Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 97 of 230
Found at i:27386101 original size:17 final size:17
Alignment explanation
Indices: 27386054--27386101 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
27386044 CCTATTCCTA
**
27386054 AAAAATAAAAATTGTCC
1 AAAAATAAAAATAATCC
* **
27386071 AAAATTAATTATAATCC
1 AAAAATAAAAATAATCC
27386088 AAAAATAAAAATAA
1 AAAAATAAAAATAA
27386102 AAAGTTTGGG
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAAATAAAAATAATCC
Found at i:27409125 original size:16 final size:16
Alignment explanation
Indices: 27409106--27409151 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
27409096 GTTGTATTGG
27409106 AATAGAGGTGTAATGA
1 AATAGAGGTGTAATGA
*
27409122 AATAGAGGTGTAATGG
1 AATAGAGGTGTAATGA
*
27409138 ATTAGAGGTGTAAT
1 AATAGAGGTGTAAT
27409152 AACAAATCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.28
Consensus pattern (16 bp):
AATAGAGGTGTAATGA
Found at i:27409402 original size:16 final size:16
Alignment explanation
Indices: 27409365--27409406 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27409355 TTAATCATAT
*
27409365 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
27409381 TT-AAATATATTATAA
1 TTAAAATATATTATAA
27409396 TTAAAATATAT
1 TTAAAATATAT
27409407 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:27409413 original size:14 final size:15
Alignment explanation
Indices: 27409374--27409415 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27409364 TTTAAACATA
*
27409374 ATTATTATTAAATAT
1 ATTATAATTAAATAT
27409389 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
27409403 A-TATAATTTAATA
1 ATTATAATTAAATA
27409416 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:27409513 original size:120 final size:120
Alignment explanation
Indices: 27409368--27410170 Score: 1473
Period size: 120 Copynumber: 6.7 Consensus size: 120
27409358 ATCATATTTA
27409368 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
* *
27409433 TATTCTTATATGAATTTACTGAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
27409488 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
27409553 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
27409608 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
27409673 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
27409728 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
27409793 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
27409848 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
27409913 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
27409968 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
*
27410033 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* * * * *
27410088 AACATAATTATTATTAAATATATTATAATTAAAATATATTAGTTATTTAAATTCTTGAT-AATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAAT-A
* *
27410152 ATTTTCTTATATGAATTTA
65 ATATTCTTATATTAATTTA
27410171 TACAATTTAA
Statistics
Matches: 669, Mismatches: 13, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
119 2 0.00
120 667 1.00
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:27409533 original size:14 final size:15
Alignment explanation
Indices: 27409484--27410015 Score: 80
Period size: 15 Copynumber: 35.6 Consensus size: 15
27409474 ATAAAATATA
27409484 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
27409499 TATTAAATATATTAT
1 AATTAAATATATTAT
*
27409514 AATTAAAATATATAATTT
1 AATT-AAATATAT--TAT
* *
27409532 AATAAAAT-TCTTAAT
1 AATTAAATATATT-AT
*
27409547 AATT-AATATTCTTAT
1 AATTAAATA-TATTAT
* *
27409562 -ATT-AATTTACTCA-
1 AATTAAATATA-TTAT
* *
27409575 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
27409591 ACTATAAA-ATA-TA-
1 AAT-TAAATATATTAT
27409604 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
27409619 TATTAAATATATTAT
1 AATTAAATATATTAT
27409634 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
* * *
27409647 AATTTAATAAAATTCTT
1 AATTAAAT-ATATT-AT
*
27409664 AA-TAAATAATATTCTT
1 AATTAAAT-ATATT-AT
* *
27409680 ATATT-AATTTACTCA-
1 A-ATTAAATATA-TTAT
* *
27409695 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
27409711 ACTATAAA-ATA-TA-
1 AAT-TAAATATATTAT
27409724 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
27409739 TATTAAATATATTAT
1 AATTAAATATATTAT
27409754 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
* * *
27409767 AATTTAATAAAATTCTT
1 AATTAAAT-ATATT-AT
*
27409784 AA-TAAATAATATTCTT
1 AATTAAAT-ATATT-AT
* *
27409800 ATATT-AATTTACTCA-
1 A-ATTAAATATA-TTAT
* *
27409815 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
27409831 ACTATAAA-ATA-TA-
1 AAT-TAAATATATTAT
27409844 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
27409859 TATTAAATATATTAT
1 AATTAAATATATTAT
*
27409874 AATTAAAATATATAATTT
1 AATT-AAATATAT--TAT
* *
27409892 AATAAAAT-TCTTAAT
1 AATTAAATATATT-AT
*
27409907 AATT-AATATTCTTAT
1 AATTAAATA-TATTAT
* *
27409922 -ATT-AATTTACTCA-
1 AATTAAATATA-TTAT
* *
27409935 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
27409951 ACTATAAA-ATA-TA-
1 AAT-TAAATATATTAT
27409964 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
27409979 TATTAAATATATTAT
1 AATTAAATATATTAT
27409994 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
27410007 AATTTAATA
1 AATTAAATA
27410016 AAATTCTTAA
Statistics
Matches: 378, Mismatches: 71, Indels: 137
0.65 0.12 0.23
Matches are distributed among these distances:
12 12 0.03
13 45 0.12
14 73 0.19
15 112 0.30
16 96 0.25
17 28 0.07
18 12 0.03
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:27410112 original size:15 final size:15
Alignment explanation
Indices: 27410085--27410139 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
27410075 TAAAATATAA
27410085 ATTAACATA-ATTATT
1 ATTAA-ATATATTATT
*
27410100 ATTAAATATATTATA
1 ATTAAATATATTATT
27410115 ATTAAAATATATTAGTT
1 ATT-AAATATATTA-TT
27410132 ATTTAAAT
1 A-TTAAAT
27410140 TCTTGATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 3 0.09
15 13 0.38
16 10 0.29
17 6 0.18
18 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
ATTAAATATATTATT
Found at i:27410187 original size:91 final size:92
Alignment explanation
Indices: 27410086--27410262 Score: 218
Period size: 91 Copynumber: 1.9 Consensus size: 92
27410076 AAAATATAAA
* * * * *
27410086 TTAACATAATTATTATTAAATAT-ATTATAATTAA-AATATATTAGTT-ATTTAAATTCTTGATA
1 TTAAAATAATTAATATTAAATATAATT-TAA-TAATAATATATAAGTTCA-TAAAATTCTTAATA
* *
27410148 AT-AAATTTTCTTATATGAATTTATACAAT
63 ATAAAATGTTCTTATACGAATTTATACAAT
* *
27410177 TTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATA
1 TTAAAATAATTAATATTAAATATAATTTAATAATAATATATAAGTTCATAAAATTCTTAATAATA
27410242 AAATGTTCTTATACGAATTTA
66 AAATGTTCTTATACGAATTTA
27410263 CTAAAATCAA
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
90 3 0.04
91 47 0.64
92 23 0.32
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (92 bp):
TTAAAATAATTAATATTAAATATAATTTAATAATAATATATAAGTTCATAAAATTCTTAATAATA
AAATGTTCTTATACGAATTTATACAAT
Found at i:27411673 original size:11 final size:11
Alignment explanation
Indices: 27411659--27411685 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
27411649 ACAGTACAAT
27411659 ACAAAAGTTTC
1 ACAAAAGTTTC
27411670 ACAAAAGTTTC
1 ACAAAAGTTTC
27411681 ACAAA
1 ACAAA
27411686 CTAATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:27415659 original size:22 final size:21
Alignment explanation
Indices: 27415630--27415671 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
27415620 AAAGGTGCAA
27415630 GAAATGAAACAGGAAGAGGCT
1 GAAATGAAACAGGAAGAGGCT
27415651 GAAAGTGAAACAGGAAGAGGC
1 GAAA-TGAAACAGGAAGAGGC
27415672 CGATGGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.48, C:0.10, G:0.36, T:0.07
Consensus pattern (21 bp):
GAAATGAAACAGGAAGAGGCT
Found at i:27419852 original size:10 final size:10
Alignment explanation
Indices: 27419839--27419887 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
27419829 AAAAAAACCG
*
27419839 AAAACACAAA
1 AAAAAACAAA
*
27419849 AAAAAAGAACA
1 AAAAAACAA-A
*
27419860 AAAGAGACAAA
1 AAA-AAACAAA
27419871 AAAAAACAAA
1 AAAAAACAAA
27419881 AAAAAAC
1 AAAAAAC
27419888 CTCTATTGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 20 0.62
11 8 0.25
12 4 0.12
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:27419854 original size:22 final size:22
Alignment explanation
Indices: 27419829--27419885 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 22
27419819 GATTCAGTGG
* *
27419829 AAAAAAACCGAAA-ACACAAAA
1 AAAAAAAACAAAAGACACAAAA
* *
27419850 AAAAAGAACAAAAGAGACAAAA
1 AAAAAAAACAAAAGACACAAAA
*
27419872 AAAAACAAAAAAAA
1 AAAAA-AAACAAAA
27419886 ACCTCTATTG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 10 0.36
22 12 0.43
23 6 0.21
ACGTcount: A:0.81, C:0.12, G:0.07, T:0.00
Consensus pattern (22 bp):
AAAAAAAACAAAAGACACAAAA
Found at i:27420349 original size:12 final size:12
Alignment explanation
Indices: 27420321--27420358 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
27420311 CTTCACTTGA
27420321 AAAAAAGAAACA-
1 AAAAAAGAAA-AG
*
27420333 CAAAAAGAAAAG
1 AAAAAAGAAAAG
27420345 AAAAAAGAAAAG
1 AAAAAAGAAAAG
27420357 AA
1 AA
27420359 GAACGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 1 0.04
12 22 0.96
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:27420366 original size:12 final size:12
Alignment explanation
Indices: 27420336--27420373 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
27420326 AGAAACACAA
*
27420336 AAAGAAAAGAAA
1 AAAGAAAAGAAG
27420348 AAAGAAAAGAAG
1 AAAGAAAAGAAG
*
27420360 AACGAAAA-AAG
1 AAAGAAAAGAAG
27420371 AAA
1 AAA
27420374 AAGGAGAGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 5 0.22
12 18 0.78
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAGAAAAGAAG
Found at i:27420366 original size:24 final size:24
Alignment explanation
Indices: 27420320--27420376 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
27420310 ACTTCACTTG
27420320 AAAAAAAGAAACACAAAAAGAAAA
1 AAAAAAAGAAACACAAAAAGAAAA
* * *
27420344 GAAAAAAGAAA-AGAAGAACGAAAA
1 AAAAAAAGAAACACAA-AAAGAAAA
27420368 AAGAAAAAG
1 AA-AAAAAG
27420377 GAGAGGCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.11
24 18 0.67
25 6 0.22
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAAAAGAAACACAAAAAGAAAA
Found at i:27420368 original size:19 final size:17
Alignment explanation
Indices: 27420335--27420374 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 17
27420325 AAGAAACACA
27420335 AAAAGAAAAGAAAAAAG
1 AAAAGAAAAGAAAAAAG
27420352 AAAAGAAGAACGAAAAAAG
1 AAAAGAA-AA-GAAAAAAG
27420371 AAAA
1 AAAA
27420375 AGGAGAGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.33
18 2 0.10
19 12 0.57
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAAAAAAG
Found at i:27420892 original size:108 final size:108
Alignment explanation
Indices: 27420703--27420898 Score: 338
Period size: 108 Copynumber: 1.8 Consensus size: 108
27420693 TTTGTATTCT
*
27420703 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
27420768 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
** *
27420811 AGCAAAATTTGCTATCTTGATTAATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTCATTTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
* *
27420876 GTCCATTTTGATAATCTTTTTCA
66 ATCCATTGTGATAATCTTTTTCA
27420899 AGCATTTTTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 82 1.00
ACGTcount: A:0.26, C:0.17, G:0.10, T:0.46
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATACATCTCGTATCTC
Found at i:27421523 original size:44 final size:44
Alignment explanation
Indices: 27421475--27421616 Score: 126
Period size: 44 Copynumber: 3.1 Consensus size: 44
27421465 AGAAGAGACC
* *
27421475 AATCCTATCTCCCTTAAGTTGCAGTGGAGCGGATTAAAACCATA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATA
* *
27421519 AATCCTATAC-CTCTGAAGTTGCAGTAGG-TCAGATTAAATTTACCATGA
1 AATCCTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTAAA---ACCAT-A
* * * *
27421567 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATCCACA
1 -AA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATA
27421613 AATC
1 AATC
27421617 TCATCCCCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
44 31 0.40
45 5 0.06
46 1 0.01
47 8 0.10
48 1 0.01
49 5 0.06
50 27 0.35
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATA
Found at i:27421874 original size:17 final size:17
Alignment explanation
Indices: 27421852--27421889 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
27421842 AATTTGCTGG
27421852 CCCAAAA-AAAAATACAA
1 CCCAAAACAAAAATA-AA
27421869 CCCAAAACAAAAATAAA
1 CCCAAAACAAAAATAAA
27421886 CCCA
1 CCCA
27421890 CTACCTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.05
Consensus pattern (17 bp):
CCCAAAACAAAAATAAA
Found at i:27422287 original size:13 final size:13
Alignment explanation
Indices: 27422269--27422293 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27422259 TTATCATTTA
27422269 TCATTTATTTATT
1 TCATTTATTTATT
27422282 TCATTTATTTAT
1 TCATTTATTTAT
27422294 CTACGTATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TCATTTATTTATT
Found at i:27423204 original size:15 final size:15
Alignment explanation
Indices: 27423186--27423220 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
27423176 TGGTTTAAAT
27423186 TTATATATTATCATC
1 TTATATATTATCATC
*
27423201 TTATATATTATTATC
1 TTATATATTATCATC
27423216 -TATAT
1 TTATAT
27423221 TAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:27424069 original size:107 final size:107
Alignment explanation
Indices: 27423875--27424081 Score: 344
Period size: 107 Copynumber: 1.9 Consensus size: 107
27423865 AAAGGGAAAT
* * *
27423875 ATTTGAAAACGAGGCAGTGTTTTGCTTTTAGAAAATCGAGAAAATGTACCCTAACGTGCTGGGTT
1 ATTTCAAAACGAGGCAATGTTTTGCGTTTAGAAAATCGAGAAAATGTACCCTAACGTGCTGGGTT
27423940 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTCAATA
66 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTCAATA
* *
27423982 ATTTCAAAACGAGGCAATGTTTTGCGTTT-GTAAATTCGAGAAAATGTGCCCTAACGTGCTGGGT
1 ATTTCAAAACGAGGCAATGTTTTGCGTTTAG-AAAATCGAGAAAATGTACCCTAACGTGCTGGGT
*
27424046 TTCGATTTCTCGTTCGACTAAATAGCCAAATATCCT
65 TTCGATTTCTCGTTCGACCAAATAGCCAAATATCCT
27424082 CTTAAAACTT
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
106 1 0.01
107 92 0.99
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (107 bp):
ATTTCAAAACGAGGCAATGTTTTGCGTTTAGAAAATCGAGAAAATGTACCCTAACGTGCTGGGTT
TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTCAATA
Found at i:27424562 original size:16 final size:16
Alignment explanation
Indices: 27424541--27424571 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27424531 TGTTGTCAAC
*
27424541 AATGTGTAAATGTGAT
1 AATGTGCAAATGTGAT
27424557 AATGTGCAAATGTGA
1 AATGTGCAAATGTGA
27424572 GAATTGGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (16 bp):
AATGTGCAAATGTGAT
Found at i:27425362 original size:31 final size:31
Alignment explanation
Indices: 27425325--27425386 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
27425315 AGATAATTTT
27425325 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
27425356 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
27425387 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:27425992 original size:27 final size:27
Alignment explanation
Indices: 27425932--27425991 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
27425922 TAGGCAACTT
27425932 TTTTTTTGCGCTTTTTGCTTCTTCTTC
1 TTTTTTTGCGCTTTTTGCTTCTTCTTC
*
27425959 TTTTTTTGCGTTTTTTGCTT-TT-TTC
1 TTTTTTTGCGCTTTTTGCTTCTTCTTC
27425984 TGTTTTTT
1 T-TTTTTT
27425992 TTAAAGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
25 4 0.13
26 8 0.26
27 19 0.61
ACGTcount: A:0.00, C:0.15, G:0.12, T:0.73
Consensus pattern (27 bp):
TTTTTTTGCGCTTTTTGCTTCTTCTTC
Found at i:27426563 original size:31 final size:31
Alignment explanation
Indices: 27426528--27426589 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
27426518 AGGCAAATTA
27426528 CAAGAGTAATTGAATCCTAATAAAAATCTTT
1 CAAGAGTAATTGAATCCTAATAAAAATCTTT
*
27426559 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAATCTTT
27426590 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAAATCTTT
Found at i:27431156 original size:12 final size:12
Alignment explanation
Indices: 27431139--27431163 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27431129 CTTACCACCA
27431139 AATCAATAAGCT
1 AATCAATAAGCT
27431151 AATCAATAAGCT
1 AATCAATAAGCT
27431163 A
1 A
27431164 CTTATGGATA
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:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AATCAATAAGCT
Found at i:27432915 original size:71 final size:71
Alignment explanation
Indices: 27432791--27432927 Score: 238
Period size: 71 Copynumber: 1.9 Consensus size: 71
27432781 CAACTTTCAC
27432791 TACTCCATATGAAAACACCCTAAATAGGGATGAAACCATAAAAAATTTCTATGGTGCTAAGAGAG
1 TACTCCATATGAAAACACCCTAAATAGGGATGAAACCATAAAAAATTTCTATGGTGCTAAGAGAG
27432856 CATCAT
66 CATCAT
* * * *
27432862 TACTCCATATGAAAACGCCCTAAATAGGGATGAAACCATGAAAATTTTTTATGGTGCTAAGAGAG
1 TACTCCATATGAAAACACCCTAAATAGGGATGAAACCATAAAAAATTTCTATGGTGCTAAGAGAG
27432927 C
66 C
27432928 TCGTCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (71 bp):
TACTCCATATGAAAACACCCTAAATAGGGATGAAACCATAAAAAATTTCTATGGTGCTAAGAGAG
CATCAT
Found at i:27436987 original size:5 final size:5
Alignment explanation
Indices: 27436981--27437045 Score: 94
Period size: 5 Copynumber: 13.0 Consensus size: 5
27436971 CAACTGATAT
* * * *
27436981 AATAT AATAT AATAT AATAT AATAG AATAG AATAG AATAG AATAG AATAG
1 AATAG AATAG AATAG AATAG AATAG AATAG AATAG AATAG AATAG AATAG
27437031 AATAG AATAG AATAG
1 AATAG AATAG AATAG
27437046 GCTGGGATGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 59 1.00
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (5 bp):
AATAG
Found at i:27437361 original size:23 final size:19
Alignment explanation
Indices: 27437339--27437377 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
27437329 TTACTGTCAC
*
27437339 TCACCGTAATCAAATTTGT
1 TCACTGTAATCAAATTTGT
27437358 TCACTGTAATCAAATTTGT
1 TCACTGTAATCAAATTTGT
27437377 T
1 T
27437378 ATTAACTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (19 bp):
TCACTGTAATCAAATTTGT
Found at i:27437425 original size:25 final size:27
Alignment explanation
Indices: 27437397--27437448 Score: 90
Period size: 25 Copynumber: 2.0 Consensus size: 27
27437387 TATCCCCTCA
27437397 TAATTTATTTATT-A-CTTTTATATAT
1 TAATTTATTTATTAATCTTTTATATAT
27437422 TAATTTATTTATTAATCTTTTATATAT
1 TAATTTATTTATTAATCTTTTATATAT
27437449 GTGTTAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 13 0.52
26 1 0.04
27 11 0.44
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (27 bp):
TAATTTATTTATTAATCTTTTATATAT
Found at i:27437434 original size:12 final size:12
Alignment explanation
Indices: 27437397--27437437 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
27437387 TATCCCCTCA
27437397 TAATTTATTTAT
1 TAATTTATTTAT
* *
27437409 TACTTTTATATAT
1 TA-ATTTATTTAT
27437422 TAATTTATTTAT
1 TAATTTATTTAT
27437434 TAAT
1 TAAT
27437438 CTTTTATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
TAATTTATTTAT
Found at i:27440364 original size:24 final size:25
Alignment explanation
Indices: 27440322--27440371 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
27440312 TTTTTGTGAA
* *
27440322 CCTCCTGTTAAAGTGCTCTTCGGAG
1 CCTCCTGTTAAAGTACTCTTCAGAG
*
27440347 CCTCTTGTT-AAGTACTCTTCAGAG
1 CCTCCTGTTAAAGTACTCTTCAGAG
27440371 C
1 C
27440372 TACCTGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (25 bp):
CCTCCTGTTAAAGTACTCTTCAGAG
Found at i:27441841 original size:29 final size:30
Alignment explanation
Indices: 27441782--27441839 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
27441772 TCCGAGCCTT
*
27441782 GGGGCAAAAATGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
27441812 GGGGC-AAAATAGTAAATT-TGAAAAAGTT
1 GGGGCAAAAAT-GT-AATTATGAAAAAGTT
27441840 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 5 0.20
30 16 0.64
31 4 0.16
ACGTcount: A:0.45, C:0.05, G:0.24, T:0.26
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:27442252 original size:50 final size:50
Alignment explanation
Indices: 27442176--27442417 Score: 351
Period size: 50 Copynumber: 4.8 Consensus size: 50
27442166 ATTTGGGTAA
*
27442176 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
27442226 TGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
27442276 ATAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
27442326 AGAGGTCCCCCGTAAGACCATGTC-GGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
27442375 AGTACATCCCATGTAAGACCACGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
27442418 TGTTATGATC
Statistics
Matches: 174, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
49 26 0.15
50 133 0.76
51 15 0.09
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:27445024 original size:23 final size:21
Alignment explanation
Indices: 27444979--27445045 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 21
27444969 AAAAGCTATC
*
27444979 TACAAATCAAATATCTAAGAT
1 TACAAATCATATATCTAAGAT
*
27445000 TACAAAATCATATATTCTAATAT
1 TAC-AAATCATATA-TCTAAGAT
*
27445023 TACATATCATAT-T-TAAGAT
1 TACAAATCATATATCTAAGAT
27445042 TACA
1 TACA
27445046 TATCTTCGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 9 0.22
20 1 0.03
21 3 0.08
22 17 0.43
23 10 0.25
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.36
Consensus pattern (21 bp):
TACAAATCATATATCTAAGAT
Found at i:27445045 original size:19 final size:20
Alignment explanation
Indices: 27444992--27445049 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
27444982 AAATCAAATA
*
27444992 TCTAAGATTACAAAATCATATAT
1 TCTAAGATTAC-ATATC--ATAT
*
27445015 TCTAATATTACATATCATAT
1 TCTAAGATTACATATCATAT
27445035 T-TAAGATTACATATC
1 TCTAAGATTACATATC
27445050 TTCGAAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 13 0.41
20 5 0.16
22 4 0.12
23 10 0.31
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:27446352 original size:9 final size:9
Alignment explanation
Indices: 27446338--27446373 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
27446328 TAAGACTTTT
27446338 TAAAAATTA
1 TAAAAATTA
27446347 TAAAAA-TA
1 TAAAAATTA
27446355 T--AAATTA
1 TAAAAATTA
27446362 TAAAAATTA
1 TAAAAATTA
27446371 TAA
1 TAA
27446374 TTATAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
6 3 0.12
7 3 0.12
8 3 0.12
9 15 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:27446361 original size:15 final size:14
Alignment explanation
Indices: 27446341--27446379 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
27446331 GACTTTTTAA
27446341 AAATTATAAAAATAT
1 AAATTATAAAAAT-T
27446356 AAATTATAAAAATT
1 AAATTATAAAAATT
27446370 ATAATTATAA
1 A-AATTATAA
27446380 TTTTACAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 2 0.09
15 21 0.91
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATTATAAAAATT
Found at i:27454104 original size:50 final size:49
Alignment explanation
Indices: 27453980--27454115 Score: 168
Period size: 49 Copynumber: 2.8 Consensus size: 49
27453970 GATAATAACA
* *
27453980 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATCTAC
* * * *
27454029 TACCAATGCCATATCCCAGATATGGTCTTACATGGGA-GTTCTCATCT-C
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCATCTAC
*
27454077 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 --TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA
27454116 CCTCTTTACC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 4 0.05
49 37 0.50
50 33 0.45
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (49 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATCTAC
Found at i:27463690 original size:25 final size:25
Alignment explanation
Indices: 27463616--27463693 Score: 86
Period size: 25 Copynumber: 3.1 Consensus size: 25
27463606 GTCATTAGGG
* *
27463616 TTACCGACTCTCAGCTCGTATGAGC
1 TTACCGATTCTCAACTCGTATGAGC
* * **
27463641 TTACCAATT-TGCAACTCTTGCGAGC
1 TTACCGATTCT-CAACTCGTATGAGC
27463666 TTACCGATTCTCAACTCGTATGAGC
1 TTACCGATTCTCAACTCGTATGAGC
27463691 TTA
1 TTA
27463694 TTGATTTATA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 1 0.02
25 39 0.95
26 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.32
Consensus pattern (25 bp):
TTACCGATTCTCAACTCGTATGAGC
Found at i:27463708 original size:25 final size:25
Alignment explanation
Indices: 27463680--27463743 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
27463670 CGATTCTCAA
* * *
27463680 CTCGTATGAGCTTATTGATTTATAG
1 CTCGTATGAGCATATCGATTCATAG
27463705 CTCGTGA-GAGCATATCGATTCATAG
1 CTCGT-ATGAGCATATCGATTCATAG
*
27463730 CTCGTATGAACATA
1 CTCGTATGAGCATA
27463744 CATGTACAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (25 bp):
CTCGTATGAGCATATCGATTCATAG
Found at i:27467002 original size:13 final size:13
Alignment explanation
Indices: 27466972--27467001 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
27466962 TATAGATATA
27466972 TTTTTCTTTTCTT
1 TTTTTCTTTTCTT
27466985 TTTTTC-TTTCTT
1 TTTTTCTTTTCTT
27466997 TTTTT
1 TTTTT
27467002 TTGAACATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTCTTTTCTT
Found at i:27467979 original size:6 final size:5
Alignment explanation
Indices: 27467961--27468021 Score: 54
Period size: 5 Copynumber: 11.8 Consensus size: 5
27467951 TAAGTCTTAG
*
27467961 AAAAT AAATAT AAACAT AAAAT AAAA- AATAA- AAAAT AACAAT AAAAG
1 AAAAT AAA-AT AAA-AT AAAAT AAAAT AA-AAT AAAAT AA-AAT AAAAT
*
27468008 AAAAT AAAAG AAAA
1 AAAAT AAAAT AAAA
27468022 AAATAAACTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
4 4 0.08
5 29 0.60
6 15 0.31
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:27467990 original size:7 final size:7
Alignment explanation
Indices: 27467978--27468028 Score: 52
Period size: 7 Copynumber: 7.1 Consensus size: 7
27467968 ATATAAACAT
27467978 AAAATAA
1 AAAATAA
27467985 AAAATAA
1 AAAATAA
27467992 AAAATAA
1 AAAATAA
27467999 CAATAA-AA
1 -AA-AATAA
27468007 GAAAATAA
1 -AAAATAA
*
27468015 AAGA-AA
1 AAAATAA
27468021 AAAATAA
1 AAAATAA
27468028 A
1 A
27468029 CTTAATGGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
6 5 0.14
7 22 0.59
8 8 0.22
9 2 0.05
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:27468026 original size:23 final size:23
Alignment explanation
Indices: 27467959--27468028 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
27467949 AATAAGTCTT
* *
27467959 AGAAAAT-AAATATAAACATAAAA
1 AGAAAATAAAAAATAAAAAT-AAA
* *
27467982 TAAAAAATAAAAAATAACAATAAA
1 -AGAAAATAAAAAATAAAAATAAA
27468006 AGAAAATAAAAGAA-AAAAATAAA
1 AGAAAATAAAA-AATAAAAATAAA
27468029 CTTAATGGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 18 0.47
24 11 0.29
25 9 0.24
ACGTcount: A:0.79, C:0.03, G:0.04, T:0.14
Consensus pattern (23 bp):
AGAAAATAAAAAATAAAAATAAA
Found at i:27480426 original size:25 final size:24
Alignment explanation
Indices: 27480396--27480467 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
27480386 CTCAGCTTTT
* *
27480396 ATGAGCTTACCAATTTGTAGCTCTTG
1 ATGAGCTTACCAATTT-CAGCTC-AG
*
27480422 A-GAGCTTACCGATTCTCAGCTCAG
1 ATGAGCTTACCAATT-TCAGCTCAG
27480446 ATGAGCTTACCAATTTACAGCT
1 ATGAGCTTACCAATTT-CAGCT
27480468 TGTGAGAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 3 0.08
25 34 0.87
26 2 0.05
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (24 bp):
ATGAGCTTACCAATTTCAGCTCAG
Found at i:27485463 original size:10 final size:11
Alignment explanation
Indices: 27485414--27485472 Score: 52
Period size: 11 Copynumber: 5.3 Consensus size: 11
27485404 AGATAAATAT
27485414 TATTTTATTAA
1 TATTTTATTAA
27485425 TATTTTGACTTGAA
1 TATTTT-A-TT-AA
*
27485439 -A-TTTATTTA
1 TATTTTATTAA
27485448 TATTTTATTAA
1 TATTTTATTAA
27485459 T-TTTTAGTTAA
1 TATTTTA-TTAA
27485470 TAT
1 TAT
27485473 ATAAGGAAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
9 1 0.03
10 8 0.21
11 20 0.51
12 5 0.13
13 3 0.08
14 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:27489332 original size:47 final size:47
Alignment explanation
Indices: 27489280--27489685 Score: 632
Period size: 47 Copynumber: 8.6 Consensus size: 47
27489270 GATAATTGTG
* *
27489280 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27489327 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27489376 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
27489423 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27489470 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27489519 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
27489566 ATGTGAAAATGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
27489613 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27489660 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
27489686 TCCCGAAGGG
Statistics
Matches: 331, Mismatches: 24, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 239 0.72
49 92 0.28
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:27489382 original size:96 final size:94
Alignment explanation
Indices: 27489280--27489685 Score: 632
Period size: 96 Copynumber: 4.3 Consensus size: 94
27489270 GATAATTGTG
* *
27489280 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
* *
27489345 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGA
*
27489376 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
27489441 GTGATAAGGCCGAATGGCCAATGTGATGA
66 GTGATAAGGCCGAATGGCCAATGTGATGA
27489470 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
27489535 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
27489566 ATGTGAAAATGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
27489631 GTGACAGGGCCGAGTGGCCAACGTGATGG
66 GTGATAAGGCCGAATGGCCAATGTGATGA
*
27489660 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
27489686 TCCCGAAGGG
Statistics
Matches: 286, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
94 142 0.50
96 144 0.50
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:27489428 original size:143 final size:143
Alignment explanation
Indices: 27489280--27489685 Score: 672
Period size: 143 Copynumber: 2.9 Consensus size: 143
27489270 GATAATTGTG
* *
27489280 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
27489345 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
27489410 GCCGATGTGATGA
131 GCCGATGTGATGA
* *
27489423 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
27489488 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
27489553 GCCGATGTGATGA
131 GCCGATGTGATGA
* *
27489566 ATGTGAAAATGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * * * *
27489629 ATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
27489686 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 54 0.22
143 193 0.78
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
GCCGATGTGATGA
Found at i:27491884 original size:38 final size:38
Alignment explanation
Indices: 27491820--27491894 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
27491810 AATCCGAGTT
*
27491820 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
27491858 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
27491895 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:27492007 original size:40 final size:40
Alignment explanation
Indices: 27491948--27492228 Score: 420
Period size: 40 Copynumber: 7.0 Consensus size: 40
27491938 AGGTCTCGAC
27491948 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
27491987 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
27492027 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
27492067 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
27492107 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** * *
27492147 GATATATCCGTGCTAAACCCCGAAGTGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
27492187 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
27492227 GA
1 GA
27492229 CGTGTATTCG
Statistics
Matches: 217, Mismatches: 24, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
39 4 0.02
40 213 0.98
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:27495705 original size:47 final size:47
Alignment explanation
Indices: 27495653--27496201 Score: 873
Period size: 47 Copynumber: 11.6 Consensus size: 47
27495643 GATAATTGTG
* *
27495653 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27495700 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27495749 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
27495796 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27495843 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27495892 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
27495939 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
27495986 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27496035 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27496082 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
27496129 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27496176 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
27496202 TCCCGAAGGG
Statistics
Matches: 466, Mismatches: 30, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
47 330 0.71
49 136 0.29
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:27495755 original size:96 final size:94
Alignment explanation
Indices: 27495653--27496201 Score: 873
Period size: 96 Copynumber: 5.8 Consensus size: 94
27495643 GATAATTGTG
* *
27495653 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
27495718 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27495749 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
27495814 GTGATAAGGCCGAATGGCCAATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
27495843 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
27495908 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
27495939 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGTATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
27496004 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
27496035 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
27496100 GTGATGAGGCCTAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
27496129 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
27496194 GTGATAAG
66 GTGATAAG
27496202 TCCCGAAGGG
Statistics
Matches: 421, Mismatches: 28, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
94 187 0.44
96 234 0.56
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:27495874 original size:143 final size:143
Alignment explanation
Indices: 27495653--27496201 Score: 940
Period size: 143 Copynumber: 3.9 Consensus size: 143
27495643 GATAATTGTG
* * * *
27495653 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
27495718 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
27495783 GCCGATGTGATGA
131 GCCGATGTGATGA
27495796 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
27495861 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
27495926 GCCGATGTGATGA
131 GCCGATGTGATGA
*
27495939 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGTATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
27496004 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
27496069 GCCGATGTGATGA
131 GCCGATGTGATGA
* * *
27496082 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
* * * * * * * *
27496145 ATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
27496202 TCCCGAAGGG
Statistics
Matches: 389, Mismatches: 17, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
141 54 0.14
143 335 0.86
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
GCCGATGTGATGA
Found at i:27501158 original size:19 final size:19
Alignment explanation
Indices: 27501119--27501173 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
27501109 TATAAAAATT
* *
27501119 TACAAGAAAATATTGATAAA
1 TACAAGAATATA-TGAAAAA
27501139 TA-AAGAATATAGTGAAAAA
1 TACAAGAATATA-TGAAAAA
27501158 TACAAGAATATATGAA
1 TACAAGAATATATGAA
27501174 TATATTAGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.24
Consensus pattern (19 bp):
TACAAGAATATATGAAAAA
Found at i:27501698 original size:22 final size:22
Alignment explanation
Indices: 27501650--27501770 Score: 107
Period size: 22 Copynumber: 5.5 Consensus size: 22
27501640 AAATTTAGCA
* * **
27501650 TGCTTACTGTCTTGCGCTTTTG
1 TGCTTACTGTTTTGCACTTCGG
* * * *
27501672 CGCTTACTGTTTCGCACTTTGT
1 TGCTTACTGTTTTGCACTTCGG
*
27501694 TGCTTACCGTTTTGCACTTCGG
1 TGCTTACTGTTTTGCACTTCGG
* * *
27501716 TACCTACTGTTTTGCACTTTGG
1 TGCTTACTGTTTTGCACTTCGG
* *
27501738 TGCTTAGTGATTTGCACTTCGG
1 TGCTTACTGTTTTGCACTTCGG
*
27501760 TGCCTACTGTT
1 TGCTTACTGTT
27501771 CTTATCTCTG
Statistics
Matches: 76, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 76 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (22 bp):
TGCTTACTGTTTTGCACTTCGG
Found at i:27501724 original size:44 final size:44
Alignment explanation
Indices: 27501676--27501770 Score: 136
Period size: 44 Copynumber: 2.2 Consensus size: 44
27501666 CTTTTGCGCT
* *
27501676 TACTGTTTCGCACTTTGTTGCTTACCGTTTTGCACTTCGGTACC
1 TACTGTTTCGCACTTTGGTGCTTACCGATTTGCACTTCGGTACC
* ** *
27501720 TACTGTTTTGCACTTTGGTGCTTAGTGATTTGCACTTCGGTGCC
1 TACTGTTTCGCACTTTGGTGCTTACCGATTTGCACTTCGGTACC
27501764 TACTGTT
1 TACTGTT
27501771 CTTATCTCTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (44 bp):
TACTGTTTCGCACTTTGGTGCTTACCGATTTGCACTTCGGTACC
Found at i:27512277 original size:40 final size:40
Alignment explanation
Indices: 27512188--27512451 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
27512178 TTGAATGCTG
* *
27512188 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTAAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
27512227 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
27512267 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27512306 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27512346 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27512386 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27512427 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27512452 AACGAGGAGC
Statistics
Matches: 204, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 52 0.25
40 142 0.70
41 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27512469 original size:120 final size:118
Alignment explanation
Indices: 27512240--27512484 Score: 323
Period size: 120 Copynumber: 2.1 Consensus size: 118
27512230 GGACTAAGAT
* *
27512240 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
* ** * *
27512305 ATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
66 ATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATC
* *
27512359 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA
* * * *
27512424 TAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATT
65 -AATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATC
27512478 CCGAAGG
1 CCGAAGG
27512485 TACGTGATTT
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
119 50 0.45
120 58 0.53
121 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
ATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATC
Found at i:27520237 original size:40 final size:40
Alignment explanation
Indices: 27520148--27520411 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
27520138 TTGAATGCTG
* *
27520148 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTAAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
27520187 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
27520227 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27520266 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27520306 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27520346 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27520387 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27520412 AACGAGGAGC
Statistics
Matches: 204, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 52 0.25
40 142 0.70
41 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27520429 original size:120 final size:118
Alignment explanation
Indices: 27520200--27520444 Score: 323
Period size: 120 Copynumber: 2.1 Consensus size: 118
27520190 GGACTAAGAT
* *
27520200 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
* ** * *
27520265 ATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
66 ATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATC
* *
27520319 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA
* * * *
27520384 TAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATT
65 -AATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATC
27520438 CCGAAGG
1 CCGAAGG
27520445 TACGTGATTT
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
119 50 0.45
120 58 0.53
121 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAA
ATCCAGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATC
Found at i:27524304 original size:24 final size:24
Alignment explanation
Indices: 27524272--27524324 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
27524262 ATAAGGAAAG
* *
27524272 AAATAACAAATATTTTATGCTAAT
1 AAATAACAAATATATTAGGCTAAT
*
27524296 AAATGACAAATATATTAGGCTAAT
1 AAATAACAAATATATTAGGCTAAT
27524320 AAATA
1 AAATA
27524325 CTAAGTATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (24 bp):
AAATAACAAATATATTAGGCTAAT
Found at i:27536978 original size:30 final size:30
Alignment explanation
Indices: 27536942--27537000 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
27536932 TGTGTGGTCA
*
27536942 GGCCGTGTGCCTCAGAAGCTCGTATGGCCG
1 GGCCGTGTGCCTCACAAGCTCGTATGGCCG
* * *
27536972 GGCCGTGTGTCTCACACGCTCGTGTGGCC
1 GGCCGTGTGCCTCACAAGCTCGTATGGCC
27537001 AGACTGTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.10, C:0.32, G:0.36, T:0.22
Consensus pattern (30 bp):
GGCCGTGTGCCTCACAAGCTCGTATGGCCG
Found at i:27542790 original size:19 final size:19
Alignment explanation
Indices: 27542766--27542805 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
27542756 CTGTTTAACT
27542766 GTGATGTCGAGGAAGCAAG
1 GTGATGTCGAGGAAGCAAG
27542785 GTGATGTCGAGGAAGCAAG
1 GTGATGTCGAGGAAGCAAG
27542804 GT
1 GT
27542806 TCGCCATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.10, G:0.42, T:0.17
Consensus pattern (19 bp):
GTGATGTCGAGGAAGCAAG
Found at i:27543341 original size:300 final size:299
Alignment explanation
Indices: 27542788--27543729 Score: 1250
Period size: 300 Copynumber: 3.1 Consensus size: 299
27542778 AAGCAAGGTG
* * * * ** *
27542788 ATGTCGAGGAAGCAAGGTTCGCC-ATTGTGGCTTCAATCTGTTCCACTACACTGCCT-GGGAAGT
1 ATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGTACCGCCTGGGGAA-T
* * * * * * * *
27542851 AAGATTCACTGTTGTAGCTTTAATCTTTCTAACTGCAATATCAGGGAAGCAAGATTCGCCGTTAT
64 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCACCGATGT
* *
27542916 GGCGTTAATCTGTTCCACTGCACTGCTTAAGAAGTAAGATTCGCTGTTGTAGCTTTAATATTTTT
129 GGCTTTAATCTGTTCCACTGCAC-GCTTAAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
* * *
27542981 AACTGCAATGTTGGGGAAGCAAGGTTCGCC-ATCGTGGCTTTAATCTACTCCACTGCATCGCCAG
193 AACTGCAATGTCGGGGAAGCAAGATTCACCGAT-GTGGCTTTAATCTACTCCACTGCATCGCCAG
27543045 AGG-AGTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAACTGCA
257 -GGAAGTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAACTGCA
*
27543088 ATGTCGGGGAAGCAATATTCACCGATGTGGCTTTAATCTGTTCCACTGTACCGCCTGGGGAATAA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGTACCGCCTGGGGAATAA
* * * * *
27543153 GATTCGCCGTTATAGCTTTAGTCTTTTTAACTACAATGTCGGGGAAGCGAGATTCACTGATGTGG
66 GATTCGCTGTTGTAGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCACCGATGTGG
* ** * * *
27543218 CTTTAATCTGCTCCACTGCATCGCCAAAGAAGTAAGATTCGCCGCTGTGGCTTTAATCTTTTTAA
131 CTTTAATCTGTTCCACTGCA-CGCTTAAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAA
* * * *
27543283 CTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCCTTAATCTGCTCCACGGCATCGCCAGGGC
195 CTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTACTCCACTGCATCGCCAGGGA
* * * *
27543348 AGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCA
260 AGTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAACTGCA
* * * * *
27543388 ATATCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGATCCACTGTATCGCCTGGGGAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGTACCGCCTGGGGAATAA
* *
27543453 GATTTGCTGTTGTAGCTTTAATCTTTTTAAATGA-AATGTCGGGGAAGCAAGATTCACCGATGTG
66 GATTCGCTGTTGTAGCTTTAATCTTTTTAACT-ACAATGTCGGGGAAGCAAGATTCACCGATGTG
* *
27543517 GCTTTAATCTGTTCCGCTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTA
130 GCTTTAATCTGTTCCACTGCA-CGCTTAAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTA
* * *
27543582 ACTGTAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTACTCCATTGCATTGCCAGGG
194 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTACTCCACTGCATCGCCAGGG
* *
27543647 AAGTAAGACTCG-TCGTTGTGGCTTCAATCTTTTTAACTGTA
259 AAGTAAGATTCGCT-GTTGTGGCTTCAATCTTTTTAACTGCA
*
27543688 ATGTCAGGGAAGCAAGATTCACC-ATTGTGGCTTTAATCTGTT
1 ATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTT
27543730 TCGTTGCATT
Statistics
Matches: 556, Mismatches: 78, Indels: 16
0.86 0.12 0.02
Matches are distributed among these distances:
299 3 0.01
300 543 0.98
301 10 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (299 bp):
ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGTACCGCCTGGGGAATAA
GATTCGCTGTTGTAGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCACCGATGTGG
CTTTAATCTGTTCCACTGCACGCTTAAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAAC
TGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTACTCCACTGCATCGCCAGGGAA
GTAAGATTCGCTGTTGTGGCTTCAATCTTTTTAACTGCA
Found at i:27543739 original size:100 final size:100
Alignment explanation
Indices: 27542788--27543729 Score: 1092
Period size: 100 Copynumber: 9.4 Consensus size: 100
27542778 AAGCAAGGTG
* * * * * *
27542788 ATGTCGAGGAAGCAAGGTTCGCC-ATTGTGGCTTCAATCTGTTCCACTACA-CTGCCTGGGAAGT
1 ATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTTCCACTGCATC-GCCAGGGAAGT
* *
27542851 AAGATTCACTGTTGTAGCTTTAATCTTTCTAACTGCA
64 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
* * * * * * * *
27542888 ATATCAGGGAAGCAAGATTCGCCGTTATGGCGTTAATCTGTTCCACTGCA-CTGCTTA-AGAAGT
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATC-GC-CAGGGAAGT
*
27542951 AAGATTCGCTGTTGTAGCTTTAATATTTTTAACTGCA
64 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
* * * **
27542988 ATGTTGGGGAAGCAAGGTTCGCC-ATCGTGGCTTTAATCTACTCCACTGCATCGCCAGAGG-AGT
1 ATGTCGGGGAAGCAAGATTCACCGAT-GTGGCTTTAATCTGTTCCACTGCATCGCCAG-GGAAGT
* *
27543051 AAGATTCGCTGTTGTGGCTTCAATCTTTTTAACTGCA
64 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
* * * *
27543088 ATGTCGGGGAAGCAATATTCACCGATGTGGCTTTAATCTGTTCCACTGTACCGCCTGGGGAA-TA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCC-AGGGAAGTA
* * * *
27543152 AGATTCGCCGTTATAGCTTTAGTCTTTTTAACTACA
65 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
* * * **
27543188 ATGTCGGGGAAGCGAGATTCACTGATGTGGCTTTAATCTGCTCCACTGCATCGCCAAAGAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCAGGGAAGTAA
* * *
27543253 GATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCA
66 GATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
* * * * *
27543288 ATGTCGGGGAAGCAAGATTCACCGATGTGGCCTTAATCTGCTCCACGGCATCGCCAGGGCAGTAG
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCAGGGAAGTAA
* * *
27543353 GATTCGCCGCTGTGGCTTTAATCTTTTTAACTGCA
66 GATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
* * * * * *
27543388 ATATCGAGGAAGCAAGATTCACCGATGTGGCTTTAATCTGATCCACTGTATCGCCTGGGGAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCAGGGAAGTAA
* * *
27543453 GATTTGCTGTTGTAGCTTTAATCTTTTTAAATGAA
66 GATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
* * ** *
27543488 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCGCTGCACCGCTTGAGAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCAGGGAAGTAA
*
27543553 GATTCGCTGTTGTAGCTTTAATCTTTTTAACTGTA
66 GATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
** * *
27543588 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTACTCCATTGCATTGCCAGGGAAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCAGGGAAGTAA
* * * *
27543653 GACTCG-TCGTTGTGGCTTCAATCTTTTTAACTGTA
66 GATTCGCT-GTTGTAGCTTTAATCTTTTTAACTGCA
*
27543688 ATGTCAGGGAAGCAAGATTCACC-ATTGTGGCTTTAATCTGTT
1 ATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTTAATCTGTT
27543730 TCGTTGCATT
Statistics
Matches: 722, Mismatches: 108, Indels: 24
0.85 0.13 0.03
Matches are distributed among these distances:
99 7 0.01
100 709 0.98
101 6 0.01
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (100 bp):
ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCAGGGAAGTAA
GATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
Found at i:27552037 original size:54 final size:54
Alignment explanation
Indices: 27551944--27552059 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
27551934 TCAAGTTAGT
* * ** *
27551944 GAGTTACATGGCCTAGCACATGGCGTGGTACACTAGCGTG-AGTGGCAACTCAGA
1 GAGTTACATGGCCTAGCACACGGCCTGACACACGAGCGTGTAG-GGCAACTCAGA
* *
27551998 GAGTTACATGGCCTAGCACACGGCCTGACACACGGGCGTGTAGGGCAACTCAGT
1 GAGTTACATGGCCTAGCACACGGCCTGACACACGAGCGTGTAGGGCAACTCAGA
*
27552052 GGGTTACA
1 GAGTTACA
27552060 CGGGTGAGGA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 51 0.96
55 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.32, T:0.19
Consensus pattern (54 bp):
GAGTTACATGGCCTAGCACACGGCCTGACACACGAGCGTGTAGGGCAACTCAGA
Found at i:27553088 original size:29 final size:29
Alignment explanation
Indices: 27553038--27553093 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
27553028 ATACTATAAT
* *
27553038 AAATCTAAAATATATGATAATTTATAAACA
1 AAATATAAAATATATGA-AAATTATAAACA
27553068 AAATATAAAA-ATATGAAAATTATAAA
1 AAATATAAAATATATGAAAATTATAAA
27553094 GGGACGACCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 6 0.25
30 9 0.38
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (29 bp):
AAATATAAAATATATGAAAATTATAAACA
Found at i:27553603 original size:14 final size:14
Alignment explanation
Indices: 27553584--27553618 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
27553574 CAGAGTCTAG
27553584 GTTGGTGTTGCTGT
1 GTTGGTGTTGCTGT
*
27553598 GTTGGTTTTGCTGT
1 GTTGGTGTTGCTGT
27553612 GTTGGTG
1 GTTGGTG
27553619 CAACAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.43, T:0.51
Consensus pattern (14 bp):
GTTGGTGTTGCTGT
Found at i:27555517 original size:3 final size:3
Alignment explanation
Indices: 27555511--27555539 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
27555501 TTCTCCTCCT
27555511 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
27555540 TTCTTCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:27557064 original size:21 final size:21
Alignment explanation
Indices: 27557038--27557078 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27557028 TTAAGAGATA
*
27557038 TTACTTGAATAGTTGTATCTC
1 TTACTTGAATAGTTATATCTC
*
27557059 TTACTTTAATAGTTATATCT
1 TTACTTGAATAGTTATATCT
27557079 ATGTAAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (21 bp):
TTACTTGAATAGTTATATCTC
Found at i:27560031 original size:6 final size:6
Alignment explanation
Indices: 27560019--27560111 Score: 71
Period size: 6 Copynumber: 15.7 Consensus size: 6
27560009 AAGAAGAAGA
* * * * * *
27560019 AAAAAT AACAAT AAAAAT AAAAGT AAAAAG AAAAAC AAAAAG AAAAAC
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * * * * *
27560067 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA- CAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
27560112 CTAGGTAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
5 4 0.05
6 72 0.95
ACGTcount: A:0.82, C:0.10, G:0.03, T:0.05
Consensus pattern (6 bp):
AAAAAT
Found at i:27560052 original size:18 final size:17
Alignment explanation
Indices: 27560031--27560111 Score: 81
Period size: 18 Copynumber: 4.5 Consensus size: 17
27560021 AAATAACAAT
* *
27560031 AAAAATAAAAGTAAAAAG
1 AAAAAAAAAAG-AAAAAC
27560049 AAAAACAAAAAGAAAAAC
1 AAAAA-AAAAAGAAAAAC
*
27560067 AAAAACAAAAACAAAAAC
1 AAAAA-AAAAAGAAAAAC
*
27560085 AAAAACAAAAACAAAAAC
1 AAAAA-AAAAAGAAAAAC
27560103 AAAATAAAA
1 AAAA-AAAA
27560112 CTAGGTAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
18 52 0.90
19 6 0.10
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.04
Consensus pattern (17 bp):
AAAAAAAAAAGAAAAAC
Found at i:27560053 original size:7 final size:6
Alignment explanation
Indices: 27560007--27560106 Score: 60
Period size: 6 Copynumber: 16.5 Consensus size: 6
27559997 AACATTCCTG
* * * *
27560007 AAAAGA AGAAGA AAAA-A TAACAATA AAAA-T AAAAGTA AAAAGA AAAACA
1 AAAAGA AAAAGA AAAAGA -AA-AAGA AAAAGA AAAAG-A AAAAGA AAAAGA
* * * * * * *
27560056 AAAAGA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
27560104 AAA
1 AAA
27560107 TAAAACTAGG
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
5 5 0.06
6 67 0.82
7 9 0.11
8 1 0.01
ACGTcount: A:0.81, C:0.09, G:0.06, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:27560058 original size:12 final size:12
Alignment explanation
Indices: 27560043--27560106 Score: 110
Period size: 12 Copynumber: 5.3 Consensus size: 12
27560033 AAATAAAAGT
*
27560043 AAAAAGAAAAAC
1 AAAAACAAAAAC
*
27560055 AAAAAGAAAAAC
1 AAAAACAAAAAC
27560067 AAAAACAAAAAC
1 AAAAACAAAAAC
27560079 AAAAACAAAAAC
1 AAAAACAAAAAC
27560091 AAAAACAAAAAC
1 AAAAACAAAAAC
27560103 AAAA
1 AAAA
27560107 TAAAACTAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
12 51 1.00
ACGTcount: A:0.84, C:0.12, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAACAAAAAC
Found at i:27561498 original size:12 final size:12
Alignment explanation
Indices: 27561483--27561526 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
27561473 TAAAAAAGGC
27561483 AAATAAAAGATA
1 AAATAAAAGATA
27561495 AAATAAAAGATA
1 AAATAAAAGATA
27561507 AAAT-AAA-ATA
1 AAATAAAAGATA
27561517 AAATAAAAGA
1 AAATAAAAGA
27561527 AAAGAAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.23
11 6 0.20
12 17 0.57
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (12 bp):
AAATAAAAGATA
Found at i:27561502 original size:5 final size:5
Alignment explanation
Indices: 27561492--27561549 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
27561482 CAAATAAAAG
* * * *
27561492 ATAAA ATAAAA GATAAA ATAAA ATAAA ATAAA AGAAA AGAAA AGAAA AGAAA
1 ATAAA AT-AAA -ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
*
27561544 AGAAA A
1 ATAAA A
27561550 GATAGAGGAT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
5 42 0.84
6 6 0.12
7 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (5 bp):
ATAAA
Found at i:27561519 original size:10 final size:10
Alignment explanation
Indices: 27561483--27561549 Score: 71
Period size: 10 Copynumber: 6.3 Consensus size: 10
27561473 TAAAAAAGGC
27561483 AAATAAAAGATA
1 AAATAAAAG--A
27561495 AAATAAAAGATA
1 AAATAAAAG--A
*
27561507 AAATAAAATA
1 AAATAAAAGA
27561517 AAATAAAAGA
1 AAATAAAAGA
*
27561527 AAAGAAAAGA
1 AAATAAAAGA
*
27561537 AAAGAAAAGA
1 AAATAAAAGA
27561547 AAA
1 AAA
27561550 GATAGAGGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
10 32 0.62
12 20 0.38
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (10 bp):
AAATAAAAGA
Found at i:27561520 original size:22 final size:24
Alignment explanation
Indices: 27561483--27561526 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
27561473 TAAAAAAGGC
27561483 AAATAAAAGATAAAATAAAAGATA
1 AAATAAAAGATAAAATAAAAGATA
27561507 AAAT-AAA-ATAAAATAAAAGA
1 AAATAAAAGATAAAATAAAAGA
27561527 AAAGAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.65
23 3 0.15
24 4 0.20
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (24 bp):
AAATAAAAGATAAAATAAAAGATA
Found at i:27561550 original size:5 final size:5
Alignment explanation
Indices: 27561506--27561551 Score: 65
Period size: 5 Copynumber: 9.2 Consensus size: 5
27561496 AATAAAAGAT
* * *
27561506 AAAAT AAAAT AAAAT AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
27561552 TAGAGGATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (5 bp):
AAAAG
Found at i:27572815 original size:13 final size:13
Alignment explanation
Indices: 27572797--27572822 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27572787 TAAGTTGGAA
27572797 AAATACAAAAGTG
1 AAATACAAAAGTG
27572810 AAATACAAAAGTG
1 AAATACAAAAGTG
27572823 GGAGTTTGAT
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:0.62, C:0.08, G:0.15, T:0.15
Consensus pattern (13 bp):
AAATACAAAAGTG
Found at i:27573387 original size:21 final size:21
Alignment explanation
Indices: 27573361--27573474 Score: 149
Period size: 21 Copynumber: 5.4 Consensus size: 21
27573351 AACAAGATCG
27573361 TCAAGGAGTCCATCGTCATCA
1 TCAAGGAGTCCATCGTCATCA
* **
27573382 TCAAGGAGTCCA-CAGTTATTT
1 TCAAGGAGTCCATC-GTCATCA
*
27573403 TCAAGGAGTCCATCGTCATCG
1 TCAAGGAGTCCATCGTCATCA
* *
27573424 TCAAGGACTCCATCATCATCA
1 TCAAGGAGTCCATCGTCATCA
*
27573445 TCAAGGAGTCCATCGTCATCG
1 TCAAGGAGTCCATCGTCATCA
27573466 TCAAGGAGT
1 TCAAGGAGT
27573475 TCGTCTTCCT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
20 1 0.01
21 77 0.97
22 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (21 bp):
TCAAGGAGTCCATCGTCATCA
Found at i:27573420 original size:42 final size:42
Alignment explanation
Indices: 27573361--27573474 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 42
27573351 AACAAGATCG
* * **
27573361 TCAAGGAGTCCATCGTCATCATCAAGGAGTCCA-CAGTTATTT
1 TCAAGGAGTCCATCGTCATCGTCAAGGAGTCCATCA-TCATCA
*
27573403 TCAAGGAGTCCATCGTCATCGTCAAGGACTCCATCATCATCA
1 TCAAGGAGTCCATCGTCATCGTCAAGGAGTCCATCATCATCA
27573445 TCAAGGAGTCCATCGTCATCGTCAAGGAGT
1 TCAAGGAGTCCATCGTCATCGTCAAGGAGT
27573475 TCGTCTTCCT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 63 0.97
43 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (42 bp):
TCAAGGAGTCCATCGTCATCGTCAAGGAGTCCATCATCATCA
Found at i:27573762 original size:15 final size:16
Alignment explanation
Indices: 27573742--27573777 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
27573732 ATATTGTAAT
27573742 AAGAAC-GTGAAAGAA
1 AAGAACAGTGAAAGAA
*
27573757 AAGAACATTGAAAGAA
1 AAGAACAGTGAAAGAA
27573773 AAGAA
1 AAGAA
27573778 AGGCAAGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.64, C:0.06, G:0.22, T:0.08
Consensus pattern (16 bp):
AAGAACAGTGAAAGAA
Found at i:27577708 original size:13 final size:13
Alignment explanation
Indices: 27577690--27577727 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
27577680 AGTTCTTTAT
27577690 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
27577703 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
27577716 TGCTTTTGAGAA
1 TGCTTTTGAGAA
27577728 ATTTGAGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.29, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:27577922 original size:28 final size:30
Alignment explanation
Indices: 27577890--27577955 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 30
27577880 ATTATAACTT
27577890 ATTTTTAATATTT-TAA-T-ATATAATATTA
1 ATTTTTAATATTTCTAAGTAAT-TAATATTA
*
27577918 ATTTTAAATATTTCTAAGTAATTAATATTA
1 ATTTTTAATATTTCTAAGTAATTAATATTA
27577948 ATTATTTA
1 ATT-TTTA
27577956 TAAAATTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 12 0.38
29 3 0.09
30 12 0.38
31 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (30 bp):
ATTTTTAATATTTCTAAGTAATTAATATTA
Found at i:27577946 original size:30 final size:28
Alignment explanation
Indices: 27577890--27577950 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
27577880 ATTATAACTT
*
27577890 ATTTTTAATATTTTAATATATAATATTA
1 ATTTTAAATATTTTAATATATAATATTA
27577918 ATTTTAAATATTTCTAAGTA-ATTAATATTA
1 ATTTTAAATATTT-TAA-TATA-TAATATTA
27577948 ATT
1 ATT
27577951 ATTTATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 12 0.41
29 4 0.14
30 13 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
ATTTTAAATATTTTAATATATAATATTA
Found at i:27579963 original size:72 final size:72
Alignment explanation
Indices: 27579801--27579937 Score: 238
Period size: 72 Copynumber: 1.9 Consensus size: 72
27579791 ATAATTTAGT
*
27579801 ATAAATAAGTAGAACATAAATTCAATATCCAAAGACCAAACATAAACAACTATTAATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAG
27579866 ATTACAC
66 ATTACAC
* * *
27579873 ATAAATAAGTAGAACATAAATTCAATGTCCAAAAACCAAACATAAATAACTATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAG
27579938 TTTAGCATTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.23
Consensus pattern (72 bp):
ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAG
ATTACAC
Found at i:27580313 original size:18 final size:18
Alignment explanation
Indices: 27580292--27580339 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
27580282 CCCATCAATT
* *
27580292 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATA
*
27580310 TGAACATCACTTAAAATA
1 TGAACATCATTTAAAATA
27580328 TGAACATCATTT
1 TGAACATCATTT
27580340 CTCATATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTAAAATA
Found at i:27585347 original size:138 final size:137
Alignment explanation
Indices: 27585092--27585348 Score: 304
Period size: 138 Copynumber: 1.9 Consensus size: 137
27585082 GGTCTGCTCA
* *
27585092 CACAAGCTGACAGTCAAAATGTAGCTACACGATGTCGCTCACACAAGCTGACGAGTATCCGCAAC
1 CACAAGCTGACAGTCAAAATGTAGCTACACAATGTCGCTCACACAAGCTGACGAGTATCCGAAAC
* * * * **
27585157 AAATGTTGGAACTCAGCCATCGGTAGGACATTCAAGACCAGCACCCTCAACATGGTAACCTGGGT
66 AAATGCTGGAACTAAGCCATCGGTAGAACATTCAAGACCAGAACCCAAAACATGGTAACCTGGGT
27585222 CTACTAT
131 CTACTAT
** * * *
27585229 CACAAGCTGACAGTCGGAATGTAAGCTACACAATG-CTGCTTACACAAGTTGATGAGTATCCGAA
1 CACAAGCTGACAGTCAAAATGT-AGCTACACAATGTC-GCTCACACAAGCTGACGAGTATCCGAA
* * * *
27585293 ACAAATGCT-GAGCCTAAGGCATTGGTAGAACATTC-AGAACCGGAACCCAAAACATG
64 ACAAATGCTGGA-ACTAAGCCATCGGTAGAACATTCAAG-ACCAGAACCCAAAACATG
27585349 AAAACCCTAA
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
137 25 0.25
138 74 0.75
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.19
Consensus pattern (137 bp):
CACAAGCTGACAGTCAAAATGTAGCTACACAATGTCGCTCACACAAGCTGACGAGTATCCGAAAC
AAATGCTGGAACTAAGCCATCGGTAGAACATTCAAGACCAGAACCCAAAACATGGTAACCTGGGT
CTACTAT
Found at i:27591655 original size:5 final size:5
Alignment explanation
Indices: 27591645--27591680 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
27591635 TTTAACTAAC
27591645 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA
27591681 GTACCAATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:27593876 original size:20 final size:20
Alignment explanation
Indices: 27593839--27593882 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
27593829 ACATATGTTA
*
27593839 TTTCTTCTTCTTCATTTTTT
1 TTTCTTCTTCTTCATTTTTC
*
27593859 TTTCTT-TTCTTCTCTTTTTC
1 TTTCTTCTTCTTC-ATTTTTC
27593879 TTTC
1 TTTC
27593883 ATGAGCATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTCTTCTTCTTCATTTTTC
Found at i:27594702 original size:16 final size:16
Alignment explanation
Indices: 27594681--27594714 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27594671 GAAAAACAAA
*
27594681 AATCCTAATAGAACCT
1 AATCCTAACAGAACCT
*
27594697 AATCCTAACATAACCT
1 AATCCTAACAGAACCT
27594713 AA
1 AA
27594715 GAAAGGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (16 bp):
AATCCTAACAGAACCT
Found at i:27600576 original size:79 final size:79
Alignment explanation
Indices: 27600465--27600688 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
27600455 GCTACTCGTT
* * *
27600465 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
27600530 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
27600545 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGA
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
27600608 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * *
27600623 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
27600687 GA
64 GA
27600689 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 35 0.28
79 57 0.46
80 33 0.26
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:27600582 original size:39 final size:40
Alignment explanation
Indices: 27600465--27600688 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
27600455 GCTACTCGTT
* *
27600465 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
27600505 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
27600545 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
27600584 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
27600623 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
27600664 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27600689 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 73 0.45
40 76 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:27621944 original size:16 final size:16
Alignment explanation
Indices: 27621923--27621956 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27621913 GAAAAACAAA
*
27621923 AATCCTAATAGAACCT
1 AATCCTAACAGAACCT
*
27621939 AATCCTAACATAACCT
1 AATCCTAACAGAACCT
27621955 AA
1 AA
27621957 GAAAGGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.26, G:0.03, T:0.24
Consensus pattern (16 bp):
AATCCTAACAGAACCT
Found at i:27627743 original size:39 final size:40
Alignment explanation
Indices: 27627626--27627847 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
27627616 GCTACTCGTT
* *
27627626 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
27627666 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
27627706 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
27627745 CAAATGCCTTCGGG-CTTAG-CC-GAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
27627782 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
27627823 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27627848 CATCATTCAA
Statistics
Matches: 163, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
36 2 0.01
37 27 0.17
38 7 0.04
39 45 0.28
40 69 0.42
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:27635728 original size:79 final size:78
Alignment explanation
Indices: 27635617--27635840 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 78
27635607 GCTACTCGTT
* * *
27635617 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
27635682 ATTGAGTAACTCGCA
65 ATT-AGTAACTCGCA
*
27635697 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCAG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-G
* *
27635760 AATTAGTATCTCGCA
64 GATTAGTAACTCGCA
* * * * *
27635775 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
27635839 GA
64 GA
27635841 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
78 31 0.25
79 63 0.50
80 31 0.25
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTAGTAACTCGCA
Found at i:27635734 original size:39 final size:39
Alignment explanation
Indices: 27635617--27635840 Score: 267
Period size: 40 Copynumber: 5.7 Consensus size: 39
27635607 GCTACTCGTT
* *
27635617 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
27635657 CAAATGCCTTCGGGACTTAACCCGGATTGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-AGTAACTCGCA
*
27635697 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* *
27635736 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGATTAGTAACTCGCA
* * * *
27635775 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
27635816 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27635841 CATCATTCAA
Statistics
Matches: 163, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
38 2 0.01
39 70 0.43
40 80 0.49
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:27638854 original size:50 final size:53
Alignment explanation
Indices: 27638747--27638861 Score: 155
Period size: 56 Copynumber: 2.2 Consensus size: 53
27638737 ATTTGGGTAA
*
27638747 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-TGAG--TATG
*
27638803 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA-C-TGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATGAGTATG
*
27638853 AGAAGTCCC
1 AGAGGTCCC
27638862 CCATAGACAT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
50 11 0.20
53 4 0.07
55 1 0.02
56 40 0.71
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATGAGTATG
Found at i:27649024 original size:9 final size:9
Alignment explanation
Indices: 27649010--27649041 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
27649000 TAAGGTTTAG
27649010 TATGGTTAA
1 TATGGTTAA
27649019 TATGGTTAA
1 TATGGTTAA
*
27649028 TAAGGTTAA
1 TATGGTTAA
27649037 TATGG
1 TATGG
27649042 AGTCTAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.41
Consensus pattern (9 bp):
TATGGTTAA
Found at i:27649590 original size:16 final size:16
Alignment explanation
Indices: 27649566--27649597 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27649556 ATATTGATAC
*
27649566 AAAATTTTGAAAATTT
1 AAAAGTTTGAAAATTT
27649582 AAAAGTTTGAAAATTT
1 AAAAGTTTGAAAATTT
27649598 TACAAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (16 bp):
AAAAGTTTGAAAATTT
Found at i:27652433 original size:21 final size:21
Alignment explanation
Indices: 27652388--27652433 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
27652378 CACGGCTGGA
* *
27652388 CACACGGGCATCTGGGACAGT
1 CACACGGGCATATGGGACAGC
*
27652409 CACACGGGCATATGGGATAGC
1 CACACGGGCATATGGGACAGC
27652430 CACA
1 CACA
27652434 TGACCATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.30, T:0.13
Consensus pattern (21 bp):
CACACGGGCATATGGGACAGC
Found at i:27659140 original size:50 final size:50
Alignment explanation
Indices: 27659025--27659294 Score: 305
Period size: 50 Copynumber: 5.4 Consensus size: 50
27659015 TGCGAAAGCT
* * * * *
27659025 ATGTCCCAGACATAGTCTTACATGGGATGTTTTC-TGTAC--TGCCAATGCC
1 ATGTCCCAGACATGGTCTTACATGGGA-CTTCTCATAT-CGGTGCCAACGCC
* * * * * * *
27659074 ATATCGCAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGGTGCCAACGCC
** * *
27659124 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGGTGCCAACGCC
*
27659174 ATGTCCCAGACATGGTCTTACAAGGGA-TCTCTCATATCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACT-TCTCATATCGGTGCCAACGCC
* *
27659224 ATGTCCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGT-CCCAGACATGGTCTTACATGGGACTTCTCATATCGGTGCCAACGCC
27659275 ATGTCCCAGACATGGTCTTA
1 ATGTCCCAGACATGGTCTTA
27659295 TACGAGATCG
Statistics
Matches: 189, Mismatches: 26, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
48 5 0.03
49 25 0.13
50 113 0.60
51 46 0.24
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGGTGCCAACGCC
Found at i:27659270 original size:101 final size:100
Alignment explanation
Indices: 27659064--27659294 Score: 347
Period size: 101 Copynumber: 2.3 Consensus size: 100
27659054 TTTTCTGTAC
* * * * * * * *
27659064 TGCCAATGCCATATCGCAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAAGGGAGTTCTCATATCGGTGCCAACGCCATGTC
*
27659129 CCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
66 CCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
27659164 TGCCAACGCCATGTCCCAGACATGGTCTTACAAGGGA-TCTCTCATATCGGTGCCAACGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACAAGGGAGT-TCTCATATCGGTGCCAACGCCATGT
*
27659228 CCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
65 -CCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
27659265 TGCCAACGCCATGTCCCAGACATGGTCTTA
1 TGCCAACGCCATGTCCCAGACATGGTCTTA
27659295 TACGAGATCG
Statistics
Matches: 119, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
99 1 0.01
100 54 0.45
101 64 0.54
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACAAGGGAGTTCTCATATCGGTGCCAACGCCATGTC
CCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:27661025 original size:40 final size:40
Alignment explanation
Indices: 27660979--27661203 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
27660969 CTTGCGCAAG
* * * *
27660979 GCCTTCGGGTCTTAGCCTGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
27661019 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
27661059 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
27661099 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
27661139 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
27661180 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
27661204 CATTCGAATA
Statistics
Matches: 158, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 128 0.81
41 29 0.18
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:27661074 original size:80 final size:79
Alignment explanation
Indices: 27660943--27661203 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 79
27660933 CTCAAGTAAT
* * * * * * * *
27660943 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCTGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCC-GGATATAGT
*
27661006 CACTAGCATAAATGC
65 CACTAGCACAAATGC
* * *
27661021 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAG-CCGGATATAG
*
27661085 TCGCTAGCACAAATGC
64 TCACTAGCACAAATGC
* * * * *
27661101 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAG-CCGGATATAGT
*
27661166 CACCTAGCACAAAAGC
65 CA-CTAGCACAAATGC
27661182 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
27661204 CATTCGAATA
Statistics
Matches: 153, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
78 12 0.08
79 15 0.10
80 91 0.59
81 35 0.23
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCGGATATAGTC
ACTAGCACAAATGC
Found at i:27667386 original size:18 final size:18
Alignment explanation
Indices: 27667363--27667399 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
27667353 TTGAGTGTTC
27667363 TTTGACAACTCAATCCTA
1 TTTGACAACTCAATCCTA
27667381 TTTGACAACTCAATCCTA
1 TTTGACAACTCAATCCTA
27667399 T
1 T
27667400 CTTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (18 bp):
TTTGACAACTCAATCCTA
Found at i:27668742 original size:16 final size:16
Alignment explanation
Indices: 27668702--27668735 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27668692 AAAATTTTTG
*
27668702 AAAAAGAATTATTTTAT
1 AAAAA-AATTATTTAAT
27668719 AAAAAAATTATTTAAT
1 AAAAAAATTATTTAAT
27668735 A
1 A
27668736 TGAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
AAAAAAATTATTTAAT
Found at i:27669951 original size:52 final size:52
Alignment explanation
Indices: 27669868--27669969 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
27669858 ATGCTTTAGC
* *
27669868 ACACTTAAACTCAGGTCTTTTTACATCGACAACAATGCCCATGTCAATCAGT
1 ACACTTAAACTCAGGTCTTTTTACATCGACAACAATACCCATATCAATCAGT
* * * *
27669920 ACACTTGAACTTAGGTCTTTTTACATTGACAACAATACTCATATCAATCA
1 ACACTTAAACTCAGGTCTTTTTACATCGACAACAATACCCATATCAATCA
27669970 AGCTAAAACT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (52 bp):
ACACTTAAACTCAGGTCTTTTTACATCGACAACAATACCCATATCAATCAGT
Found at i:27673849 original size:16 final size:16
Alignment explanation
Indices: 27673830--27673862 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
27673820 CTTGCAATTC
27673830 GACAGGCTCACACTTT
1 GACAGGCTCACACTTT
*
27673846 GACAGGCTCGCACTTT
1 GACAGGCTCACACTTT
27673862 G
1 G
27673863 CTTACTGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.24
Consensus pattern (16 bp):
GACAGGCTCACACTTT
Found at i:27674049 original size:25 final size:24
Alignment explanation
Indices: 27674021--27674101 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
27674011 CTGAGCTCAT
*
27674021 AGCTCTCACTTCTCGCTAAGCTTGC
1 AGCT-TCACTTCTTGCTAAGCTTGC
* *
27674046 AGCTTTGACATCTTGCTAAGCTTGC
1 AGC-TTCACTTCTTGCTAAGCTTGC
* *
27674071 AGCTTGCACATTTTTGCTGAGCTTGC
1 AGCTT-CAC-TTCTTGCTAAGCTTGC
27674097 AGCTT
1 AGCTT
27674102 GCACATTGGA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 2 0.04
25 25 0.54
26 19 0.41
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (24 bp):
AGCTTCACTTCTTGCTAAGCTTGC
Found at i:27674094 original size:26 final size:26
Alignment explanation
Indices: 27674030--27674108 Score: 108
Period size: 26 Copynumber: 3.1 Consensus size: 26
27674020 TAGCTCTCAC
*
27674030 TTCTCGCTAAGCTTGCAGCTTTG-ACA
1 TTCTTGCTAAGCTTGCAGC-TTGCACA
27674056 -TCTTGCTAAGCTTGCAGCTTGCACA
1 TTCTTGCTAAGCTTGCAGCTTGCACA
* *
27674081 TTTTTGCTGAGCTTGCAGCTTGCACA
1 TTCTTGCTAAGCTTGCAGCTTGCACA
27674107 TT
1 TT
27674109 GGAAAGCTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
24 3 0.06
25 20 0.42
26 25 0.52
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (26 bp):
TTCTTGCTAAGCTTGCAGCTTGCACA
Found at i:27674267 original size:65 final size:65
Alignment explanation
Indices: 27674191--27674312 Score: 208
Period size: 65 Copynumber: 1.9 Consensus size: 65
27674181 GAGTTGATGC
* *
27674191 TGTCTTTTCTACAAGCAGTCCTTAATGACATGCTTGTGTTTTGACAGCTTCTTTCTTGCTGTTGT
1 TGTCTTCTCTACAAGCAGTCCTCAATGACATGCTTGTGTTTTGACAGCTTCTTTCTTGCTGTTGT
**
27674256 TGTCTTCTCTACAAGCAGTCCTCAATGACATGCTTGTGTTTTGACATTTTCTTTCTT
1 TGTCTTCTCTACAAGCAGTCCTCAATGACATGCTTGTGTTTTGACAGCTTCTTTCTT
27674313 TTTAACAAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.46
Consensus pattern (65 bp):
TGTCTTCTCTACAAGCAGTCCTCAATGACATGCTTGTGTTTTGACAGCTTCTTTCTTGCTGTTGT
Found at i:27675048 original size:4 final size:4
Alignment explanation
Indices: 27675041--27675106 Score: 123
Period size: 4 Copynumber: 16.5 Consensus size: 4
27675031 ATATGCATGC
27675041 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
27675089 ATGT ATGT ATGT GTGT AT
1 ATGT ATGT ATGT ATGT AT
27675107 ATATATTAGC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 60 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:27677080 original size:34 final size:34
Alignment explanation
Indices: 27677033--27677107 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
27677023 TCGTTTTTAA
* *
27677033 TAGGGTTAGGGTTTTGTTTATTGAAATTAGGATT
1 TAGGGTTAGGGTTTTATTTATTGAAAGTAGGATT
* *
27677067 TAGGGTTCA-GGTTTTATTTATTTAAAGTAGGGTT
1 TAGGGTT-AGGGTTTTATTTATTGAAAGTAGGATT
27677101 TAGGGTT
1 TAGGGTT
27677108 TTTTTAGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 35 0.97
35 1 0.03
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (34 bp):
TAGGGTTAGGGTTTTATTTATTGAAAGTAGGATT
Found at i:27680272 original size:25 final size:26
Alignment explanation
Indices: 27680244--27680316 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 26
27680234 AGAGTTTACA
*
27680244 GATTCT-CAACTCGTATA-AGCTTATC
1 GATTCTACAACTCGTA-AGAGCATATC
*
27680269 GATT-TACAGCTCGTAAGAGCATATC
1 GATTCTACAACTCGTAAGAGCATATC
* * *
27680294 GATTC-ATAGCTCGTATGAGCATA
1 GATTCTACAACTCGTAAGAGCATA
27680317 CATGTACAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 2 0.05
25 39 0.95
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (26 bp):
GATTCTACAACTCGTAAGAGCATATC
Found at i:27697477 original size:25 final size:25
Alignment explanation
Indices: 27697449--27697576 Score: 104
Period size: 25 Copynumber: 5.2 Consensus size: 25
27697439 TAGCTGGTGA
27697449 GAGCTTACCGATTCTCAGCTCGTAT
1 GAGCTTACCGATTCTCAGCTCGTAT
* * * *
27697474 GAGCATATCGATT-GCAGCTTGTGA-
1 GAGCTTACCGATTCTCAGCTCGT-AT
* *
27697498 GAGCTTACCAATTCTCAGCTTGTAT
1 GAGCTTACCGATTCTCAGCTCGTAT
27697523 GAGCTTACCGATT-TACAGCTCGTGA-
1 GAGCTTACCGATTCT-CAGCTCGT-AT
* * *
27697548 GAGCATATCGATTCAT-AGCTAGTAT
1 GAGCTTACCGATTC-TCAGCTCGTAT
27697573 GAGC
1 GAGC
27697577 ATACATGTAC
Statistics
Matches: 82, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
24 20 0.24
25 60 0.73
26 1 0.01
27 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (25 bp):
GAGCTTACCGATTCTCAGCTCGTAT
Done.