 CTAGCC
64 CGAGCC
* *
5916209 TTAATAATATGATAGTTAGGAGCTTTTAATTCTCAG-TAACTATTTGAGGGTGTGGTGTCAAACC
1 -T--TAATATGACAGTTAGGAGCTTTTAACTCTC-GCTAACTATTTGAGGGTGTGGTGTCAAACC
5916273 TACGAGCC
62 TACGAGCC
* * * * ** * * **
5916281 TTACTATGGCAGTTAGGAGCTTTTAACTATCGCTAACTATTTGGGGGTGCAGTGTTAAACATGTG
1 TTAATATGACAGTTAGGAGCTTTTAACTCTCGCTAACTATTTGAGGGTGTGGTGTCAAACCTACG
*
5916346 AACC
66 AGCC
* *
5916350 TTAATATGACAATTGGGAGCTTTTAACTCTCGCTAACTA
1 TTAATATGACAGTTAGGAGCTTTTAACTCTCGCTAACTA
5916389 AAGTGTTGCG
Statistics
Matches: 205, Mismatches: 36, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
68 1 0.00
69 87 0.42
70 53 0.26
71 4 0.02
72 25 0.12
73 33 0.16
74 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (69 bp):
TTAATATGACAGTTAGGAGCTTTTAACTCTCGCTAACTATTTGAGGGTGTGGTGTCAAACCTACG
AGCC
Found at i:5918896 original size:46 final size:45
Alignment explanation
Indices: 5918843--5919018 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
5918833 TATTTGGGCA
5918843 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
5918889 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
5918936 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
5918982 -CCCAAGCTCGTTGAGTGGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
5919019 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 63 0.58
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:5919003 original size:93 final size:93
Alignment explanation
Indices: 5918839--5919010 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
5918829 GGGATATTTG
* *
5918839 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
*
5918904 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TGGAGTCCGAGTTCGAGAGATGTAACTA
*
5918932 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGA
5918996 GTGGAGTCCGAGTTC
65 GTGGAGTCCGAGTTC
5919011 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAG
TGGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:5921179 original size:44 final size:44
Alignment explanation
Indices: 5921101--5921203 Score: 113
Period size: 44 Copynumber: 2.4 Consensus size: 44
5921091 CTAGACAGGG
* * *
5921101 TCTTACACGAAAT--CAAATACGATGCCGATGTCCCAGACACGA
1 TCTTACACAAAATCACAAATACGATGCCAACGTCCCAGACACGA
*** *
5921143 TCTTACACATAAATCACAAAT-CGATGCCAACGTCCCAGATGTGG
1 TCTTACACA-AAATCACAAATACGATGCCAACGTCCCAGACACGA
5921187 TCTTACACAAAATCACA
1 TCTTACACAAAATCACA
5921204 TATCAGAATC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
42 8 0.16
43 12 0.24
44 26 0.51
45 5 0.10
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.21
Consensus pattern (44 bp):
TCTTACACAAAATCACAAATACGATGCCAACGTCCCAGACACGA
Found at i:5921200 original size:43 final size:43
Alignment explanation
Indices: 5921037--5921203 Score: 137
Period size: 43 Copynumber: 3.9 Consensus size: 43
5921027 AGCTCGTACA
* ***
5921037 ATGCCAACGTACCAGACGTGGTCTTACATGTAATCA-AATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCACAA-ATCG
* * *
5921080 ATGCC-ACTATCCTAGACAG-GGTCTTACACGAAAT--CAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACAAAATCACAAAT-CG
* * ** *
5921122 ATGCCGATGTCCCAGACACGATCTTACACATAAATCACAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACA-AAATCACAAATCG
*
5921166 ATGCCAACGTCCCAGATGTGGTCTTACACAAAATCACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCACA
5921204 TATCAGAATC
Statistics
Matches: 98, Mismatches: 17, Indels: 18
0.74 0.13 0.14
Matches are distributed among these distances:
41 2 0.02
42 27 0.28
43 37 0.38
44 27 0.28
45 5 0.05
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACAAAATCACAAATCG
Found at i:5921802 original size:19 final size:19
Alignment explanation
Indices: 5921778--5921816 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
5921768 AGACAAACCA
5921778 TGTTAACCCAACATCAAGC
1 TGTTAACCCAACATCAAGC
5921797 TGTTAACCCAACATCAAGC
1 TGTTAACCCAACATCAAGC
5921816 T
1 T
5921817 TCCATACACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.31, G:0.10, T:0.23
Consensus pattern (19 bp):
TGTTAACCCAACATCAAGC
Found at i:5925856 original size:46 final size:46
Alignment explanation
Indices: 5925751--5925868 Score: 157
Period size: 46 Copynumber: 2.6 Consensus size: 46
5925741 TGTCTTCGAC
** * *
5925751 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATT
* *
5925797 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTGA-T
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATAT-ATT
*
5925843 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
5925869 CTGTCCTATC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 62 0.98
47 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATT
Found at i:5948789 original size:32 final size:32
Alignment explanation
Indices: 5948748--5948812 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
5948738 GTCTCTTGAG
5948748 TCCTCTAAAGAGGATATTTTTGCCTCATACCT
1 TCCTCTAAAGAGGATATTTTTGCCTCATACCT
*
5948780 TCCTTTAAAGAGGATATTTTTGCCTCATACCT
1 TCCTCTAAAGAGGATATTTTTGCCTCATACCT
5948812 T
1 T
5948813 TCAGGTAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (32 bp):
TCCTCTAAAGAGGATATTTTTGCCTCATACCT
Found at i:5952977 original size:3 final size:3
Alignment explanation
Indices: 5952969--5953021 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
5952959 ACAATATTAG
5952969 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5953017 TAA TA
1 TAA TA
5953022 TAAATAAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5955942 original size:35 final size:35
Alignment explanation
Indices: 5955900--5955987 Score: 106
Period size: 35 Copynumber: 2.5 Consensus size: 35
5955890 ATATACTCAG
*
5955900 TCAGATACAGATACAGATTCGAGCTTAAGCCCAT-
1 TCAGATACAGATACAGATTCGAGCCTAAGCCCATC
* * * * *
5955934 TACTGATACAGATGCTGATTCGGGCCTAAGCCTATC
1 T-CAGATACAGATACAGATTCGAGCCTAAGCCCATC
5955970 TCAGATACAGATACAGAT
1 TCAGATACAGATACAGAT
5955988 GTACAAATCA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
34 1 0.02
35 41 0.95
36 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (35 bp):
TCAGATACAGATACAGATTCGAGCCTAAGCCCATC
Found at i:5961381 original size:5 final size:5
Alignment explanation
Indices: 5961371--5961397 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
5961361 TGAGTATTGG
5961371 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
5961398 GGTTAGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:5961792 original size:21 final size:20
Alignment explanation
Indices: 5961752--5961803 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
5961742 GGGGTGTTAC
5961752 AGTTATCGATACCAAAAAAA
1 AGTTATCGATACCAAAAAAA
** *
5961772 AGTTTATCGATACTTATAAAA
1 AG-TTATCGATACCAAAAAAA
*
5961793 AGGTATCGATA
1 AGTTATCGATA
5961804 TAGTAACGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (20 bp):
AGTTATCGATACCAAAAAAA
Found at i:5966737 original size:20 final size:20
Alignment explanation
Indices: 5966709--5966752 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
5966699 AGAAACTTGT
* *
5966709 AATGTCCATATTGAGTCCTA
1 AATGCCCATACTGAGTCCTA
5966729 AATGCCCATACTGAGTCCTA
1 AATGCCCATACTGAGTCCTA
5966749 AATG
1 AATG
5966753 TCGTCTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (20 bp):
AATGCCCATACTGAGTCCTA
Found at i:5970029 original size:40 final size:40
Alignment explanation
Indices: 5969983--5970059 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
5969973 TCACACCATG
* * *
5969983 TGGGGATAGAATCGACCCACCCAGCTC-TACACACCAAGTA
1 TGGGGATAAAATCAACCCACCCAAC-CATACACACCAAGTA
*
5970023 TGGGGATAAAATCAACCCATCCAACCATACACACCAA
1 TGGGGATAAAATCAACCCACCCAACCATACACACCAA
5970060 ATGGTACTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.03
40 31 0.97
ACGTcount: A:0.38, C:0.32, G:0.16, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCAACCATACACACCAAGTA
Found at i:5975075 original size:18 final size:18
Alignment explanation
Indices: 5975036--5975133 Score: 146
Period size: 18 Copynumber: 5.5 Consensus size: 18
5975026 AATGATATGT
5975036 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
5975053 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
5975071 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
5975088 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
5975106 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
5975125 AATCTTAGA
1 AATCTTAGA
5975134 AGATATGATT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
17 29 0.40
18 32 0.44
19 11 0.15
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:5975076 original size:35 final size:35
Alignment explanation
Indices: 5975027--5975131 Score: 165
Period size: 35 Copynumber: 2.9 Consensus size: 35
5975017 ATAATCTTCA
*
5975027 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAAAT
*
5975063 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
5975098 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTA
5975132 GAAGATATGA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 49 0.75
36 5 0.08
37 11 0.17
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAAAT
Found at i:5975641 original size:18 final size:17
Alignment explanation
Indices: 5975617--5975676 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
5975607 CCAATATATT
5975617 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
5975634 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
5975650 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
5975668 TTATATTTT
1 TTATATTTT
5975677 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:5975661 original size:15 final size:16
Alignment explanation
Indices: 5975618--5975676 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
5975608 CAATATATTT
5975618 TATATTTTTTATATAA
1 TATATTTTTTATATAA
5975634 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
5975650 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
5975668 TTATATTTT
1 -TATATTTT
5975677 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:5975701 original size:26 final size:26
Alignment explanation
Indices: 5975653--5975702 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
5975643 TTATAAATAT
* * * *
5975653 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
5975679 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
5975703 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:5978971 original size:16 final size:17
Alignment explanation
Indices: 5978952--5978990 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
5978942 AATCTTATTT
5978952 TTATATAATTATT-TTA
1 TTATATAATTATTGTTA
5978968 TTATAT-ATTATTGTTA
1 TTATATAATTATTGTTA
5978984 TTATATA
1 TTATATA
5978991 TCACTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATATAATTATTGTTA
Found at i:5978990 original size:18 final size:17
Alignment explanation
Indices: 5978952--5978991 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
5978942 AATCTTATTT
5978952 TTATATA-ATTATTTTA
1 TTATATATATTATTTTA
5978968 -T-TATATATTATTGTTA
1 TTATATATATTATT-TTA
5978984 TTATATAT
1 TTATATAT
5978992 CACTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 3 0.15
17 1 0.05
18 5 0.25
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTATATATATTATTTTA
Found at i:5979125 original size:16 final size:15
Alignment explanation
Indices: 5979101--5979144 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
5979091 TATACTTTCA
*
5979101 TATTATATATTATAAT
1 TATTTTATATTAT-AT
*
5979117 TATTTTATATTATGT
1 TATTTTATATTATAT
*
5979132 CATTTTATATTAT
1 TATTTTATATTAT
5979145 TATGTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTTTATATTATAT
Found at i:5980406 original size:21 final size:22
Alignment explanation
Indices: 5980368--5980408 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5980358 CTCTCGTTTT
* *
5980368 CATTTTTCTTAAAGTCGATTCC
1 CATTTTTCTAAAACTCGATTCC
5980390 CATTTTTC-AAAACTCGATT
1 CATTTTTCTAAAACTCGATT
5980409 TAAAAATGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (22 bp):
CATTTTTCTAAAACTCGATTCC
Found at i:5984445 original size:2 final size:2
Alignment explanation
Indices: 5984438--5984470 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5984428 TGTTTTACAT
5984438 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5984471 TAATTTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5985196 original size:30 final size:30
Alignment explanation
Indices: 5985162--5985222 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
5985152 GTTAACCTTA
*
5985162 TATCTCACACGGCCCAATCACATGCCCGTG
1 TATCTCACACGGCCCAATCACACGCCCGTG
* * *
5985192 TATCTTACACGGCCCAGTCACACGCTCGTG
1 TATCTCACACGGCCCAATCACACGCCCGTG
5985222 T
1 T
5985223 GTCTGGCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (30 bp):
TATCTCACACGGCCCAATCACACGCCCGTG
Found at i:5986616 original size:26 final size:26
Alignment explanation
Indices: 5986579--5986713 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
5986569 TGATACAAAT
*
5986579 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5986605 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
5986630 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
5986656 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
5986682 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
5986708 TGATAA
1 TGATAA
5986714 GAATTCATGT
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:5986634 original size:51 final size:52
Alignment explanation
Indices: 5986579--5986713 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
5986569 TGATACAAAT
5986579 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
5986630 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
* *
5986682 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
5986714 GAATTCATGT
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
51 47 0.58
52 34 0.42
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:5988238 original size:25 final size:26
Alignment explanation
Indices: 5988197--5988248 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
5988187 TTTACAGTTT
5988197 TACCCCTAGGTGAAAATT-ACCGAAA
1 TACCCCTAGGTGAAAATTGACCGAAA
* *
5988222 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGTG-AAAATTGACCGAAA
5988248 T
1 T
5988249 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGTGAAAATTGACCGAAA
Found at i:5992467 original size:26 final size:26
Alignment explanation
Indices: 5992389--5992518 Score: 166
Period size: 26 Copynumber: 5.2 Consensus size: 26
5992379 TGATACAAAT
5992389 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
5992415 TGATAATAGGGTT--G----TGTT-CA
1 TGATAATA-GGTTAGGTAAATGTTCCA
5992435 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
5992461 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
5992487 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
5992513 TGATAA
1 TGATAA
5992519 GAATTCATGT
Statistics
Matches: 94, Mismatches: 2, Indels: 16
0.84 0.02 0.14
Matches are distributed among these distances:
19 4 0.04
20 10 0.11
21 5 0.05
25 5 0.05
26 66 0.70
27 4 0.04
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:5994034 original size:25 final size:26
Alignment explanation
Indices: 5993993--5994044 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
5993983 AATTACTGTT
5993993 TACCCCTAGGTGAAAATT-ACCGAAA
1 TACCCCTAGGTGAAAATTGACCGAAA
* *
5994018 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGTG-AAAATTGACCGAAA
5994044 T
1 T
5994045 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.65
26 7 0.30
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGTGAAAATTGACCGAAA
Found at i:5997761 original size:2 final size:2
Alignment explanation
Indices: 5997754--5997790 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
5997744 TAGGTACATA
*
5997754 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5997791 TTAAAATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:5997851 original size:9 final size:9
Alignment explanation
Indices: 5997837--5997862 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
5997827 CATATACTAA
5997837 TAATAATAG
1 TAATAATAG
5997846 TAATAATAG
1 TAATAATAG
5997855 TAATAATA
1 TAATAATA
5997863 AAGATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (9 bp):
TAATAATAG
Found at i:5997996 original size:22 final size:22
Alignment explanation
Indices: 5997958--5998038 Score: 57
Period size: 22 Copynumber: 3.8 Consensus size: 22
5997948 GAGTATAATA
*
5997958 ATATATGAAA-ATA-ATACTAT
1 ATATATAAAATATATATACTAT
5997978 ATATATAAAATATATATAC-ACGT
1 ATATATAAAATATATATACTA--T
* *
5998001 ATA-ATAAAATATGTGTACTA-
1 ATATATAAAATATATATACTAT
*
5998021 ATAT-TAATAATAAATATA
1 ATATATAA-AATATATATA
5998039 ATAGGAATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
20 15 0.31
21 11 0.23
22 17 0.35
23 5 0.10
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (22 bp):
ATATATAAAATATATATACTAT
Found at i:5998385 original size:25 final size:26
Alignment explanation
Indices: 5998344--5998408 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
5998334 AGAAAACTAT
*
5998344 TACAATATTACATAAATATATACCTA
1 TACAATATTACATAAATATATACATA
5998370 TACATATATTA-A-AAATATATACATA
1 TACA-ATATTACATAAATATATACATA
* *
5998395 TATAATATGACATA
1 TACAATATTACATA
5998409 TACCAAGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 5 0.15
25 16 0.48
26 6 0.18
27 6 0.18
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (26 bp):
TACAATATTACATAAATATATACATA
Found at i:5999961 original size:40 final size:40
Alignment explanation
Indices: 5999917--6000055 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
5999907 TGGGTTGTAA
5999917 GGGGTTTGGGCTTCTATTGGGTTAGTTTAGATGGGTATTT
1 GGGGTTTGGGCTTCTATTGGGTTAGTTTAGATGGGTATTT
* * *
5999957 GGGGTTTGGGCTGGTGATATTTGGGCTTAATGGGTTA-AT-GGTTTTGT
1 GGGGTTTGGGCT--T-CTA-TTGGG-TT-A--GTTTAGATGGGTATT-T
*
6000004 AAGGGGTTTGGGCTTCTGTTGGGTTAGTTTAGATGGGTATTT
1 --GGGGTTTGGGCTTCTATTGGGTTAGTTTAGATGGGTATTT
6000046 GGGGTTTGGG
1 GGGGTTTGGG
6000056 TAAGGGTTGA
Statistics
Matches: 79, Mismatches: 7, Indels: 26
0.71 0.06 0.23
Matches are distributed among these distances:
40 22 0.28
41 4 0.05
42 4 0.05
43 8 0.10
44 7 0.09
45 7 0.09
46 7 0.09
47 4 0.05
48 4 0.05
49 12 0.15
ACGTcount: A:0.12, C:0.04, G:0.41, T:0.42
Consensus pattern (40 bp):
GGGGTTTGGGCTTCTATTGGGTTAGTTTAGATGGGTATTT
Found at i:6001229 original size:136 final size:137
Alignment explanation
Indices: 6000996--6001270 Score: 507
Period size: 136 Copynumber: 2.0 Consensus size: 137
6000986 AGCCTATTCA
* *
6000996 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
6001061 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGC
6001125 CCATTTG
131 CCATTTG
6001132 GGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
* *
6001197 CAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGC
6001262 CCATTTG
131 CCATTTG
6001269 GG
1 GG
6001271 GAGACTACTC
Statistics
Matches: 134, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 112 0.84
137 22 0.16
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
GGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACATATGCAAGC
CCATTTG
Found at i:6003092 original size:26 final size:26
Alignment explanation
Indices: 6003056--6003243 Score: 322
Period size: 26 Copynumber: 7.2 Consensus size: 26
6003046 CATGATATTT
*
6003056 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
6003082 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
* *
6003108 TTGTCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
6003134 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
6003160 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
6003186 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
6003212 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
6003238 TTATCA
1 TTATCA
6003244 ATTTGTATCA
Statistics
Matches: 154, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 154 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:6005844 original size:14 final size:14
Alignment explanation
Indices: 6005825--6005859 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
6005815 GTTGATTTTT
6005825 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
*
6005839 TTGAAAAGCAGGAA
1 TTGAAAAGCAGAAA
6005853 TTGAAAA
1 TTGAAAA
6005860 TTCCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.06, G:0.23, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:6005993 original size:90 final size:89
Alignment explanation
Indices: 6005768--6006178 Score: 413
Period size: 89 Copynumber: 4.6 Consensus size: 89
6005758 CACCGCCGGC
6005768 ATACCTCAGCATGTGTGCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
1 ATACCTCAGC--GTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
* * * *
6005832 GCAGAAATTGAAAAGCAGGAATTGAAA
63 ACAGAGATTGAAAAACAGAAATTGAAA
* * * * * * * *
6005859 ATTCCTCAGCGTGCCCTGAGGTTCGACTCACTTCTCGCAGTATGAGTTGATTGTTTTGAAAAATA
1 ATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA
* *
6005924 TAGATTGAAAAAACAGGAATTGAAA
66 GAGATTG-AAAAACAGAAATTGAAA
* *
6005949 ATACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTG-AAAACA
1 ATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA
*
6006013 GAGATTTGAAAAATAGAAATTGAAA
66 GAGA-TTGAAAAACAGAAATTGAAA
* * * ** *
6006038 ATACCTCAGCACGTGAACC-AAGGCTCAACTTATTTCTTGCAATATGAGTTGA--TTTTTG--AA
1 ATACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
* * *
6006098 ACATAAATTGAAAATACATAAATTGAAA
63 ACAGAGATTGAAAA-ACAGAAATTGAAA
* * * * *
6006126 AAACCTCAACATGTCTTGTGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 ATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
6006179 CTGAAAACAG
Statistics
Matches: 262, Mismatches: 48, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
85 1 0.00
86 30 0.11
87 7 0.03
88 28 0.11
89 86 0.33
90 68 0.26
91 40 0.15
92 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (89 bp):
ATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACA
GAGATTGAAAAACAGAAATTGAAA
Found at i:6006097 original size:179 final size:177
Alignment explanation
Indices: 6005787--6006178 Score: 486
Period size: 179 Copynumber: 2.2 Consensus size: 177
6005777 CATGTGTGCC
* *
6005787 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAGCAGGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAACAGAA
* * * * * *
6005852 ATTGAAAATTCCTCAGCGTGCCCTGAGGTTCGACTCACTTCTCGCAGTATGAGTTGATTGTTTTG
66 ATTGAAAATACCTCAGCGTGACCTAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTGTTTTG
* * * * *
6005917 AAAAATATAGATTGAAAAAACAGGAATTGAAAATACCTTAGCGTGTCCT
131 AAAAATA-A-ATTGAAAAAACAGAAATTGAAAAAACCTCAACATGTCCT
* * *
6005966 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAA-CAGAGATTTGAAAAATAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGA-AATTGAAAAACAGA
* * *
6006030 AATTGAAAATACCTCAGCACGTGAACC-AAGGCTCAACTTATTTCTTGCAATATGAGTTGA-T-T
65 AATTGAAAATACCTCAG--CGTG-ACCTAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTGT
* * * *
6006092 TTTGAAACATAAATTGAAAATACATAAATTGAAAAAACCTCAACATGTCTT
127 TTTGAAAAATAAATTGAAAAAACAGAAATTGAAAAAACCTCAACATGTCCT
*
6006143 GTGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
6006179 CTGAAAACAG
Statistics
Matches: 184, Mismatches: 25, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
177 65 0.35
178 5 0.03
179 81 0.44
180 1 0.01
181 30 0.16
182 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (177 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAACAGAA
ATTGAAAATACCTCAGCGTGACCTAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTGTTTTG
AAAAATAAATTGAAAAAACAGAAATTGAAAAAACCTCAACATGTCCT
Found at i:6006118 original size:15 final size:15
Alignment explanation
Indices: 6006098--6006126 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6006088 GATTTTTGAA
6006098 ACATAAATTGAAAAT
1 ACATAAATTGAAAAT
6006113 ACATAAATTGAAAA
1 ACATAAATTGAAAA
6006127 AACCTCAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (15 bp):
ACATAAATTGAAAAT
Found at i:6007051 original size:42 final size:42
Alignment explanation
Indices: 6006933--6007058 Score: 130
Period size: 42 Copynumber: 3.0 Consensus size: 42
6006923 CTTCATTAGA
* * * *
6006933 ATGCCC-TTTAGGGTTTTCATCCTAATCTTTCGTATTTATCAAG
1 ATGCCCTTTTCGGGTTTTCATCTTAAT-TTTC-TTTTTTTCAAG
* * * ** *
6006976 ATGCTCTTTTCGGGTTTTCACCTTGATCATCTTTTTTTTAAG
1 ATGCCCTTTTCGGGTTTTCATCTTAATTTTCTTTTTTTCAAG
6007018 ATGCCCTTTTCGGGTTTTCATCTTAATTTTC-TTTTTTCAAG
1 ATGCCCTTTTCGGGTTTTCATCTTAATTTTCTTTTTTTCAAG
6007059 CATAATATTT
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
41 9 0.14
42 34 0.52
43 7 0.11
44 16 0.24
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.50
Consensus pattern (42 bp):
ATGCCCTTTTCGGGTTTTCATCTTAATTTTCTTTTTTTCAAG
Found at i:6011606 original size:26 final size:26
Alignment explanation
Indices: 6011567--6011674 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
6011557 TGGTACAAAT
6011567 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
6011593 TAATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6011619 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6011645 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6011671 TGAT
1 TGAT
6011675 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6018639 original size:26 final size:26
Alignment explanation
Indices: 6018610--6018717 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
6018600 TGGTACAAAT
6018610 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
6018636 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6018662 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
6018688 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6018714 TGAT
1 TGAT
6018718 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6028446 original size:2 final size:2
Alignment explanation
Indices: 6028410--6028435 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6028400 TAGGTACATA
6028410 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6028436 GCATAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6028507 original size:9 final size:9
Alignment explanation
Indices: 6028493--6028518 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6028483 CATATACTAA
6028493 TAATAATAG
1 TAATAATAG
6028502 TAATAATAG
1 TAATAATAG
6028511 TAATAATA
1 TAATAATA
6028519 AAGAGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (9 bp):
TAATAATAG
Found at i:6029783 original size:131 final size:130
Alignment explanation
Indices: 6029643--6029979 Score: 410
Period size: 130 Copynumber: 2.6 Consensus size: 130
6029633 TAAAAACCTA
* * ** ** *
6029643 AAGGAATATTCGATTGTTTTGAA-CAAACGAGAAATCACAACCCAGCACGACAGGGCATGATTCC
1 AAGGGATATTCGATTATTTT-AAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCC
* * * * *
6029707 -CGAATTATCAAACACCG-AGTATTACCTTCGTTTTAAAAGATTTTTAAAAGACCTGAGTGAAAT
65 ACGAATTACCAAACACCGCA-CATCACCTTCG-TTTAAAAGA-TTTTAAAAGACATAAGTGAAAT
6029770 TTTG
127 TTTG
* *
6029774 AAGGGATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
1 AAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCA
* * * * *
6029839 CTAATTGCCAAATATCGCACATCACCTTCGTTTAAGAGATTTTAAAAGACATAAGTGAAATTTTG
66 CGAATTACCAAACACCGCACATCACCTTCGTTTAAAAGATTTTAAAAGACATAAGTGAAATTTTG
* * *
6029904 AAGTGCTATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCG
1 AAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCA
*
6029969 CGAATTGCCAA
66 CGAATTACCAA
6029980 GTATCAAATC
Statistics
Matches: 178, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
130 96 0.54
131 60 0.34
132 21 0.12
133 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (130 bp):
AAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCA
CGAATTACCAAACACCGCACATCACCTTCGTTTAAAAGATTTTAAAAGACATAAGTGAAATTTTG
Found at i:6029997 original size:130 final size:130
Alignment explanation
Indices: 6029500--6030013 Score: 425
Period size: 131 Copynumber: 3.9 Consensus size: 130
6029490 AGGAAATACG
** * * * * *
6029500 AGTGAAATTCCGAAGGGATCTTCGATTGTTTTGAA-CAAATGAAAAAGTT-CAACCCAGCACGAT
1 AGTGAAATTTTGAAGGGATATTCGATTATTTT-AAGCAAACGAGAAA-TTGCAACCCAGCACGTT
* * * * * ** * *
6029563 AGGGCTCGATTCTCAAATCGCCAAACATCAAA-CATCGCCTTCGTTTTGAAAGGTTTTTAATAA-
64 AGGGCACGATTCCCGAATTGCCAAATATCAAATC-TTACCTTCG-TTTAAAAGATTTTTAA-AAG
6029626 ACATGA
126 ACAT-A
* *** * * * ** **
6029632 A-TAAAAACCTAAAGGAATATTCGATTGTTTTGAA-CAAACGAGAAATCACAACCCAGCACGACA
1 AGTGAAATTTTGAAGGGATATTCGATTATTTT-AAGCAAACGAGAAATTGCAACCCAGCACGTTA
* ** * * * * * *
6029695 GGGCATGATTCCCGAATTATCAAACACCGAGTATTACCTTCGTTTTAAAAGATTTTTAAAAGACC
65 GGGCACGATTCCCGAATTGCCAAATATCAAATCTTACCTTCG-TTTAAAAGATTTTTAAAAGACA
*
6029760 TG
129 TA
* *
6029762 AGTGAAATTTTGAAGGGATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAG
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAG
* * *
6029827 GGCACGATTCCACTAATTGCCAAATATCGCACATC--ACCTTCGTTTAAGAGA-TTTTAAAAGAC
66 GGCACGATTCC-CGAATTGCCAAATAT--CAAATCTTACCTTCGTTTAAAAGATTTTTAAAAGAC
6029889 ATA
128 ATA
* *
6029892 AGTGAAATTTTGAAGTGCTATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAG
1 AGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAG
* * *
6029957 GGCACGATTCCGCGAATTGCCAAGTATCAAATCTTGCCTTCGTTTTAAAGAATTTTT
66 GGCACGATTCC-CGAATTGCCAAATATCAAATCTTACCTTCGTTTAAAAG-ATTTTT
6030014 TTGAATGAAT
Statistics
Matches: 305, Mismatches: 65, Indels: 24
0.77 0.16 0.06
Matches are distributed among these distances:
128 5 0.02
130 115 0.38
131 161 0.53
132 22 0.07
134 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (130 bp):
AGTGAAATTTTGAAGGGATATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAG
GGCACGATTCCCGAATTGCCAAATATCAAATCTTACCTTCGTTTAAAAGATTTTTAAAAGACATA
Found at i:6030614 original size:2 final size:2
Alignment explanation
Indices: 6030607--6030631 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6030597 TATGAGGATA
6030607 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6030632 AAGAAATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6032056 original size:19 final size:19
Alignment explanation
Indices: 6032032--6032076 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
6032022 TAATTGGGTA
6032032 TTGGGCTAGAGGGACTGTT
1 TTGGGCTAGAGGGACTGTT
6032051 TTGGGCTAGAGGGACTGTT
1 TTGGGCTAGAGGGACTGTT
6032070 TTGGGCT
1 TTGGGCT
6032077 TGTAATAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.13, C:0.11, G:0.42, T:0.33
Consensus pattern (19 bp):
TTGGGCTAGAGGGACTGTT
Found at i:6033817 original size:40 final size:40
Alignment explanation
Indices: 6033773--6033911 Score: 120
Period size: 40 Copynumber: 3.2 Consensus size: 40
6033763 TGGGTTGTAA
6033773 GGGGTTTGGGCTTCTGTTGGGTTAGTTTAGATGGGTATTT
1 GGGGTTTGGGCTTCTGTTGGGTTAGTTTAGATGGGTATTT
* * * *
6033813 GGGGTTTGGGCTGGTGATATTTGGGCTTAATGGGTTA-AT-GGTTTTGT
1 GGGGTTTGGGCT--T-CT-GTTGGG-TT-A--GTTTAGATGGGTATT-T
6033860 AAGGGGTTTGGGCTTCTGTTGGGTTAGTTTAGATGGGTATTT
1 --GGGGTTTGGGCTTCTGTTGGGTTAGTTTAGATGGGTATTT
*
6033902 AGGGTTTGGG
1 GGGGTTTGGG
6033912 TAAGGGTTGA
Statistics
Matches: 77, Mismatches: 9, Indels: 26
0.69 0.08 0.23
Matches are distributed among these distances:
40 21 0.27
41 4 0.05
42 4 0.05
43 7 0.09
44 7 0.09
45 7 0.09
46 7 0.09
47 4 0.05
48 4 0.05
49 12 0.16
ACGTcount: A:0.12, C:0.04, G:0.41, T:0.42
Consensus pattern (40 bp):
GGGGTTTGGGCTTCTGTTGGGTTAGTTTAGATGGGTATTT
Found at i:6035041 original size:48 final size:48
Alignment explanation
Indices: 6034988--6035089 Score: 186
Period size: 48 Copynumber: 2.1 Consensus size: 48
6034978 CGAAATAGGT
* *
6034988 TGTCGCGACATTGGACTTCGAATATAATTTCTTAGGTTCGAAGTTGGA
1 TGTCGCGACATTGGACTTCGAATATAATTTCTAAGGTTCAAAGTTGGA
6035036 TGTCGCGACATTGGACTTCGAATATAATTTCTAAGGTTCAAAGTTGGA
1 TGTCGCGACATTGGACTTCGAATATAATTTCTAAGGTTCAAAGTTGGA
6035084 TGTCGC
1 TGTCGC
6035090 AACGTTGATG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (48 bp):
TGTCGCGACATTGGACTTCGAATATAATTTCTAAGGTTCAAAGTTGGA
Found at i:6046260 original size:28 final size:29
Alignment explanation
Indices: 6046214--6046270 Score: 107
Period size: 28 Copynumber: 2.0 Consensus size: 29
6046204 TATTTTTTTG
6046214 TCCTTTATTTTTCTTCTCATTTATAAAGT
1 TCCTTTATTTTTCTTCTCATTTATAAAGT
6046243 TCCTTTA-TTTTCTTCTCATTTATAAAGT
1 TCCTTTATTTTTCTTCTCATTTATAAAGT
6046271 CTTTAATCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 21 0.75
29 7 0.25
ACGTcount: A:0.21, C:0.18, G:0.04, T:0.58
Consensus pattern (29 bp):
TCCTTTATTTTTCTTCTCATTTATAAAGT
Found at i:6046432 original size:2 final size:2
Alignment explanation
Indices: 6046425--6046449 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6046415 TTGGTATCAA
6046425 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6046450 CTTTAAACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6049730 original size:15 final size:14
Alignment explanation
Indices: 6049696--6049733 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
6049686 TTAATAATTG
6049696 GAAAATATTTATTT
1 GAAAATATTTATTT
*
6049710 -AAAATATTATTTTT
1 GAAAATATT-TATTT
6049724 GAAAATATTT
1 GAAAATATTT
6049734 CTGTGAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 8 0.38
14 5 0.24
15 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (14 bp):
GAAAATATTTATTT
Found at i:6052040 original size:24 final size:24
Alignment explanation
Indices: 6052007--6052082 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 24
6051997 TACGATAATT
**
6052007 AAAGAAGAAAAGAAAAAGAACCGAA
1 AAAG-AGAAAAGAAAAAGAAAAGAA
6052032 AAAGAGAAAA-AAAAAGAAAAGAA
1 AAAGAGAAAAGAAAAAGAAAAGAA
6052055 AGAAGAGGAAAAGAAAATAGAATAAGAA
1 A-AAGA-GAAAAGAAAA-AGAA-AAGAA
6052083 GAACTAATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
23 12 0.27
24 10 0.23
25 9 0.20
26 4 0.09
27 4 0.09
28 5 0.11
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.03
Consensus pattern (24 bp):
AAAGAGAAAAGAAAAAGAAAAGAA
Found at i:6052084 original size:27 final size:24
Alignment explanation
Indices: 6052012--6052085 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 24
6052002 TAATTAAAGA
** *
6052012 AGAAAAGAAAAAGAACCGAAAAAG
1 AGAAAAGAAAAAGAAAAGAAGAAG
6052036 AGAAAA-AAAAAGAAAAGAAAGAAG
1 AGAAAAGAAAAAGAAAAG-AAGAAG
6052060 AGGAAAAGAAAATAGAATAAGAAGAA
1 A-GAAAAGAAAA-AGAA-AAGAAGAA
6052086 CTAATGTTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 9 0.21
24 12 0.29
25 5 0.12
26 4 0.10
27 9 0.21
28 3 0.07
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.03
Consensus pattern (24 bp):
AGAAAAGAAAAAGAAAAGAAGAAG
Found at i:6053040 original size:21 final size:21
Alignment explanation
Indices: 6053011--6053051 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6053001 TAAATACAAC
*
6053011 AACAGCCCAATTTTCAGTGGT
1 AACAACCCAATTTTCAGTGGT
6053032 AACAACCCAATTTTCAGTGG
1 AACAACCCAATTTTCAGTGG
6053052 CGTTGAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (21 bp):
AACAACCCAATTTTCAGTGGT
Found at i:6054363 original size:26 final size:26
Alignment explanation
Indices: 6054334--6054386 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
6054324 CACTGCACAA
*
6054334 GCGCTAGAGTTTATTTTTGCTCGATT
1 GCGCTAGAGTTTATTTTTGCACGATT
6054360 GCGCTAGAGTTTATTTTTGCACGATT
1 GCGCTAGAGTTTATTTTTGCACGATT
6054386 G
1 G
6054387 ACCGAAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.17, C:0.15, G:0.25, T:0.43
Consensus pattern (26 bp):
GCGCTAGAGTTTATTTTTGCACGATT
Found at i:6057374 original size:13 final size:13
Alignment explanation
Indices: 6057356--6057381 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6057346 TCAAAGAGAT
6057356 AAAAGAAAAATGA
1 AAAAGAAAAATGA
6057369 AAAAGAAAAATGA
1 AAAAGAAAAATGA
6057382 TCTTTCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (13 bp):
AAAAGAAAAATGA
Found at i:6059315 original size:17 final size:18
Alignment explanation
Indices: 6059283--6059322 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
6059273 TGGCCTCTAT
* *
6059283 GGATTTTTCTTAAGTTTG
1 GGATTTTTATTAAGTTAG
6059301 GGATTTTTATT-AGTTAG
1 GGATTTTTATTAAGTTAG
6059318 GGATT
1 GGATT
6059323 ATTACTGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.20, C:0.03, G:0.25, T:0.53
Consensus pattern (18 bp):
GGATTTTTATTAAGTTAG
Found at i:6059641 original size:33 final size:33
Alignment explanation
Indices: 6059599--6059688 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
6059589 GGTGTTACAT
*
6059599 TATGGCAATCTGATCATAATACCATAGCTGGGC
1 TATGGCAATCTGATCATAAGACCATAGCTGGGC
* *
6059632 TATGGCAATCTGATCATAAGACCATAGCTGTGT
1 TATGGCAATCTGATCATAAGACCATAGCTGGGC
* *
6059665 TATAGCAATCTGATTATAAGACCA
1 TATGGCAATCTGATCATAAGACCA
6059689 AAACTAGGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (33 bp):
TATGGCAATCTGATCATAAGACCATAGCTGGGC
Found at i:6064109 original size:7 final size:7
Alignment explanation
Indices: 6064097--6064143 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
6064087 CTTGATTCCA
6064097 AACCCTT
1 AACCCTT
6064104 AACCCTT
1 AACCCTT
6064111 AA-CCTT
1 AACCCTT
*
6064117 AAACCTT
1 AACCCTT
*
6064124 AAACCTT
1 AACCCTT
6064131 AAACCCTT
1 -AACCCTT
6064139 GAACC
1 -AACC
6064144 GAAACCTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 6 0.17
7 20 0.56
8 10 0.28
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.26
Consensus pattern (7 bp):
AACCCTT
Found at i:6064118 original size:13 final size:14
Alignment explanation
Indices: 6064100--6064143 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
6064090 GATTCCAAAC
6064100 CCTTAACCCTT-AA
1 CCTTAACCCTTAAA
*
6064113 CCTTAAACCTTAAA
1 CCTTAACCCTTAAA
*
6064127 CCTTAAACCCTTGAA
1 CCTT-AACCCTTAAA
6064142 CC
1 CC
6064144 GAAACCTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 10 0.38
14 6 0.23
15 10 0.38
ACGTcount: A:0.34, C:0.36, G:0.02, T:0.27
Consensus pattern (14 bp):
CCTTAACCCTTAAA
Found at i:6064121 original size:14 final size:15
Alignment explanation
Indices: 6064100--6064192 Score: 63
Period size: 14 Copynumber: 6.6 Consensus size: 15
6064090 GATTCCAAAC
6064100 CCTT-AACCCTT-AA
1 CCTTAAACCCTTAAA
6064113 CCTTAAA-CCTTAAA
1 CCTTAAACCCTTAAA
*
6064127 CCTTAAACCCTTGAA
1 CCTTAAACCCTTAAA
* *
6064142 CC-GAAA-CCTCAAA
1 CCTTAAACCCTTAAA
* *
6064155 CCTCAAACCCAT-AA
1 CCTTAAACCCTTAAA
* * *
6064169 CTTTGAACTCTTAAA
1 CCTTAAACCCTTAAA
*
6064184 CCTTGAACC
1 CCTTAAACC
6064193 TATCTTGAAC
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
13 15 0.25
14 26 0.43
15 19 0.32
ACGTcount: A:0.37, C:0.34, G:0.04, T:0.25
Consensus pattern (15 bp):
CCTTAAACCCTTAAA
Found at i:6064128 original size:28 final size:29
Alignment explanation
Indices: 6064095--6064164 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
6064085 AACTTGATTC
*
6064095 CAAACCCTT-AACCCTT-AACCTTAAACCT
1 CAAACCCTTAAACCCTTGAACC-GAAACCT
*
6064123 TAAA-CCTTAAACCCTTGAACCGAAACCT
1 CAAACCCTTAAACCCTTGAACCGAAACCT
*
6064151 CAAA-CCTCAAACCC
1 CAAACCCTTAAACCC
6064165 ATAACTTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 4 0.11
28 28 0.78
29 4 0.11
ACGTcount: A:0.39, C:0.39, G:0.03, T:0.20
Consensus pattern (29 bp):
CAAACCCTTAAACCCTTGAACCGAAACCT
Found at i:6073441 original size:11 final size:12
Alignment explanation
Indices: 6073425--6073453 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
6073415 CGCCACGTTC
6073425 TATCTTTCCA-T
1 TATCTTTCCATT
6073436 TATCTTTCCATT
1 TATCTTTCCATT
6073448 TATCTT
1 TATCTT
6073454 CTTTATTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
TATCTTTCCATT
Found at i:6075278 original size:18 final size:19
Alignment explanation
Indices: 6075245--6075280 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6075235 GATATGATAC
*
6075245 TAAAATTATTTAAAAAAAT
1 TAAAATTATATAAAAAAAT
6075264 TAAAA-TATATAAAAAAA
1 TAAAATTATATAAAAAAA
6075281 ATCAGGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATTATATAAAAAAAT
Found at i:6075596 original size:19 final size:19
Alignment explanation
Indices: 6075572--6075662 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
6075562 AATCATATTT
6075572 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
6075591 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
6075609 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
6075626 TCTACGATTGCATATCATA
1 TCTAAGATTGCATATCATA
6075645 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
6075663 TAAATATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 16 0.24
19 36 0.54
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:6075628 original size:35 final size:37
Alignment explanation
Indices: 6075572--6075662 Score: 141
Period size: 35 Copynumber: 2.5 Consensus size: 37
6075562 AATCATATTT
6075572 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCATATCATA
*
6075609 TCTAAGATTG-TATCATATCTACGATTGCATATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCATATCATA
6075645 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
6075663 TAAATATTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 18 0.36
36 16 0.32
37 10 0.20
38 6 0.12
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.37
Consensus pattern (37 bp):
TCTAAGATTGATATCATATCTAAGATTGCATATCATA
Found at i:6075818 original size:21 final size:20
Alignment explanation
Indices: 6075781--6075819 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
6075771 TTGGACTTCG
**
6075781 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
6075801 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
6075820 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:6080125 original size:40 final size:40
Alignment explanation
Indices: 6080072--6080469 Score: 645
Period size: 40 Copynumber: 10.0 Consensus size: 40
6080062 TTGAGAGTTA
* *
6080072 TATATCTGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
6080112 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
6080152 TATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
6080192 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
6080232 TATATCCGGGCTAAGT-CCGAAGAGCATTTGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
6080271 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
6080311 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
** * * *
6080351 TATATCTAGGCTAAGTCTCGAAGAGCATTCGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
6080391 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
6080431 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
6080470 ATGTGTATTC
Statistics
Matches: 333, Mismatches: 24, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
39 37 0.11
40 296 0.89
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:6080411 original size:199 final size:200
Alignment explanation
Indices: 6080071--6080471 Score: 662
Period size: 199 Copynumber: 2.0 Consensus size: 200
6080061 ATTGAGAGTT
* *
6080071 ATATATCTGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGA
1 ATATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGATATATCCGGGCTAAGTCCCGAAGA
* * * *
6080136 GCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTGGTGTTATATCCGG
66 GCATTCGTGCTGGTGTTATATCCAGGCTAAGTCCTGAAGAGCATTCGTGCTAGAGTTATATCAGG
* **
6080201 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGT-CCGAAGAGCATTTGTGC
131 GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCAATCATGC
6080265 TGGTG
196 TGGTG
*
6080270 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATATATCCGGGCTAAGTCCCGAAGA
1 ATATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGATATATCCGGGCTAAGTCCCGAAGA
*
6080335 GCATTCGTGCTGGTGTTATATCTAGGCTAAGT-CTCGAAGAGCATTCGTGCTAGAGTTATATCAG
66 GCATTCGTGCTGGTGTTATATCCAGGCTAAGTCCT-GAAGAGCATTCGTGCTAGAGTTATATCAG
* *
6080399 GGTTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAATCATG
130 GGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCAATCATG
6080464 CTGGTG
195 CTGGTG
6080470 AT
1 AT
6080472 GTGTATTCGG
Statistics
Matches: 187, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
198 2 0.01
199 164 0.88
200 21 0.11
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (200 bp):
ATATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGATATATCCGGGCTAAGTCCCGAAGA
GCATTCGTGCTGGTGTTATATCCAGGCTAAGTCCTGAAGAGCATTCGTGCTAGAGTTATATCAGG
GCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCAATCATGC
TGGTG
Found at i:6080683 original size:25 final size:25
Alignment explanation
Indices: 6080633--6080683 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
6080623 TGTGTAACAA
* *
6080633 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
6080658 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
6080683 C
1 C
6080684 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:6085461 original size:45 final size:45
Alignment explanation
Indices: 6085406--6085606 Score: 251
Period size: 45 Copynumber: 4.5 Consensus size: 45
6085396 GAAAGGTGAT
* * *
6085406 ATCTGCTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGTCTAATACAGAGACGCCAA
*
6085451 ATCTGTTATCTTCGATCTGCTCTCTGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGTCTAATACAGAGACGCCAA
* * *
6085496 ATCTGCT-TCTTCAATCTGCTCTCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGTCTAATACAGAGACGCCAA
* * * * *
6085540 ATCTGTTATCTCCGATTTGCTCCCCCGTCTAGTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCT-CTCCGTCTAATACAGAGACGCCAA
* * *
6085586 ATATGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
6085607 TTGATGTAAA
Statistics
Matches: 137, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
44 40 0.29
45 59 0.43
46 38 0.28
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.33
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCTCCGTCTAATACAGAGACGCCAA
Found at i:6085524 original size:44 final size:45
Alignment explanation
Indices: 6085406--6085676 Score: 248
Period size: 45 Copynumber: 6.0 Consensus size: 45
6085396 GAAAGGTGAT
* *
6085406 ATCTGCTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGTCTAATACAGAGACGCCAA
* *
6085451 ATCTGTTATCTTCGATCTGCTCTCTGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGTCTAATACAGAGACGCCAA
* *
6085496 ATCTGCT-TCTTCAATCTGCTCTCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCCGTCTAATACAGAGACGCCAA
* * * * * *
6085540 ATCTGTTATCTCCGATTTGCTCCCCCGTCTAGTACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCT-CTCCGTCTAATACAGAGACGCCAA
* * * * * * * *
6085586 ATATG-TCATCTTGGATCTGCT-T-TGATGTAA-ACACATGAAGGTCAG
1 ATCTGCT-ATCTTCGATCTGCTCTCCG-TCTAATACAGA-G-ACGCCAA
*
6085631 ATCTGCTATGTCTTCGATCTGCTC-CCGTCTAATACAGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCTCTCCGTCTAATACAGAGACGCCAA
6085677 TCATCTTGGA
Statistics
Matches: 182, Mismatches: 32, Indels: 23
0.77 0.14 0.10
Matches are distributed among these distances:
43 5 0.03
44 44 0.24
45 69 0.38
46 42 0.23
47 17 0.09
48 5 0.03
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCTCCGTCTAATACAGAGACGCCAA
Found at i:6085530 original size:89 final size:91
Alignment explanation
Indices: 6085406--6085587 Score: 260
Period size: 89 Copynumber: 2.0 Consensus size: 91
6085396 GAAAGGTGAT
** * *
6085406 ATCTGCTATCTTTGATCTGCTCTCTGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGC
* *
6085471 T-CTCTGTCTAATACAGAGACGCCAA
66 TCCCCCGTCTAATACAGAGACGCCAA
* *
6085496 ATCTGCT-TCTTCAATCTGCTCTCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGC
1 ATCTGCTATCTTCAATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGC
* *
6085560 TCCCCCGTCTAGTACAGAGATGCCAA
66 TCCCCCGTCTAATACAGAGACGCCAA
6085586 AT
1 AT
6085588 ATGTCATCTT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 52 0.64
90 29 0.36
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (91 bp):
ATCTGCTATCTTCAATCTGCTCTCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGC
TCCCCCGTCTAATACAGAGACGCCAA
Found at i:6085780 original size:78 final size:78
Alignment explanation
Indices: 6085620--6086065 Score: 632
Period size: 78 Copynumber: 5.8 Consensus size: 78
6085610 ATGTAAACAC
6085620 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCC-AATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
6085683 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * *
6085696 ATGAAGGTCCA-ATTTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
6085760 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * *
6085774 TTGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCATCTAATACAAAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
6085839 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * **
6085852 ATGAAGGTCAGATCTGCTATGTCTTCGATTTGCT-TCCGTCGAATATGGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
6085916 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
6085929 ATAAAGGTCA-ATCTGCTGTGTTTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
6085993 TGGAACTGCTTCA
66 TGGATCTGCTTCA
* * * * ** *
6086006 ATGAAGGTCAGATCTACTATGTCTTCGATCAGCTCTCCGTCGAATATGGAGATGCGAAAT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
6086066 TTGTTTCTTC
Statistics
Matches: 325, Mismatches: 39, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
76 48 0.15
77 118 0.36
78 159 0.49
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:6085986 original size:154 final size:156
Alignment explanation
Indices: 6085623--6086065 Score: 671
Period size: 154 Copynumber: 2.9 Consensus size: 156
6085613 TAAACACATG
*
6085623 AAGGTCAGATCTGCTATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCC-AATCATCTTGG
1 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
* * * * * * **
6085686 ATCTACTTCAATGAAGGTCCA-ATTTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATG
66 ATCTGCTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATG
* *
6085750 CCAAATCATCTTGGATCTGCTTCATTG
130 CCAAATCATCTTGGATCTGCTTCAATA
* *
6085777 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCATCTAATACAAAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
*
6085842 ATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATTTGCT-TCCGTCGAATATGGAGATGC
66 ATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGC
6085906 CAAATCATCTTGGATCTGCTTCAATA
131 CAAATCATCTTGGATCTGCTTCAATA
*
6085932 AAGGTCA-ATCTGCTGTGTTTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
* * *
6085996 AACTGCTTCAATGAAGGTCAGATCTACTATGTCTTCGATCAGCTCTCCGTCGAATATGGAGATGC
66 ATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGC
*
6086061 GAAAT
131 CAAAT
6086066 TTGTTTCTTC
Statistics
Matches: 263, Mismatches: 22, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
154 124 0.47
155 92 0.35
156 47 0.18
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (156 bp):
AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
ATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGC
CAAATCATCTTGGATCTGCTTCAATA
Found at i:6086031 original size:232 final size:232
Alignment explanation
Indices: 6085620--6086040 Score: 675
Period size: 232 Copynumber: 1.8 Consensus size: 232
6085610 ATGTAAACAC
*
6085620 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCGTCTAATACAGAGATGCCAATCATCTTG
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCGTCGAATACAGAGATGCCAATCATCTTG
* * *
6085685 GATCTACTTCAATGAAGGTCCAATTTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATG
66 GATCTACTTCAATAAAGGTCCAATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATG
* * * * *
6085750 CCAAATCATCTTGGATCTGCTTCATTGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCATC
131 CCAAATCATCTTGGAACTGCTTCAATGAAGGTCAGATCTACTATGTCTTCGATCAGCTCCCCATC
6085815 TAATACAAAGATGCCAAATCATCTTGGATCTGCTTCA
196 TAATACAAAGATGCCAAATCATCTTGGATCTGCTTCA
* * **
6085852 ATGAAGGTCAGATCTGCTATGTCTTCGATTTGCTTCCGTCGAATATGGAGATGCCAAATCATCTT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCGTCGAATACAGAGATGCC-AATCATCTT
* *
6085917 GGATCTGCTTCAATAAAGGT-CAATCTGCTGTGT-TTTCGATCTGCTCCCCGTCTAATACAGAGA
65 GGATCTACTTCAATAAAGGTCCAATCTGCTATGTCTTT-GATCTGCTCCCCGTCTAATACAGAGA
6085980 TGCCAAATCATCTTGGAACTGCTTCAATGAAGGTCAGATCTACTATGTCTTCGATCAGCTC
129 TGCCAAATCATCTTGGAACTGCTTCAATGAAGGTCAGATCTACTATGTCTTCGATCAGCTC
6086041 TCCGTCGAAT
Statistics
Matches: 172, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
231 3 0.02
232 142 0.83
233 27 0.16
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (232 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCGTCGAATACAGAGATGCCAATCATCTTG
GATCTACTTCAATAAAGGTCCAATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATG
CCAAATCATCTTGGAACTGCTTCAATGAAGGTCAGATCTACTATGTCTTCGATCAGCTCCCCATC
TAATACAAAGATGCCAAATCATCTTGGATCTGCTTCA
Found at i:6093092 original size:70 final size:69
Alignment explanation
Indices: 6092973--6093394 Score: 396
Period size: 70 Copynumber: 6.2 Consensus size: 69
6092963 GAGTTAAGCC
* *
6092973 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
6093037 TGAGGTA
63 TGAGGTA
* * ** *
6093044 TTTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTCAATTTTTGT-TTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
6093109 AGGTA
65 AGGTA
* *
6093114 TTTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCT
1 TTTTCAATTTTTGTTTT--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCT
6093179 GAGGTA
64 GAGGTA
* * ** * ***
6093185 TTTT-AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT-TTTA-A---T--
1 TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
6093242 --T-
66 GGTA
** * *
6093243 TTTGT---TTTTCA----AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTG
1 TTT-TCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
6093301 AGGTA
65 AGGTA
* * *
6093306 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAA-TTTT-TGTTTTAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
6093371 TGAGGTA
63 TGAGGTA
*
6093378 TTTTCAATTTCTGTTTT
1 TTTTCAATTTTTGTTTT
6093395 CAATTTACGT
Statistics
Matches: 285, Mismatches: 41, Indels: 51
0.76 0.11 0.14
Matches are distributed among these distances:
53 31 0.11
55 1 0.00
57 3 0.01
58 4 0.01
59 2 0.01
62 2 0.01
63 4 0.01
66 5 0.02
67 1 0.00
68 31 0.11
69 3 0.01
70 74 0.26
71 60 0.21
72 64 0.22
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.39
Consensus pattern (69 bp):
TTTTCAATTTTTGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
GGTA
Found at i:6093280 original size:121 final size:123
Alignment explanation
Indices: 6093115--6093360 Score: 381
Period size: 121 Copynumber: 2.0 Consensus size: 123
6093105 GTTGAGGTAT
6093115 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTG
*
6093180 AGGTATTTT-A-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* * *
6093235 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCT
* * * *
6093300 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTT-AATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
6093360 T
1 T
6093361 CAGGTCACGC
Statistics
Matches: 113, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
120 12 0.11
121 59 0.52
123 1 0.01
124 13 0.12
125 28 0.25
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (123 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTG
AGGTATTTTAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:6093320 original size:262 final size:257
Alignment explanation
Indices: 6092806--6093397 Score: 1058
Period size: 262 Copynumber: 2.3 Consensus size: 257
6092796 TTTCAAGGAA
*
6092806 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
6092871 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
6092936 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
6093001 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
6093063 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
6093128 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTAGTT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTA--TT--TT
6093193 TATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAT
127 TA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAT
6093258 CAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTT
191 CAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTT
6093323 TT
256 TT
* * * * * *
6093325 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
6093390 GTTTTCAA
64 GTTTTCAA
6093398 TTTACGTTGT
Statistics
Matches: 321, Mismatches: 7, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
257 121 0.38
259 2 0.01
261 4 0.01
262 131 0.41
264 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:6093356 original size:72 final size:71
Alignment explanation
Indices: 6093235--6093400 Score: 244
Period size: 72 Copynumber: 2.3 Consensus size: 71
6093225 GAGTTAAGCC
** * *
6093235 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
6093299 TGAGGTA
65 TGAGGTA
*
6093306 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
6093371 TGAGGTA
65 TGAGGTA
* *
6093378 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
6093401 ACGTTGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 12 0.14
72 70 0.81
73 4 0.05
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:6093731 original size:74 final size:76
Alignment explanation
Indices: 6093625--6093769 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 76
6093615 TTTTTGCCTT
*
6093625 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG-CTGAGGTAATTT
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTC-GAGGTAATTT
6093687 CAATTTCTATTG
65 CAATTTCTATTG
* * *
6093699 TCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTC
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
6093764 AATTTC
66 AATTTC
6093770 CATTTTTCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 42 0.66
76 21 0.33
77 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (76 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAATTTC
AATTTCTATTG
Found at i:6093737 original size:165 final size:166
Alignment explanation
Indices: 6093465--6093943 Score: 698
Period size: 165 Copynumber: 2.9 Consensus size: 166
6093455 CTACTTTTTC
6093465 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
6093530 GTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
* *
6093595 TTTCAATTTCCGTTTTTCAATTTTTGCCTTTC-AAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
6093630 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * *
6093695 ATTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
6093760 TTTCAATTTCCATTTTTCAATTTCTGCATTTCAAAAAAAAAA
131 TTTCAATTTCCGTTTTTCAATTTCTGCATTTC------AAAA
*
6093802 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * ** * *
6093867 GTTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
66 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
*
6093928 TTTCAATTTCTGTTTT
131 TTTCAATTTCCGTTTT
6093944 CAAAAAATCA
Statistics
Matches: 285, Mismatches: 22, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
165 153 0.54
168 27 0.09
170 34 0.12
172 71 0.25
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (166 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTCGAGGTAT
TTTCAATTTCCGTTTTTCAATTTCTGCATTTCAAAA
Found at i:6093884 original size:72 final size:73
Alignment explanation
Indices: 6093800--6094306 Score: 406
Period size: 72 Copynumber: 6.5 Consensus size: 73
6093790 TCAAAAAAAA
*
6093800 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
6093865 CTGTTTTC
66 CTGTTTTC
* * ** ** *
6093873 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
6093937 CTGTTTTC
66 CTGTTTTC
* * * ** *
6093945 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
6094010 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
6094021 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
6094086 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
6094100 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
6094164 AAATCTGTTTTTC
62 ATTTCTG-TTTTC
* * **
6094177 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 --A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGA
*
6094242 GCTATTTTCAATTTCTGTTTTTTTTTC
52 GGTATTTTCAATTTCTG-----TTTTC
6094269 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
6094307 TTTTTAATTT
Statistics
Matches: 348, Mismatches: 53, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
72 64 0.18
73 33 0.09
75 21 0.06
76 4 0.01
77 57 0.16
78 5 0.01
79 64 0.18
80 1 0.00
81 5 0.01
82 29 0.08
86 2 0.01
88 54 0.16
89 1 0.00
91 2 0.01
92 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:6094123 original size:79 final size:76
Alignment explanation
Indices: 6093799--6094516 Score: 427
Period size: 88 Copynumber: 9.0 Consensus size: 76
6093789 TTCAAAAAAA
** *
6093799 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
6093862 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * *
6093873 --AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
6093934 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** *
6093945 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
6094009 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
6094021 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
6094086 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
6094100 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
6094164 AAATCTGTTTTTC
65 ATTTCTG-TTTTC
* ** * **
6094177 AAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 -AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
6094242 GCTATTTTCAATTTCTGTTTTTTTTTC
55 GGTATTTTCAATTTCTG-----TTTTC
* * * * * *
6094269 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
6094333 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
6094356 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
6094417 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
6094431 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
6094496 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
6094517 TAATGTCTAT
Statistics
Matches: 503, Mismatches: 84, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
72 64 0.13
73 31 0.06
75 36 0.07
76 5 0.01
77 63 0.13
78 7 0.01
79 64 0.13
80 2 0.00
81 7 0.01
82 30 0.06
83 1 0.00
84 31 0.06
85 7 0.01
86 1 0.00
87 11 0.02
88 120 0.24
89 3 0.01
90 1 0.00
91 13 0.03
92 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:6094177 original size:14 final size:13
Alignment explanation
Indices: 6094158--6094193 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
6094148 TGTCGAGGTA
6094158 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
6094171 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
6094185 TTTTCAAAA
1 TTTTCAAAA
6094194 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:6094278 original size:399 final size:392
Alignment explanation
Indices: 6093460--6094306 Score: 940
Period size: 399 Copynumber: 2.1 Consensus size: 392
6093450 AATTTCTACT
*
6093460 TTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* * *
6093524 ATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCG
66 ATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGACCCTCAGGTCACACGCCG
*
6093589 AGGTATTTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGG
131 AGCTATTTTCAATTTCC----TT-AA---TT-CCTTTCAAAAAAATCAACTCATATTGCGAGAGG
* * * * **
6093654 TGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATTGTCAAAAAAGTCAACTCGTAT
187 TGAGTTGAGCCTCAGCACACACTGAGGTAATTTCAATTTATATTGTCAAAAAAATCAACTCACAT
** *
6093719 TGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCCATTTTTCAATTTC
252 TGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAAAATCCATTTTTCAAATTC
* *
6093784 TGCATTTCAAAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCT
317 TGCATTTC--------AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCACACGCT
*
6093849 GAGGTAATTTCAATTTCTG
374 GAGCTAATTTCAATTTCTG
* ** * *
6093868 TTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* * * * ** *
6093933 ATTTCTGTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTCATGCGCT
66 ATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGACCCTCAGG-TCACACGCC
6093996 GAGCTATTTTCAATTT-C-T-A-T-CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
130 GAGCTATTTTCAATTTCCTTAATTCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * *
6094056 GCTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGC
195 GCCTCAG--CACACACTGAGGTA--ATTTCAATTTATA-TTGTCAAAAAAATCAACTCACATTGC
* * * * * **
6094121 GAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTG-
255 GAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAAAATCCATTTTTCAAATTCTGC
* * * *
6094185 TTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTT
320 ATTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCACAC--GCTGAGCTAATT
6094249 TCAATTTCTG
383 TCAATTTCTG
6094259 TTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -----TTTTC---AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
6094307 TTTTTAATTT
Statistics
Matches: 376, Mismatches: 46, Indels: 43
0.81 0.10 0.09
Matches are distributed among these distances:
389 41 0.11
391 20 0.05
394 46 0.12
396 18 0.05
398 15 0.04
399 108 0.29
400 1 0.00
402 1 0.00
407 3 0.01
408 63 0.17
409 60 0.16
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (392 bp):
TTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
ATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGACCCTCAGGTCACACGCCG
AGCTATTTTCAATTTCCTTAATTCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCAGCACACACTGAGGTAATTTCAATTTATATTGTCAAAAAAATCAACTCACATTGCGAGAGG
TGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAAAATCCATTTTTCAAATTCTGCATTTCA
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCACACGCTGAGCTAATTTCAATTTC
TG
Found at i:6094324 original size:30 final size:30
Alignment explanation
Indices: 6094288--6094349 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
6094278 CAACTCATAT
6094288 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
6094318 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
6094348 TG
1 TG
6094350 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:6094450 original size:254 final size:248
Alignment explanation
Indices: 6093939--6094517 Score: 762
Period size: 254 Copynumber: 2.3 Consensus size: 248
6093929 TTCAATTTCT
* * *
6093939 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
6094004 TTCAATTTC----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
66 TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
* *
6094065 CACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGA
131 CACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGA
* ** * * * **
6094130 GTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCT
195 GTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
* *
6094184 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
6094248 TTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA
66 TTCAATTTCTGTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCA
* * * * * * *
6094313 -ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGC
128 GA--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGC
*
6094375 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 GAGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
6094438 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
6094502 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
6094518 AATGTCTATT
Statistics
Matches: 291, Mismatches: 28, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
248 13 0.04
249 30 0.10
250 1 0.00
251 3 0.01
252 2 0.01
253 5 0.02
254 146 0.50
255 5 0.02
256 13 0.04
257 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (248 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGAT
CACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAG
TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTAA
Found at i:6095184 original size:17 final size:17
Alignment explanation
Indices: 6095164--6095199 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6095154 AACCTAACCC
*
6095164 AAAAAAAA-ACAAAGAA
1 AAAAAAAAGAAAAAGAA
6095180 AAAAAAAAGAAAAAGAA
1 AAAAAAAAGAAAAAGAA
6095197 AAA
1 AAA
6095200 CCTACCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAA
Found at i:6095198 original size:11 final size:11
Alignment explanation
Indices: 6095166--6095199 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
6095156 CCTAACCCAA
6095166 AAAAAAACAAAG
1 AAAAAAA-AAAG
6095178 AAAAAAAAAAG
1 AAAAAAAAAAG
6095189 AAAAAGAAAAA
1 AAAAA-AAAAA
6095200 CCTACCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:6095213 original size:15 final size:17
Alignment explanation
Indices: 6095195--6095231 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
6095185 AAAGAAAAAG
6095195 AAAAACCT-A-CCCCAA
1 AAAAACCTAACCCCCAA
6095210 AAAAACCTAACCCCCAA
1 AAAAACCTAACCCCCAA
6095227 AAAAA
1 AAAAA
6095232 AAAGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 11 0.55
ACGTcount: A:0.59, C:0.35, G:0.00, T:0.05
Consensus pattern (17 bp):
AAAAACCTAACCCCCAA
Found at i:6096058 original size:11 final size:11
Alignment explanation
Indices: 6096040--6096069 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6096030 GTGTATATTG
6096040 TATATATTATA
1 TATATATTATA
*
6096051 TTTATATTATA
1 TATATATTATA
6096062 TATATATT
1 TATATATT
6096070 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:6098603 original size:12 final size:12
Alignment explanation
Indices: 6098586--6098610 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6098576 TTGGGTTAGT
6098586 GTTTTGGGCTAA
1 GTTTTGGGCTAA
6098598 GTTTTGGGCTAA
1 GTTTTGGGCTAA
6098610 G
1 G
6098611 GGTTTTGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (12 bp):
GTTTTGGGCTAA
Found at i:6099286 original size:43 final size:43
Alignment explanation
Indices: 6099140--6099291 Score: 135
Period size: 44 Copynumber: 3.5 Consensus size: 43
6099130 CATCTTTGAT
* * * * *
6099140 CTGTTTCCCTGCTGCTTAGGGTGATAAGATCTATAAACTTTAGC
1 CTGTTACCCTACTGCTTAGGGTGATAAGATCTGTGAA-TTTAAC
* * * * ** * *
6099184 TTGTTACCCTACTGCTTAGGGGGTTAAAGTTC-GTTGCCTTTGAT
1 CTGTTACCCTACTGCTTAGGGTGAT-AAGATCTG-TGAATTTAAC
* *
6099228 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTGAATTCAAC
1 CTGTTACCCTACTGCTTAGGGTGATAAGATCTGTGAATTTAAC
6099271 CTGTTACCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGG
6099292 GGTTTAAGGT
Statistics
Matches: 81, Mismatches: 24, Indels: 7
0.72 0.21 0.06
Matches are distributed among these distances:
43 30 0.37
44 45 0.56
45 6 0.07
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGTGATAAGATCTGTGAATTTAAC
Found at i:6099389 original size:43 final size:44
Alignment explanation
Indices: 6099314--6099431 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 44
6099304 GTAAATTTAG
* * * *
6099314 TCTGCTCCACTGCGACTTCAGGGAGATGAGACTTGTAACTTCAG
1 TCTGCTTCACTGCGACTTCAGGGAGATAAGACTAGTAACTTCAA
* * *
6099358 TTTGCTTCACTGC-ACTTTAGGGAGATAAGACTAGTGACTTCAA
1 TCTGCTTCACTGCGACTTCAGGGAGATAAGACTAGTAACTTCAA
* * * *
6099401 TCTGCTTCGCTGAGACTTCAGGAAGACAAGA
1 TCTGCTTCACTGCGACTTCAGGGAGATAAGA
6099432 TTTGCTGGAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 35 0.58
44 25 0.42
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTGCTTCACTGCGACTTCAGGGAGATAAGACTAGTAACTTCAA
Found at i:6099531 original size:45 final size:45
Alignment explanation
Indices: 6099477--6099656 Score: 147
Period size: 45 Copynumber: 4.1 Consensus size: 45
6099467 AGAGACGAGA
*
6099477 TCTGT-AATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
1 TCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
* * * * *
6099521 TCTGTAAAT-TT-GGCTTGTTACCCTACTACTTAAGGGGTTAAAG
1 TCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
* * * * * * * *
6099564 -CT-CATCATCCTC-GATCTGTTTCCCTACTGCTTAGGGTGATAAGA
1 TCTGTA-AATCTTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGG
* **
6099608 TCCGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGATTTAAGG
1 TCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
6099653 TCTG
1 TCTG
6099657 GTGAATTTAC
Statistics
Matches: 100, Mismatches: 28, Indels: 15
0.70 0.20 0.10
Matches are distributed among these distances:
41 1 0.01
42 4 0.04
43 29 0.29
44 28 0.28
45 36 0.36
46 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (45 bp):
TCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
Found at i:6100916 original size:26 final size:26
Alignment explanation
Indices: 6100870--6100922 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6100860 TCAAACATGC
*
6100870 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
6100896 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
6100922 A
1 A
6100923 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:6102438 original size:26 final size:26
Alignment explanation
Indices: 6102407--6102514 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
6102397 TGAAATTCCC
*
6102407 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
6102433 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
6102459 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
6102485 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6102511 ATCA
1 ATCA
6102515 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6114385 original size:2 final size:2
Alignment explanation
Indices: 6114378--6114402 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6114368 AGTAAAAGTA
6114378 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6114403 ATGTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6114813 original size:13 final size:12
Alignment explanation
Indices: 6114758--6114818 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 12
6114748 TAGTTGTAAA
6114758 AATATATATAAT
1 AATATATATAAT
*
6114770 AAAATATATGAAT
1 AATATATAT-AAT
* *
6114783 AATATGATATTTAC
1 AATAT-ATA-TAAT
6114797 AATATATATACAT
1 AATATATATA-AT
6114810 AATATATAT
1 AATATATAT
6114819 GATATGTATG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
12 9 0.23
13 20 0.51
14 9 0.23
15 1 0.03
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (12 bp):
AATATATATAAT
Found at i:6114917 original size:2 final size:2
Alignment explanation
Indices: 6114866--6114900 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6114856 TATGGAGTAT
6114866 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6114901 TAAAAGGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6115096 original size:22 final size:21
Alignment explanation
Indices: 6115047--6115101 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
6115037 GTAGATAAAA
*
6115047 AAATGTATATAATATGGTATT
1 AAATGTATATAATATAGTATT
*
6115068 AATATGTGTATAATATAGTATTT
1 AA-ATGTATATAATATAGTA-TT
6115091 AAATGTATATA
1 AAATGTATATA
6115102 CATAATGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 23 0.79
23 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (21 bp):
AAATGTATATAATATAGTATT
Found at i:6116510 original size:13 final size:14
Alignment explanation
Indices: 6116494--6116528 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
6116484 TTGGGTTAGT
6116494 GTTTTGGGCTAA-A
1 GTTTTGGGCTAAGA
*
6116507 GTTTTGGGCTAAGG
1 GTTTTGGGCTAAGA
6116521 GTTTTGGG
1 GTTTTGGG
6116529 TTTGTATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.14, C:0.06, G:0.40, T:0.40
Consensus pattern (14 bp):
GTTTTGGGCTAAGA
Found at i:6124498 original size:27 final size:28
Alignment explanation
Indices: 6124461--6124600 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
6124451 AGCATGGCTG
*
6124461 CCAGA-ACAGATA-ATGTGACAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
6124487 CCAGATACAGATA-ATCATGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
6124515 CCAGA-ATAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
6124542 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
6124569 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
6124596 CCAGA
1 CCAGA
6124601 ACGCTTCCTC
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.05
27 81 0.79
28 17 0.17
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:6126256 original size:26 final size:26
Alignment explanation
Indices: 6126220--6126329 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
6126210 CATGAAATTC
6126220 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
6126246 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6126272 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
6126298 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
6126324 TTATCA
1 TTATCA
6126330 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Done.