Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 125 of 214
Found at i:38145054 original size:25 final size:25
Alignment explanation
Indices: 38145026--38145106 Score: 92
Period size: 25 Copynumber: 3.3 Consensus size: 25
38145016 TATAAATTAG
* * *
38145026 TAAGCTCAGATGAGCAGAGAATCGA
1 TAAGCTCATACGAGCTGAGAATCGA
* * *
38145051 TAAGCTCTTACGAGCTG-CAATCGG
1 TAAGCTCATACGAGCTGAGAATCGA
*
38145075 TAAGCTCATACGAGCTGAGTATCGA
1 TAAGCTCATACGAGCTGAGAATCGA
38145100 TAAGCTC
1 TAAGCTC
38145107 TCGCAAGCTG
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
24 21 0.47
25 24 0.53
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAGAATCGA
Found at i:38145078 original size:24 final size:24
Alignment explanation
Indices: 38145045--38145106 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 24
38145035 ATGAGCAGAG
*
38145045 AATCGATAAGCTCTTACGAGCTGC
1 AATCGATAAGCTCATACGAGCTGC
*
38145069 AATCGGTAAGCTCATACGAGCTG-
1 AATCGATAAGCTCATACGAGCTGC
38145092 AGTATCGATAAGCTC
1 A--ATCGATAAGCTC
38145107 TCGCAAGCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.03
24 21 0.64
25 11 0.33
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (24 bp):
AATCGATAAGCTCATACGAGCTGC
Found at i:38145116 original size:49 final size:49
Alignment explanation
Indices: 38145025--38145120 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 49
38145015 CTATAAATTA
* * *
38145025 GTAAGCTCAGATGAGCAGAGAATCGATAAGCTCTTACGAGCTGCAATCG
1 GTAAGCTCAGACGAGCAGAGAATCGATAAGCTCTCACAAGCTGCAATCG
* * * *
38145074 GTAAGCTCATACGAGCTGAGTATCGATAAGCTCTCGCAAGCTGCAAT
1 GTAAGCTCAGACGAGCAGAGAATCGATAAGCTCTCACAAGCTGCAAT
38145121 TTGTAATCCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (49 bp):
GTAAGCTCAGACGAGCAGAGAATCGATAAGCTCTCACAAGCTGCAATCG
Found at i:38151448 original size:27 final size:26
Alignment explanation
Indices: 38151398--38151453 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
38151388 ATTTTTTTTA
*
38151398 AAATTTTATAATTTTTTAAAAAATAT
1 AAATGTTATAATTTTTTAAAAAATAT
*
38151424 AAATGTTA-AATTATTTTATAAAAATTT
1 AAATGTTATAATT-TTTTA-AAAAATAT
38151451 AAA
1 AAA
38151454 AATTATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 12 0.46
27 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
AAATGTTATAATTTTTTAAAAAATAT
Found at i:38153076 original size:44 final size:44
Alignment explanation
Indices: 38152996--38153483 Score: 284
Period size: 44 Copynumber: 10.9 Consensus size: 44
38152986 TCATGGTGAA
*
38152996 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* * * ** *
38153040 TCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATAGTGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA--CAAG
* * * * *
38153085 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTATAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC----CA-CA-AG
* * * *
38153135 ATCTTATCTCTCTGAATTTGCAGTAGAGCAGA-TCATAG-CA-AA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACAAG
*
38153177 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
* * **
38153221 TCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCATA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CA-AG
* * * *
38153266 TCTTATTTCCCTGAAGTTGCAGTGGAACAGA-TAAAGCTATAAATTACATA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-------CACA-AG
* * * *
38153316 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG-CA-AAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACAAG
* * **
38153358 T-TTATCTCCCTAAAGTTGCAGTAGG-GCAGGTTGAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCCACAAG
* * ** *
38153401 TCTTATCTACCTGAAGTTGCAGTGGAGCAGACTGAAGATGGAGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--CCACAAG
* * * *
38153446 TCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
38153484 TATAAATTGA
Statistics
Matches: 346, Mismatches: 65, Indels: 67
0.72 0.14 0.14
Matches are distributed among these distances:
41 55 0.16
42 10 0.03
43 9 0.03
44 102 0.29
45 92 0.27
46 7 0.02
48 2 0.01
49 2 0.01
50 35 0.10
51 32 0.09
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
Found at i:38153197 original size:41 final size:41
Alignment explanation
Indices: 38153135--38153431 Score: 177
Period size: 41 Copynumber: 6.8 Consensus size: 41
38153125 TAAATTATAG
* *
38153135 ATCTTATCTCTCTGAATTTGCAGTAGAGCAGATCATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAA
* * *
38153176 ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGA-AGCCACA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCATAG-CA-A
* * * *
38153219 AGTCTCATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAT
1 A-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAA
* * * * *
38153265 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATAAAGCTATAAATTACAT
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT----C-AT--A--GCAA
*
38153315 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAA
* * * *
38153356 A-CTTTATCTCCCTAAAGTTGCAGTAGGGCAGGTTGA-AGTTACAA
1 ATC-TTATCTCCCTGAAGTTGCAGTAGAGCA-GATCATAG---CAA
* * *
38153400 GTCTTATCTACCTGAAGTTGCAGTGGAGCAGA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGA
38153432 CTGAAGATGG
Statistics
Matches: 203, Mismatches: 33, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
40 1 0.00
41 59 0.29
42 7 0.03
43 4 0.02
44 57 0.28
45 32 0.16
46 4 0.02
47 4 0.02
48 3 0.01
50 32 0.16
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (41 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCATAGCAA
Found at i:38153402 original size:180 final size:179
Alignment explanation
Indices: 38152994--38153491 Score: 777
Period size: 180 Copynumber: 2.8 Consensus size: 179
38152984 CATCATGGTG
* * *
38152994 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACAAGTCTTATCTCCCTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTG
38153059 CAGTGGAGCAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCT
66 CAGTGGAGCAGACTGAAGATA--GAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCT
* *
38153124 ATAAATTATAGATCTTATCTCTCTGAATTTGCAGTAGAGCAGATCATAGCA
129 ATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCA
* *
38153175 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTCATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTG
38153240 CAGTGGAGCAGACTGAAGATAGCATATCTTATTTCCCTGAAGTTGCAGTGGAACAGA-TAAAGCT
66 CAGTGGAGCAGACTGAAGATAG-A-ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCT
*
38153304 ATAAATTACATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCA
129 ATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCA
* * ** *
38153355 AA-CTTTATCTCCCTAAAGTTGCAGTAGG-GCAGGTTGAAGTTACAAGTCTTATCTACCTGAAGT
1 AATC-TTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGT
*
38153418 TGCAGTGGAGCAGACTGAAGATGGAGAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTAAAG
64 TGCAGTGGAGCAGACTGAAGAT--AGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAG
38153483 CTATAAATT
127 CTATAAATT
38153492 GAAGTGTTTT
Statistics
Matches: 294, Mismatches: 16, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
179 2 0.01
180 160 0.54
181 130 0.44
182 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (179 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTG
CAGTGGAGCAGACTGAAGATAGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAT
AAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCA
Found at i:38154833 original size:50 final size:50
Alignment explanation
Indices: 38154758--38154947 Score: 222
Period size: 51 Copynumber: 3.8 Consensus size: 50
38154748 ATTATTATCA
* * * *
38154758 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTT
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACTT
* *
38154808 TTCGGTTCACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAGC-C
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAA-CTT
* *
38154858 TTCTGGTACACATAGTAGCCTGCACATAGTACTACACAAGTGACCATTA-TCT
1 TTC-GGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-AACT-T
* * * *
38154910 ATCGATACACGTAGTAGCCTGCACTTAGTACTACACAC
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACAC
38154948 ATGTTTATAG
Statistics
Matches: 120, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
50 45 0.38
51 72 0.60
52 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
TTCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACTT
Found at i:38156436 original size:44 final size:42
Alignment explanation
Indices: 38156321--38156614 Score: 198
Period size: 44 Copynumber: 6.6 Consensus size: 42
38156311 TAAATTGCAT
* * *
38156321 ATCTTATCTCTCTGAAGTTGCAATAGAGCAGA-TCATAGC-A-A
1 ATCTTATCTCCCTGAAGTTGC-ATGGAGCAGATTGA-AGCTACA
* ** * * *
38156362 ACCTTATCTCCCTGAAGTTGTGGTGTAGCAGGTTGAAGTTACA
1 ATCTTATCTCCCTGAAGTTG-CATGGAGCAGATTGAAGCTACA
38156405 AGTCTTATCTCCCTGAAGTTGCTATGGAGCAGATTGAAGACATGATACAA
1 A-TCTTATCTCCCTGAAGTTGC-ATGGAGCAGATTGAAG-C----TAC-A
* * *
38156455 ATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTAAAGCCACAA
1 ATCTTATCTCCCTGAAGTTGCA-TGGAGCAGATTGAAGCTAC-A
* * * * * *
38156499 ACCTTATATCCCTAAAGTTGCAGTAGAGCCGATTGAAGATACTA
1 ATCTTATCTCCCTGAAGTTGCA-TGGAGCAGATTGAAGCTAC-A
* * *
38156543 ATCTTATCTCGCTGAAGTTGCAATGGAGCATATTGAAACTACTA
1 ATCTTATCTCCCTGAAGTTGC-ATGGAGCAGATTGAAGCTAC-A
* *
38156587 ATCCTACCTCCCTGAAGTTGCAGTGGAG
1 ATCTTATCTCCCTGAAGTTGCA-TGGAG
38156615 TGGATTAAAA
Statistics
Matches: 198, Mismatches: 40, Indels: 27
0.75 0.15 0.10
Matches are distributed among these distances:
41 26 0.13
42 3 0.02
43 3 0.02
44 125 0.63
45 1 0.01
48 2 0.01
49 36 0.18
50 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (42 bp):
ATCTTATCTCCCTGAAGTTGCATGGAGCAGATTGAAGCTACA
Found at i:38156533 original size:93 final size:93
Alignment explanation
Indices: 38156359--38156537 Score: 209
Period size: 93 Copynumber: 1.9 Consensus size: 93
38156349 CAGATCATAG
* * * * ** ** * *
38156359 CAAACCTTATCTCCCTGAAGTTGTGGTGTAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATATCCCTAAAGT
*
38156424 TGCTATGGAGCAGATTGAAGACATGATA
66 TGCTATAGAGCAGATTGAAGACATGATA
*
38156452 CAAATCTTATCTCCCTGAAGTT-TCAGTGGAGCAGATTAAAGCCACAAACCTTATATCCCTAAAG
1 CAAACCTTATCTCCCTGAAGTTGT-AGTGGAGCAGATTAAAGCCACAAACCTTATATCCCTAAAG
*
38156516 TTGC-AGTAGAGCCGATTGAAGA
65 TTGCTA-TAGAGCAGATTGAAGA
38156538 TACTAATCTT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (93 bp):
CAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATATCCCTAAAGT
TGCTATAGAGCAGATTGAAGACATGATA
Found at i:38156569 original size:137 final size:134
Alignment explanation
Indices: 38156321--38156579 Score: 315
Period size: 137 Copynumber: 1.9 Consensus size: 134
38156311 TAAATTGCAT
* * * * **
38156321 ATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCATAGCAAACCTTATCTCCCTGAAGTTGTGGT
1 ATCTTATCTCCCTGAAGTTGCAATAGAGCAGATCAAAGCAAACCTTATATCCCTAAAGTTGCAGT
* * *
38156386 GTAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCTATGGAGCAGATTGAAGACATGAT
66 GTAGCAGATTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACATGAT
38156451 ACAA
131 ACAA
* * * *
38156455 ATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTAAAGCCACAAACCTTATATCCCTAAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAATAGAGCAGATCAAAG---CAAACCTTATATCCCTAAAGTTGC
* * *
38156520 AGTAG-AGCCGATTGAAGATACTAA-TCTTATCTCGCTGAAGTTGCAATGGAGCATATTGAA
63 AGT-GTAGCAGATTGAAGATAC-AAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAA
38156580 ACTACTAATC
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
134 32 0.31
137 69 0.66
138 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (134 bp):
ATCTTATCTCCCTGAAGTTGCAATAGAGCAGATCAAAGCAAACCTTATATCCCTAAAGTTGCAGT
GTAGCAGATTGAAGATACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGACATGAT
ACAA
Found at i:38157170 original size:13 final size:13
Alignment explanation
Indices: 38157152--38157176 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38157142 ATCCCGTCGC
38157152 CCACTTGCACCGT
1 CCACTTGCACCGT
38157165 CCACTTGCACCG
1 CCACTTGCACCG
38157177 GCAAAAATCA
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:0.16, C:0.48, G:0.16, T:0.20
Consensus pattern (13 bp):
CCACTTGCACCGT
Found at i:38158303 original size:15 final size:15
Alignment explanation
Indices: 38158285--38158337 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
38158275 TTTTAGATTT
38158285 TTATTATTGTTACTA
1 TTATTATTGTTACTA
**
38158300 TTATTATTAATACCATCA
1 TTATTATTGTTA-C-T-A
*
38158318 TTATTATTGTTAATA
1 TTATTATTGTTACTA
38158333 TTATT
1 TTATT
38158338 CTTAAATTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 16 0.53
16 2 0.07
17 1 0.03
18 11 0.37
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (15 bp):
TTATTATTGTTACTA
Found at i:38161933 original size:42 final size:42
Alignment explanation
Indices: 38161869--38161951 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
38161859 ATTTAAAAAG
38161869 TTAGTTGAAAGGTTCATCAAGATAGGCATCGTGAAGTTTGAA
1 TTAGTTGAAAGGTTCATCAAGATAGGCATCGTGAAGTTTGAA
*
38161911 TTAGTTGAAAGGTTCATTAAGATAGGCATCGTGAAGTTTGA
1 TTAGTTGAAAGGTTCATCAAGATAGGCATCGTGAAGTTTGA
38161952 CGATCCATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.33
Consensus pattern (42 bp):
TTAGTTGAAAGGTTCATCAAGATAGGCATCGTGAAGTTTGAA
Found at i:38164088 original size:41 final size:44
Alignment explanation
Indices: 38164031--38164145 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 44
38164021 AATTATAGAT
*
38164031 CTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TCATAG-CA-AA-C
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATTCA-AGCCACAAGC
* * * * *
38164072 CTTATCTCTATGAAGTTGCAGTGGAGCAAATTGAAGCCACAAGT
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATTCAAGCCACAAGC
*
38164116 CTTATCTCTCTGAAGTTGCAGTAAAGCAGA
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA
38164146 CTGAAGATAG
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
41 28 0.47
42 4 0.07
43 2 0.03
44 26 0.43
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGATTCAAGCCACAAGC
Found at i:38164131 original size:44 final size:43
Alignment explanation
Indices: 38164029--38164916 Score: 434
Period size: 44 Copynumber: 19.8 Consensus size: 43
38164019 TAAATTATAG
* * * *
38164029 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGA-TCATAG-CA-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACA
* ** *
38164070 ACCTTATCTCTATGAAGTTGCAGTGGAGCAAATTGAAGCCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* ** * **
38164113 AGTCTTATCTCTCTGAAGTTGCAGTAAAGCAGACTGAAGATAGCGA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C-A
* * * * * * *
38164159 ATCTTATTTCCCTGAAGTTGTAGTGCAACAGATTAAAGCTATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CA
** *
38164203 ATTACAGATTCTATCTCCCTGAAGTTGCAGTCAAGAAGATT-ATAG-CA-A
1 A-T-C----T-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACA
* * * **
38164251 A-CATTATCTCTCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACA
1 ATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* **
38164294 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C-A
* * * *
38164340 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-------CACA
* * * *
38164390 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAG-CAAA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACA
* *
38164433 AT-TTATCTCCCTGAAGTTGCAGTGGGGCAGGTTGAAGCCACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* * * **
38164475 AGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATAGCGA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-C-A
* * * * *
38164521 ATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAACTATAAATTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-------CACA
* * * * * *
38164571 GATCTTATCTCTCTGAAATTGCAGTAGAGTAGATCGTAG-CA-A
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* * * ***
38164613 ACCTTATCTCCCTGAAGTTGCTGTGGAGCAGGTTGAATTTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
* *** **
38164656 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGATAACCA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCA-CA
*
38164702 AGCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGGCTACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-C---C-AC-A
* * * *
38164751 ATCTCATCTCCTTAAAGTTGCAGTGGAGCAGATTAAAGACGCA-A
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-C-CACA
* * * * **
38164795 ACCTTATATCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CA
* * * *
38164839 ATCTTCTCTCCTTGAAGTTGCAGTGGAGCATATTGAAGCTACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAC-A
* * * *
38164883 TTCCTATCTCCCTAAAGTTGCAGTGGAGCGGATT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
38164917 AAAACGATGA
Statistics
Matches: 644, Mismatches: 146, Indels: 111
0.71 0.16 0.12
Matches are distributed among these distances:
41 110 0.17
42 18 0.03
43 11 0.02
44 220 0.34
45 135 0.21
46 11 0.02
47 2 0.00
48 3 0.00
49 37 0.06
50 7 0.01
51 86 0.13
52 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACA
Found at i:38164327 original size:181 final size:181
Alignment explanation
Indices: 38164019--38164919 Score: 1080
Period size: 181 Copynumber: 5.0 Consensus size: 181
38164009 TAGAATAGAT
* * **
38164019 TAAATTATAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCTATG
1 TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTG
** * * **
38164084 AAGTTGCAGTGGAGCAAATTGAAGCCACAAGTCTTATCTCTCTGAAGTTGCAGTAAAGCAGACTG
66 AAGTTGCAGTGGAGCAGGTTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
* *
38164149 AAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGCAACAGATTAAAGCTA
131 AAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
* * * * *
38164200 TAAATTACAGAT-TCTATCTCCCTGAAGTTGCAGTCA-AGAAGATTATAGCAAACATTATCTCTC
1 TAAATTACAGATCT-TATCTCTCTGAAGTTGCAGT-AGAGCAGATCATAGCAAACCTTATCTCCC
* *
38164263 TGAAGTTGCAGTGGGGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
64 TGAAGTTGCAGTGGAGCAGGTTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
38164328 TGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
129 TGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
**
38164381 TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAATTTATCTCCCTG
1 TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTG
* * * *
38164446 AAGTTGCAGTGGGGCAGGTTGAAGCCACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTG
66 AAGTTGCAGTGGAGCAGGTTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
*
38164511 AAGATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAA-CTA
131 AAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT-AAAGCTA
* * *
38164562 TAAATTACAGATCTTATCTCTCTGAAATTGCAGTAGAGTAGATCGTAGCAAACCTTATCTCCCTG
1 TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTG
* ** * **
38164627 AAGTTGCTGTGGAGCAGGTTGAATTTACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAA
66 AAGTTGCAGTGGAGCAGGTTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
* * * * * *
38164692 AAGATAACCAAGCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--A
131 AAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
* *** * * * * * * *
38164741 CAGGCTACAAATCTCATCTC-CTTAAAGTTGCAGTGGAGCAGATTAAAGACGCAAACCTTATATC
1 TAAATTACAGATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGA-T-CATA-GCAAACCTTATCTC
* * * *
38164805 CCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAA-TCTTCTCTCCTTGAAGTTGCAGTGGAGCA
62 CCTGAAGTTGCAGTGGAGCAGGTTGAAGCTA-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
* * * * * * * * * *
38164869 TATTGAAGCTA-CTATTCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAA
126 GACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAA
38164920 ACGATGAATC
Statistics
Matches: 626, Mismatches: 83, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
178 1 0.00
179 31 0.05
180 5 0.01
181 509 0.81
182 77 0.12
183 3 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (181 bp):
TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCCTG
AAGTTGCAGTGGAGCAGGTTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTG
AAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTA
Found at i:38164546 original size:89 final size:89
Alignment explanation
Indices: 38164392--38164868 Score: 339
Period size: 89 Copynumber: 5.3 Consensus size: 89
38164382 AAATTACAGA
* * * * ** *
38164392 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAAAATTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGT
*
38164453 AGTGGGGCAGGTTGAAGCCACAAG
66 AGTGGAGCAGGTTGAAGCCACAAG
* * * * *
38164477 TCTTATCTCCCTAAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGT
* * * * *
38164542 AGTGGAACAGATTGAAACTATAAATTACAG
66 AGTGGAGCAGGTTGAAGC----CA-CA-AG
* * * *
38164572 ATCTTATCTCTCTGAAA-TTGCAGTAGAGTAGA-T--CG-TAGCAAACCTTATCTCCCTGAAGTT
1 -TCTTATCTCCCT-AAAGTTGCAGTGGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTT
***
38164632 GCT-GTGGAGCAGGTTGAATTTACAAG
64 G-TAGTGGAGCAGGTTGAAGCCACAAG
* * * * * * *
38164658 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGATAACCAAGCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGT
* *
38164723 AGTGGAGCAGATTGAAGACAGGCTACAAA
66 AGTGGAGCAGGTTGAAG-C---C-ACAAG
* * * * *
38164752 TCTCATCTCCTTAAAGTTGCAGTGGAGCAGATTAAAGA-CGCAAACCTTATATCCCTGAAGTTGT
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGT
**
38164816 AGTGGAGCAGGTTGAAGATACCAA-
66 AGTGGAGCAGGTTGAAGCCA-CAAG
* * *
38164840 TCTTCTCTCCTTGAAGTTGCAGTGGAGCA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCA
38164869 TATTGAAGCT
Statistics
Matches: 303, Mismatches: 64, Indels: 47
0.73 0.15 0.11
Matches are distributed among these distances:
84 2 0.01
85 50 0.17
86 3 0.01
87 1 0.00
88 29 0.10
89 77 0.25
92 36 0.12
93 39 0.13
94 37 0.12
95 3 0.01
96 23 0.08
97 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (89 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAACCTTATCTCCCTGAAGTTGT
AGTGGAGCAGGTTGAAGCCACAAG
Found at i:38164779 original size:138 final size:137
Alignment explanation
Indices: 38164618--38164919 Score: 319
Period size: 138 Copynumber: 2.2 Consensus size: 137
38164608 AGCAAACCTT
* * * * *** ** *
38164618 ATCTCCCTGAAGTTGCTGTGGAGCAGGTTGAATTTACAAGTCTTATCTCCCTGAAGTTGCAATGG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGACACAAACCTTATATCCCTGAAGTTGCAATGG
38164683 AGCAGACAAAAGATAACCAAGCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGGCTA
66 AGCAGACAAAAGAT-ACCAAGCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGGCTA
38164748 CAAATCTC
130 CAAATCTC
* * * *
38164756 ATCTCCTTAAAGTTGCAGTGGAGCAGATTAAAGACGCAAACCTTATATCCCTGAAGTTGTAGTGG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGACACAAACCTTATATCCCTGAAGTTGCAATGG
**** * * * *
38164821 AGCAGGTTGAAGATACCAATCTTCTCTCCTTGAAGTTGCAGTGGAGCATATT---GA-A-GCTAC
66 AGCAGACAAAAGATACCAAGCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGGCTAC
* *
38164881 TATTC-C
131 AAATCTC
*
38164887 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAA
1 -ATCTCCCTAAAGTTGCAGTGGAGCAGATTAAA
38164920 ACGATGAATC
Statistics
Matches: 137, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
131 1 0.01
132 38 0.28
133 1 0.01
134 2 0.01
137 34 0.25
138 61 0.45
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (137 bp):
ATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGACACAAACCTTATATCCCTGAAGTTGCAATGG
AGCAGACAAAAGATACCAAGCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGGCTAC
AAATCTC
Found at i:38165223 original size:15 final size:16
Alignment explanation
Indices: 38165203--38165235 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
38165193 GATCAGGCCC
*
38165203 AAATCAGAC-CAAAAA
1 AAATCAAACACAAAAA
38165218 AAATCAAACACAAAAA
1 AAATCAAACACAAAAA
38165234 AA
1 AA
38165236 TAAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.73, C:0.18, G:0.03, T:0.06
Consensus pattern (16 bp):
AAATCAAACACAAAAA
Found at i:38165764 original size:20 final size:20
Alignment explanation
Indices: 38165739--38165778 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
38165729 TTAAAAATTG
38165739 CATATAGAAA-ATATATATAA
1 CATATA-AAATATATATATAA
38165759 CATATAAAATATATATATAA
1 CATATAAAATATATATATAA
38165779 ACAAAAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
CATATAAAATATATATATAA
Found at i:38170516 original size:7 final size:7
Alignment explanation
Indices: 38170504--38170528 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38170494 TTTTTACTCT
38170504 TTTTAGA
1 TTTTAGA
38170511 TTTTAGA
1 TTTTAGA
38170518 TTTTAGA
1 TTTTAGA
38170525 TTTT
1 TTTT
38170529 TTTGTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (7 bp):
TTTTAGA
Found at i:38172424 original size:20 final size:20
Alignment explanation
Indices: 38172399--38172453 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
38172389 TTACATTAAC
38172399 TTTAATATTAAGATAATAAA
1 TTTAATATTAAGATAATAAA
38172419 TTTAATATTAA-ATTAATAAA
1 TTTAATATTAAGA-TAATAAA
*
38172439 -TTACTATTAAGATAA
1 TTTAATATTAAGATAA
38172454 GTATTAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 13 0.41
20 19 0.59
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
TTTAATATTAAGATAATAAA
Found at i:38173292 original size:42 final size:42
Alignment explanation
Indices: 38173233--38173317 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
38173223 GCAATTACTT
38173233 TAATCATGGAGTCAGTCCACAAGAAGTACCATGATTGAAAAC
1 TAATCATGGAGTCAGTCCACAAGAAGTACCATGATTGAAAAC
38173275 TAATCATGGAGTCAGTCCACAAGAAGTACCATGATTGAAAAC
1 TAATCATGGAGTCAGTCCACAAGAAGTACCATGATTGAAAAC
38173317 T
1 T
38173318 CCTTATTGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (42 bp):
TAATCATGGAGTCAGTCCACAAGAAGTACCATGATTGAAAAC
Found at i:38174165 original size:16 final size:16
Alignment explanation
Indices: 38174144--38174174 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38174134 CTATGCATGC
*
38174144 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
38174160 AAAATACAAAAGACA
1 AAAATACAAAAGACA
38174175 TAATAGTGAA
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:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:38178990 original size:16 final size:16
Alignment explanation
Indices: 38178969--38179000 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
38178959 TTCTTAGTTT
38178969 AATTTTCATATTTCAC
1 AATTTTCATATTTCAC
38178985 AATTTTCATATTTCAC
1 AATTTTCATATTTCAC
38179001 CACATATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTTCATATTTCAC
Found at i:38180189 original size:17 final size:17
Alignment explanation
Indices: 38180167--38180203 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
38180157 TCCCTCCTCC
38180167 TTTTTCCATCACTTCAA
1 TTTTTCCATCACTTCAA
38180184 TTTTTCCATCACTTCAA
1 TTTTTCCATCACTTCAA
38180201 TTT
1 TTT
38180204 AATCATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (17 bp):
TTTTTCCATCACTTCAA
Found at i:38181733 original size:19 final size:18
Alignment explanation
Indices: 38181709--38181747 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
38181699 CTTATTTTAA
38181709 AATTATTCTTCTAAAAAAT
1 AATTATT-TTCTAAAAAAT
* *
38181728 AATTATTTTTTCAAAAAT
1 AATTATTTTCTAAAAAAT
38181746 AA
1 AA
38181748 CATAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTATTTTCTAAAAAAT
Found at i:38182396 original size:3 final size:3
Alignment explanation
Indices: 38182388--38182416 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
38182378 CCCAAGGCCA
38182388 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
38182417 CGAAATATCT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:38188316 original size:3 final size:3
Alignment explanation
Indices: 38188310--38188363 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
38188300 AGATTATTAA
* *
38188310 ATG ATG ACG ATG ACG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
*
38188358 GTG ATG
1 ATG ATG
38188364 GTGACGAACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.31, C:0.04, G:0.35, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:38193446 original size:41 final size:42
Alignment explanation
Indices: 38193385--38193471 Score: 110
Period size: 41 Copynumber: 2.1 Consensus size: 42
38193375 TGGAAAATGC
*
38193385 ATAATTAAAAAAATAAATAAACATAACATG-A-AAAAATTAAAA
1 ATAATTAAAAAAATAAATAAA-ATAACAAGTACAAAAA-TAAAA
38193427 ATAA-TAAAAGAAAT-AATAAAATAACAAGTACAAAAATAAAA
1 ATAATTAAAA-AAATAAATAAAATAACAAGTACAAAAATAAAA
38193468 ATAA
1 ATAA
38193472 AATAATAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
40 7 0.17
41 21 0.51
42 13 0.32
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (42 bp):
ATAATTAAAAAAATAAATAAAATAACAAGTACAAAAATAAAA
Found at i:38194982 original size:615 final size:614
Alignment explanation
Indices: 38193803--38194999 Score: 1569
Period size: 615 Copynumber: 1.9 Consensus size: 614
38193793 AATAATACTA
**
38193803 GATTGAAGGGTATTTAAAAAGTGGGAGGATTAAAATTGTAAATATCCCTTCTTAATAAAAACATG
1 GATTGAAGGGTATTTAAAAAGCAGGAGGATTAAAATTGTAAATATCCCTTCTTAATAAAAACATG
* * ** ** **
38193868 CGAATTCTAGATGTGGATCGAATCGGGTCACGAGTTGCGTCAAATTATGTCGTTTTGACTTCTGG
66 CGAATTCCAAATGTGGATCGAATCGGACCACGAGTTGCGTCAAACGACATCGTTTTGACTTCTGG
* * * *
38193933 AAATCGGCCCAAAATAGTGTCGTTTTGCACTACTATTTTAGCCAATAATCTTTCAAAAAAATCAT
131 AAATCGGCCCAAAAGAGTGTCGTTTTGCACCACTACTTAAGCCAATAATCTTTCAAAAAAATCAT
* * * * * *
38193998 TTCAAACCCTAGTTTTTTTTTTAATTTGTAACCCTCTCCCCTCTAGTCAAGCCACCCTTTGGTCG
196 TTCAAACCCTAGTTTTTTTTTTAATCTGAAACCCTCTCCCCTCTAGCCAAGCCACCCTTCGGCCA
* * * * * *
38194063 GCCTTGACCCTAGTGAGTCACCGTCGTGCTAGCCATCAGTTTCCGGCGACAGCTTCGCCATTTCC
261 CCCTTGACCCGAGAGAGTCACCGTCGTGCTAGCCATCAGTTGCCGGCAACAGCTCCGCCATTTCC
* ** *
38194128 GGTGGCCGAAAAAACCCAAAATGCCCCATTTAACCCCCTTTTCAAGAGGAGCCCTATTTTGGGGT
326 GGTGCCCGAAAAAACCCAAAATGCCCCATTTAAAACCCTTTTCAAGAGGAGCCCCATTTTGGGGT
**
38194193 TAAAAACACTGGAATCTGGGCAAAATCAGGCAAAAAATAGAGAAACCATTCGGTTTCTTCTTCTC
391 TAAAAACACCAGAATCTGGGCAAAATCAGGCAAAAAATAGAGAAACCATTCGGTTTCTTCTTCTC
* *** *
38194258 TCCGGCGATTGAAATAGGTAAAAAAAAACTATTTTATTATTTTTCTATTTTTTCGAAGAATAAAT
456 TCCGGCAACCAAAACAGGTAAAAAAAAACTATTTTATTATTTTTCTATTTTTTCGAAGAATAAAT
*
38194323 AAAAACAAATTAAAAGAATCACATTTTTTTAATTTGATTTTTTTATTCGATTTCTCTTTTTTTTA
521 AAAAACAAATTAAAAGAATCACATTTTTTTAATTTGATTTTTTTATTCAATTTCT-TTTTTTTTA
38194388 ATAAAAAAAACCCACTTACAATCGGTTTTT
585 ATAAAAAAAACCCACTTACAATCGGTTTTT
38194418 GATTGAAGGGTATTTAAAAAGCAGGAGGATTAAAATT-TCAAATATCCCTTCTTAATAAAAACAC
1 GATTGAAGGGTATTTAAAAAGCAGGAGGATTAAAATTGT-AAATATCCCTTCTTAATAAAAACA-
* * * *
38194482 T-C-AGATTCCAAATGTGGATGGAGTCGGACCACGGGTTGCGTCAAAACGACATTGTTTTGACGT
64 TGCGA-ATTCCAAATGTGGATCGAATCGGACCACGAGTTGCGTC-AAACGACATCGTTTTGAC-T
*
38194545 T-TGGAAATCTGCCCAAAACGA-TGTCGTTTTGCACCACTACTTAAGCCAATAATCTTTCAAAAA
126 TCTGGAAATCGGCCCAAAA-GAGTGTCGTTTTGCACCACTACTTAAGCCAATAATCTTTCAAAAA
* * *
38194608 AATCATTTCACACCCTAG-TTTTTTTTTAATCTGAAATCCTCTCCCCTTTAGCCAAGCCACCCTT
190 AATCATTTCAAACCCTAGTTTTTTTTTTAATCTGAAACCCTCTCCCCTCTAGCCAAGCCACCCTT
* * *
38194672 CGGCCACCCTTGACCTCGACGAGTATTCACCGT-GT-C-GGCCA-CAGGTTGCCGGCAACGGCTC
255 CGGCCACCCTTGACC-CGA-GAG-AGTCACCGTCGTGCTAGCCATCA-GTTGCCGGCAACAGCTC
* * *
38194733 CGCCA-TTCTCGGTGCCC-AGGAAAACCCAAAATGCCCCTTTTTAAAACCCTTTTCAAGAGGATC
316 CGCCATTTC-CGGTGCCCGA-AAAAACCCAAAATGCCCC-ATTTAAAACCCTTTTCAAGAGGAGC
* * * * * *
38194796 CCCGTTTT-GGGTTAAAAACACCAGAGTCTGGGCAAAATCGGGCCAAAAATAGAGAAGCCCTTCG
378 CCCATTTTGGGGTTAAAAACACCAGAATCTGGGCAAAATCAGGCAAAAAATAGAGAAACCATTCG
* * *
38194860 GTTTCTTCTTCTCTCCGGCAACCAAAACAGGT-AAGAAAAACTCTTTTATTGTTTTTCTATTTTT
443 GTTTCTTCTTCTCTCCGGCAACCAAAACAGGTAAAAAAAAACTATTTTATTATTTTTCTATTTTT
* * *
38194924 TCGAAGAATAAATAAAAATAAATTAAGAGAATCACCCTTTTTTTTAATTTGA-TTTTTTATTCAA
508 TCGAAGAATAAATAAAAACAAATTAAAAGAATCA--CATTTTTTTAATTTGATTTTTTTATTCAA
38194988 TTTCTTTTTTTT
571 TTTCTTTTTTTT
38195000 AAACACCCAC
Statistics
Matches: 503, Mismatches: 64, Indels: 31
0.84 0.11 0.05
Matches are distributed among these distances:
614 76 0.15
615 281 0.56
616 131 0.26
617 7 0.01
618 8 0.02
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (614 bp):
GATTGAAGGGTATTTAAAAAGCAGGAGGATTAAAATTGTAAATATCCCTTCTTAATAAAAACATG
CGAATTCCAAATGTGGATCGAATCGGACCACGAGTTGCGTCAAACGACATCGTTTTGACTTCTGG
AAATCGGCCCAAAAGAGTGTCGTTTTGCACCACTACTTAAGCCAATAATCTTTCAAAAAAATCAT
TTCAAACCCTAGTTTTTTTTTTAATCTGAAACCCTCTCCCCTCTAGCCAAGCCACCCTTCGGCCA
CCCTTGACCCGAGAGAGTCACCGTCGTGCTAGCCATCAGTTGCCGGCAACAGCTCCGCCATTTCC
GGTGCCCGAAAAAACCCAAAATGCCCCATTTAAAACCCTTTTCAAGAGGAGCCCCATTTTGGGGT
TAAAAACACCAGAATCTGGGCAAAATCAGGCAAAAAATAGAGAAACCATTCGGTTTCTTCTTCTC
TCCGGCAACCAAAACAGGTAAAAAAAAACTATTTTATTATTTTTCTATTTTTTCGAAGAATAAAT
AAAAACAAATTAAAAGAATCACATTTTTTTAATTTGATTTTTTTATTCAATTTCTTTTTTTTTAA
TAAAAAAAACCCACTTACAATCGGTTTTT
Found at i:38195315 original size:24 final size:27
Alignment explanation
Indices: 38195288--38195337 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 27
38195278 GACTTTTAAT
38195288 GTTTTGGATT-T-TTT-TTTATTTTTG
1 GTTTTGGATTCTGTTTGTTTATTTTTG
*
38195312 GTTTTGTATTCTGTTTGTTTATTTTT
1 GTTTTGGATTCTGTTTGTTTATTTTT
38195338 TTAGTCTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 9 0.41
25 1 0.05
26 3 0.14
27 9 0.41
ACGTcount: A:0.08, C:0.02, G:0.16, T:0.74
Consensus pattern (27 bp):
GTTTTGGATTCTGTTTGTTTATTTTTG
Found at i:38201135 original size:21 final size:21
Alignment explanation
Indices: 38201111--38201196 Score: 93
Period size: 21 Copynumber: 4.1 Consensus size: 21
38201101 CCGAAAACGC
38201111 GAACAAAAGCTCATAAGAGCT
1 GAACAAAAGCTCATAAGAGCT
*
38201132 GAACAATAA-CTCAAAAGAGCT
1 GAACAA-AAGCTCATAAGAGCT
* * *
38201153 GAACAGAAGCTCGTGAGAGCT
1 GAACAAAAGCTCATAAGAGCT
* * *
38201174 AAACAGAAGCTCGTAAGAGCT
1 GAACAAAAGCTCATAAGAGCT
38201195 GA
1 GA
38201197 TCCACCCGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
20 2 0.04
21 51 0.93
22 2 0.04
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (21 bp):
GAACAAAAGCTCATAAGAGCT
Found at i:38212081 original size:16 final size:16
Alignment explanation
Indices: 38212052--38212085 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
38212042 AGAATCTCAA
38212052 TTAACTATTTTAATTT
1 TTAACTATTTTAATTT
38212068 TTAA-TATTTATAATTT
1 TTAACTATTT-TAATTT
38212084 TT
1 TT
38212086 GAAGTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAACTATTTTAATTT
Found at i:38212959 original size:31 final size:31
Alignment explanation
Indices: 38212922--38212983 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
38212912 AATAGTCATA
*
38212922 GAACTATTCGAAAGTTCTCATTTAAGCCATT
1 GAACTATTCAAAAGTTCTCATTTAAGCCATT
* * *
38212953 GAACTATTCAAAAGTTTTTATTTAAGTCATT
1 GAACTATTCAAAAGTTCTCATTTAAGCCATT
38212984 AGATTGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (31 bp):
GAACTATTCAAAAGTTCTCATTTAAGCCATT
Found at i:38214080 original size:18 final size:19
Alignment explanation
Indices: 38214047--38214082 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38214037 AATTTTTTTA
*
38214047 ATTTTATTTATGTAATTAG
1 ATTTTATTTATATAATTAG
38214066 ATTTT-TTTATATAATTA
1 ATTTTATTTATATAATTA
38214083 AAGGTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
ATTTTATTTATATAATTAG
Found at i:38214534 original size:16 final size:16
Alignment explanation
Indices: 38214500--38214534 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
38214490 CCAAATTAAG
*
38214500 TTTTATATGTTCATAA
1 TTTTATATGTGCATAA
*
38214516 TTTTATATGTGCATTA
1 TTTTATATGTGCATAA
38214532 TTT
1 TTT
38214535 CATTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.60
Consensus pattern (16 bp):
TTTTATATGTGCATAA
Found at i:38227574 original size:2 final size:2
Alignment explanation
Indices: 38227567--38227597 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38227557 TCCTTTTATT
38227567 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
38227598 TCATATTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:38231601 original size:20 final size:19
Alignment explanation
Indices: 38231556--38231602 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
38231546 ATATGTATGT
* **
38231556 ATATATGTATATATAAATT
1 ATATAAGTATATATAAAAA
38231575 ATA-AAGTATATATAAAAAA
1 ATATAAGTATATAT-AAAAA
38231594 ATATAAGTA
1 ATATAAGTA
38231603 CGTACATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 9 0.39
19 9 0.39
20 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (19 bp):
ATATAAGTATATATAAAAA
Found at i:38231648 original size:18 final size:18
Alignment explanation
Indices: 38231625--38231664 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
38231615 AAAATTAAAA
38231625 ATATGTAAGTATGTATAT
1 ATATGTAAGTATGTATAT
38231643 ATATGTAAGTATGTATAT
1 ATATGTAAGTATGTATAT
38231661 ATAT
1 ATAT
38231665 AACAAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (18 bp):
ATATGTAAGTATGTATAT
Found at i:38231727 original size:3 final size:3
Alignment explanation
Indices: 38231721--38231788 Score: 70
Period size: 3 Copynumber: 23.3 Consensus size: 3
38231711 AGGTAAGTAG
* **
38231721 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA CTAA TTA TTT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
*
38231766 TAA TAA TAA -AA -AA TAA CAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
38231789 GAGACTAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 6 0.11
3 48 0.86
4 2 0.04
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:38232910 original size:19 final size:19
Alignment explanation
Indices: 38232874--38232921 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
38232864 TTTTATTCGG
*
38232874 GTTTGGGCCACATTTTTAT
1 GTTTGGGCCACATGTTTAT
38232893 GTTTGGGCCAC-TGGTTTAT
1 GTTTGGGCCACAT-GTTTAT
*
38232912 TTATTGGGCC
1 GT-TTGGGCC
38232922 CGGGCAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.68
20 7 0.28
ACGTcount: A:0.12, C:0.17, G:0.27, T:0.44
Consensus pattern (19 bp):
GTTTGGGCCACATGTTTAT
Found at i:38238206 original size:20 final size:20
Alignment explanation
Indices: 38238181--38238220 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
38238171 CTGGATCGAT
*
38238181 AATAATTAAAAATTAATAAA
1 AATAATAAAAAATTAATAAA
*
38238201 AATAATAAAAAATTATTAAA
1 AATAATAAAAAATTAATAAA
38238221 TCGGTTCAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AATAATAAAAAATTAATAAA
Found at i:38245115 original size:25 final size:26
Alignment explanation
Indices: 38245069--38245121 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
38245059 GATACATTTA
* * *
38245069 AAATATTCATGATAAATTAAAA-AAT
1 AAATATACATGACAAATCAAAATAAT
*
38245094 AAATATACATGACAACTCAAAATAAT
1 AAATATACATGACAAATCAAAATAAT
38245120 AA
1 AA
38245122 TCCATAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.26
Consensus pattern (26 bp):
AAATATACATGACAAATCAAAATAAT
Found at i:38246707 original size:44 final size:44
Alignment explanation
Indices: 38246563--38247069 Score: 314
Period size: 44 Copynumber: 11.8 Consensus size: 44
38246553 CTTCAATTCA
* * * * * *
38246563 CTCCGCTGTAACTTCATGGAGATAAGGT-TAGTGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATCT-GTGGTTTTAATCTG
* * * ***
38246607 CTTCACTGTAACTTCAGGGAGATAAGA-C--TGGATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAATCTG
* * *
38246648 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAATCTG
* * * **
38246692 CTCCACTGCAGCTTCAGGGAGATAGGAT-TG-GCTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTT-TT-AATCTG
* * ***
38246736 CTCCACTGCAACTTCAGGGAGATAAGA-C--TAGATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAATCTG
* * * *
38246777 CTCTACTGCAACTTCAGAGAAATAAGATATGTGGTTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAATCTG
* * **
38246821 CTCCACTGCAACTTCAGGGAGATAGGAT-TG-GCTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTT-TT-AATCTG
* ***
38246865 CTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAATCTG
* * * *
38246906 TTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAATCTG
* * * * * * **
38246950 CTCCACTGTAATTTCAGTGAGATAGGAT-T-AGCTTCTTCTGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTT-TT-AATCTG
* * * * *
38246994 CTCCACTGTAACTTCAGGAAGATAAGA-C--TGGATGTGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAATCTG
* *
38247035 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGT
38247070 GATTTGTAGC
Statistics
Matches: 347, Mismatches: 92, Indels: 48
0.71 0.19 0.10
Matches are distributed among these distances:
41 113 0.33
42 13 0.04
43 16 0.05
44 205 0.59
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTTAATCTG
Found at i:38246715 original size:85 final size:85
Alignment explanation
Indices: 38246563--38246973 Score: 316
Period size: 85 Copynumber: 4.8 Consensus size: 85
38246553 CTTCAATTCA
* * * * * * *
38246563 CTCCGCTGTAACTTCATG-GAGATAAGGT-TAGTGGCTTTAATCTACTTCACTGTAACTTCAGGG
1 CTCCACTGCAACTTCA-GAGAGATAAGATCT-GTGGTTTTAATCTGCTCCACTGCAACTTCAGGG
38246626 AGATAAGACTGGATGCGATCTG
64 AGATAAGACTGGATGCGATCTG
* * *
38246648 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAGCTTCAGGGAG
1 CTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * * *
38246713 ATAGGATTGGCTTCTTCTG-TCTG
66 ATAAGACTGG---ATGC-GATCTG
* * * *** * * *
38246736 CTCCACTGCAACTTCAGGGAGATAAGA-C--TAGATGCGATCTGCTCTACTGCAACTTCAGAGAA
1 CTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
* * ***
38246798 ATAAGATATGTGGTTTTAATCTG
66 ATAAG--A-CTGGATGCGATCTG
* * * **
38246821 CTCCACTGCAACTTCAGGGAGATAGGAT-TG-GCTTCTTCTGTCTGCTCCACTGCAACTTCAGGG
1 CTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TT-AATCTGCTCCACTGCAACTTCAGGG
38246884 AGATAAGACTGGATGCGATCTG
64 AGATAAGACTGGATGCGATCTG
* * * * * *
38246906 TTCTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGTAATTTCAGTGAG
1 CTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
38246971 ATA
66 ATA
38246974 GGATTAGCTT
Statistics
Matches: 251, Mismatches: 58, Indels: 34
0.73 0.17 0.10
Matches are distributed among these distances:
84 1 0.00
85 176 0.70
86 7 0.03
87 5 0.02
88 61 0.24
89 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (85 bp):
CTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGACTGGATGCGATCTG
Found at i:38246804 original size:129 final size:129
Alignment explanation
Indices: 38246610--38247069 Score: 785
Period size: 129 Copynumber: 3.6 Consensus size: 129
38246600 TAATCTACTT
*
38246610 CACTGTAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* *
38246675 TCTGTGGTTTTAATCCGCTCCACTGCAGCTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTC
66 TCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTC
* *
38246739 CACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAGAAATAAGA
1 CACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
*
38246804 TATGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTC
66 TCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTC
* *
38246868 CACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGTTCTACTGCAACTTTAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* * * *
38246933 TCTGTGGTTTTAATCTGCTCCACTGTAATTTCAGTGAGATAGGATTAGCTTCTTCTGTCTGCTC
66 TCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTC
* * *
38246997 CACTGTAACTTCAGGAAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
38247062 TCTGTGGT
66 TCTGTGGT
38247070 GATTTGTAGC
Statistics
Matches: 311, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 311 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (129 bp):
CACTGCAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
TCTGTGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTCTGCTC
Found at i:38247034 original size:85 final size:85
Alignment explanation
Indices: 38246644--38247062 Score: 307
Period size: 85 Copynumber: 4.9 Consensus size: 85
38246634 CTGGATGCGA
* * * * * *
38246644 TCTGCTCTACTGCAACTTCA-GAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAGCTTCA
1 TCTGCTCCACTGCAACTTCAGGA-AGATAAGA-C--TGGATGTGATCTGCTCCACTGCAACTTCA
* *
38246708 GGGAGATAGGATTGGCTTCTTCTG
62 GAGAGATAAGATTGGCTTCTTCTG
* * * *
38246732 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGTGATCTGCTCCACTGCAACTTCAGAGA
* * **
38246797 AATAAGATATGTGGTT-TT-AA
66 GATAAGAT-TG-GCTTCTTCTG
* * * * *
38246817 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTG-TCTGCTCCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTGG----ATGTGATCTGCTCCACTGCAACTTCA
* * * * *
38246881 GGGAGATAAGACTGGATGCGATCTG
62 GAGAGATAAGATTGGCTTC-TTCTG
* * * * * *
38246906 T-T-CT--ACTGCAACTTTA-GAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGTAATTTCA
1 TCTGCTCCACTGCAACTTCAGGA-AGATAAGA-C--TGGATGTGATCTGCTCCACTGCAACTTCA
* * *
38246966 GTGAGATAGGATTAGCTTCTTCTG
62 GAGAGATAAGATTGGCTTCTTCTG
* *
38246990 TCTGCTCCACTGTAACTTCAGGAAGATAAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGTGATCTGCTCCACTGCAACTTCAGAGA
38247055 GATAAGAT
66 GATAAGAT
38247063 CTGTGGTGAT
Statistics
Matches: 255, Mismatches: 56, Indels: 43
0.72 0.16 0.12
Matches are distributed among these distances:
84 9 0.04
85 145 0.57
86 8 0.03
87 9 0.04
88 78 0.31
89 6 0.02
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (85 bp):
TCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGTGATCTGCTCCACTGCAACTTCAGAGA
GATAAGATTGGCTTCTTCTG
Found at i:38247225 original size:44 final size:44
Alignment explanation
Indices: 38247078--38247250 Score: 123
Period size: 44 Copynumber: 3.9 Consensus size: 44
38247068 GTGATTTGTA
* * * *
38247078 GCTTTAATCTGTTCCACTACAACGTCAGGGAAATAAGATTCACTG
1 GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATT-ACTG
* * ** ** * * *
38247123 TCTTCAGTCTGCTCTGCTGTAACTTCAGGGAGACAAGACTT-GTA
1 GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGA-TTACTG
* * * *
38247167 ACTTCAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTG
1 GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTACTG
* * * **
38247211 GCTTTAATCTGCTCCATTGCAACTTCAATGAGATAAGATT
1 GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATT
38247251 CGCCATCTTC
Statistics
Matches: 94, Mismatches: 32, Indels: 5
0.72 0.24 0.04
Matches are distributed among these distances:
43 2 0.02
44 63 0.67
45 27 0.29
46 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTACTG
Found at i:38248606 original size:44 final size:43
Alignment explanation
Indices: 38248537--38248623 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 43
38248527 TATTTATTTA
* *
38248537 TTTTTTTAGACTCAAAGCGCTTTTTGCTGGTTTTCACCTTGGT
1 TTTTTTTAGACTCAAAGCGCCTTTTGCGGGTTTTCACCTTGGT
* *
38248580 TTTTTTTATGACTCAAAGTGCCTTTTGCGGGTTTTCACTTTGGT
1 TTTTTTTA-GACTCAAAGCGCCTTTTGCGGGTTTTCACCTTGGT
38248624 CCCTTCTTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 8 0.21
44 31 0.79
ACGTcount: A:0.14, C:0.17, G:0.20, T:0.49
Consensus pattern (43 bp):
TTTTTTTAGACTCAAAGCGCCTTTTGCGGGTTTTCACCTTGGT
Found at i:38261867 original size:34 final size:34
Alignment explanation
Indices: 38261819--38261888 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
38261809 AACCAATATG
38261819 TCATATAGGCACCTCAATCACACCCAAACATTCA
1 TCATATAGGCACCTCAATCACACCCAAACATTCA
* *
38261853 TCATTTAGGCACCTCAATCACACTCAAACATTCA
1 TCATATAGGCACCTCAATCACACCCAAACATTCA
38261887 TC
1 TC
38261889 CTTACATTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.34, G:0.06, T:0.24
Consensus pattern (34 bp):
TCATATAGGCACCTCAATCACACCCAAACATTCA
Found at i:38263245 original size:76 final size:75
Alignment explanation
Indices: 38263083--38263347 Score: 266
Period size: 76 Copynumber: 3.5 Consensus size: 75
38263073 CATAGCAGAT
* * *
38263083 AGAAGCTCATAAGAGTTAATCCAACTGAAACACCAAATAGAAGCTCATAAGAGCTAATCT-AATC
1 AGAAGCTCATAAGAGTTGATCCAACCGAAACACCAAATAGAAGCTCATAAGAGCTGAT-TGAATC
*
38263147 G-AATCGTCAAAT
65 GAAAT-G-CAAAC
* *
38263159 AGAAGCTCATAAGAGCTGATCCAACCGAAACACCAACTAGAAGCTCATAAGAGCTGATTGAA-CT
1 AGAAGCTCATAAGAGTTGATCCAACCGAAACACCAAATAGAAGCTCATAAGAGCTGATTGAATC-
38263223 GAAATGCAAAAC
65 GAAATGC-AAAC
* ** ** ** * * * **
38263235 AAAATTTCATAAGAGTTGATTGAACCGAAATGCAAAAGAAAAGCTCATAAGAGCTGAACGAATCG
1 AGAAGCTCATAAGAGTTGATCCAACCGAAACACCAAATAGAAGCTCATAAGAGCTGATTGAATCG
38263300 AAATGCCAAAC
66 AAATG-CAAAC
* * *
38263311 AGACGCTCATAAGAGTTGATCCAACTGAAACGCCAAA
1 AGAAGCTCATAAGAGTTGATCCAACCGAAACACCAAA
38263348 CATAAAGTAT
Statistics
Matches: 154, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
75 3 0.02
76 146 0.95
77 5 0.03
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.18
Consensus pattern (75 bp):
AGAAGCTCATAAGAGTTGATCCAACCGAAACACCAAATAGAAGCTCATAAGAGCTGATTGAATCG
AAATGCAAAC
Found at i:38263346 original size:38 final size:38
Alignment explanation
Indices: 38263083--38263349 Score: 207
Period size: 38 Copynumber: 7.0 Consensus size: 38
38263073 CATAGCAGAT
* * * *
38263083 AGAAGCTCATAAGAGTTAATCCAACTGAAACACCAAAT
1 AGAAGCTCATAAGAGCTGATCCAACTGAAACGCCAAAC
* * * * *
38263121 AGAAGCTCATAAGAGCTAATCTAA-TCGAATCGTCAAAT
1 AGAAGCTCATAAGAGCTGATCCAACT-GAAACGCCAAAC
* *
38263159 AGAAGCTCATAAGAGCTGATCCAACCGAAACACC-AAC
1 AGAAGCTCATAAGAGCTGATCCAACTGAAACGCCAAAC
** * *
38263196 TAGAAGCTCATAAGAGCTGATTGAACTGAAATGCAAAAC
1 -AGAAGCTCATAAGAGCTGATCCAACTGAAACGCCAAAC
* ** * ** * * * *
38263235 AAAATTTCATAAGAGTTGATTGAACCGAAATGCAAAAG
1 AGAAGCTCATAAGAGCTGATCCAACTGAAACGCCAAAC
* * * *
38263273 AAAAGCTCATAAGAGCTGAACGAA-TCGAAATGCCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACT-GAAACGCCAAAC
* *
38263311 AGACGCTCATAAGAGTTGATCCAACTGAAACGCCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACTGAAACGCCAAAC
38263349 A
1 A
38263350 TAAAGTATAA
Statistics
Matches: 185, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
37 3 0.02
38 178 0.96
39 4 0.02
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.18
Consensus pattern (38 bp):
AGAAGCTCATAAGAGCTGATCCAACTGAAACGCCAAAC
Found at i:38268507 original size:44 final size:44
Alignment explanation
Indices: 38268459--38268548 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
38268449 TTTTTCCTAA
* *
38268459 ACCTCATAAGGATACAAGGTTGTTTGTTTAATAAGGCTTTCCAC
1 ACCTCACAAGGATACAAGGTTGTTTGTTTAATAAGGCTCTCCAC
*
38268503 ACCTCACAAGGATACAAGGTTGTTTGTTTAATAGGGCTCTCCAC
1 ACCTCACAAGGATACAAGGTTGTTTGTTTAATAAGGCTCTCCAC
38268547 AC
1 AC
38268549 ATCTTTTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
ACCTCACAAGGATACAAGGTTGTTTGTTTAATAAGGCTCTCCAC
Found at i:38270576 original size:50 final size:52
Alignment explanation
Indices: 38270470--38270590 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 52
38270460 ATGAAAAAAT
* * *
38270470 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
* *
38270522 GAGTTACATAATTCATGTCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
*
38270572 GAGTTATATAATGCATGAC
1 GAGTTACATAATGCATGAC
38270591 TTTATTAACT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 28 0.46
51 11 0.18
52 22 0.36
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:38271616 original size:14 final size:14
Alignment explanation
Indices: 38271596--38271636 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
38271586 TCCTTGACTT
38271596 ATTATTTTATTTTA
1 ATTATTTTATTTTA
*
38271610 GTTA-TTTATTTTA
1 ATTATTTTATTTTA
*
38271623 ATTGTTTTATTTTA
1 ATTATTTTATTTTA
38271637 CTTGGATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (14 bp):
ATTATTTTATTTTA
Found at i:38274197 original size:21 final size:20
Alignment explanation
Indices: 38274173--38274220 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
38274163 TTCAATAATT
*
38274173 ATTATTAATTTTTTTCCA-GAA
1 ATTATT-ATTTATTT-CATGAA
38274194 ATTATGTATTTATTTCATGAA
1 ATTAT-TATTTATTTCATGAA
38274215 ATTATT
1 ATTATT
38274221 TAATGTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 3 0.12
21 20 0.83
22 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (20 bp):
ATTATTATTTATTTCATGAA
Found at i:38274450 original size:49 final size:50
Alignment explanation
Indices: 38274374--38274517 Score: 209
Period size: 49 Copynumber: 2.9 Consensus size: 50
38274364 TATTGAGGTT
38274374 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* * * *
38274424 ATGAGAGGTCCCA-ATAAGACCATGTCTCGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
** * *
38274473 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
38274518 GTACAGAAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
49 43 0.52
50 39 0.48
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:38274685 original size:25 final size:25
Alignment explanation
Indices: 38274651--38274698 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
38274641 TACATGAAAG
38274651 TTCAGGTAAAAGCATAATAAACAAA
1 TTCAGGTAAAAGCATAATAAACAAA
*
38274676 TTCAGGTAAAAGCATAGTAAACA
1 TTCAGGTAAAAGCATAATAAACA
38274699 GACTATGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.12, G:0.15, T:0.21
Consensus pattern (25 bp):
TTCAGGTAAAAGCATAATAAACAAA
Found at i:38274786 original size:12 final size:12
Alignment explanation
Indices: 38274769--38274807 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
38274759 ATGATTTATT
38274769 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
38274781 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
38274793 TAAGAAAGTAAG
1 TAAGTAAGCAAG
38274805 TAA
1 TAA
38274808 AGAAGAAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.05, G:0.21, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:38274795 original size:20 final size:20
Alignment explanation
Indices: 38274770--38274818 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
38274760 TGATTTATTT
38274770 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
* *
38274790 AAGTAAGAAAGTAAGTAAAG
1 AAGTAAGCAAGTAAGTAAAC
38274810 AAG-AAGCAA
1 AAGTAAGCAA
38274819 AAACCATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.59, C:0.06, G:0.22, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:38275248 original size:13 final size:13
Alignment explanation
Indices: 38275226--38275266 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
38275216 ATTGATGTGA
*
38275226 TTTTGATAACTAG
1 TTTTGTTAACTAG
38275239 TTTTGTTAACTAG
1 TTTTGTTAACTAG
38275252 TTTTGTTAACTAG
1 TTTTGTTAACTAG
38275265 TT
1 TT
38275267 ATTTTTCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTTGTTAACTAG
Found at i:38280437 original size:41 final size:41
Alignment explanation
Indices: 38280392--38280536 Score: 157
Period size: 41 Copynumber: 3.5 Consensus size: 41
38280382 GTTACTCGGT
*
38280392 GGAATCAGCACTTAGCAACCAACTTATATTCAGTGATACAA
1 GGAATCAGCACATAGCAACCAACTTATATTCAGTGATACAA
*** * * **
38280433 GGAATCAGCACATAGCAACCCTTTTCACAATCAAG-GATACGGT
1 GGAATCAGCACATAGCAACCAACTT-ATATTC-AGTGATAC-AA
* *
38280476 GGAATCAGCACTTAGCAACCAACTTATGTTCAGTGATACAA
1 GGAATCAGCACATAGCAACCAACTTATATTCAGTGATACAA
*
38280517 GGAATCAACACATAGCAACC
1 GGAATCAGCACATAGCAACC
38280537 CCTTTCACAA
Statistics
Matches: 81, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
41 41 0.51
42 17 0.21
43 23 0.28
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (41 bp):
GGAATCAGCACATAGCAACCAACTTATATTCAGTGATACAA
Found at i:38280484 original size:43 final size:43
Alignment explanation
Indices: 38280433--38280566 Score: 130
Period size: 43 Copynumber: 3.2 Consensus size: 43
38280423 AGTGATACAA
*
38280433 GGAATCAGCACATAGCAACCCTTTTCACAATCAAGGATACGGT
1 GGAATCAGCACATAGCAACCCATTTCACAATCAAGGATACGGT
* * * *** **
38280476 GGAATCAGCACTTAGCAACCAACTT-ATGTTC-AGTGATAC-AA
1 GGAATCAGCACATAGCAACCCATTTCACAATCAAG-GATACGGT
* * *
38280517 GGAATCAACACATAGCAACCCCTTTCACAATCAAGGACACGGT
1 GGAATCAGCACATAGCAACCCATTTCACAATCAAGGATACGGT
38280560 GGAATCA
1 GGAATCA
38280567 ACACTTAACA
Statistics
Matches: 67, Mismatches: 20, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
41 22 0.33
42 15 0.22
43 30 0.45
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (43 bp):
GGAATCAGCACATAGCAACCCATTTCACAATCAAGGATACGGT
Found at i:38280529 original size:84 final size:84
Alignment explanation
Indices: 38280388--38280624 Score: 339
Period size: 84 Copynumber: 2.8 Consensus size: 84
38280378 AACCGTTACT
*
38280388 CGGTGGAATCAGCACTTAGCAACCAACTTATATTCAGTGATACAAGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCAACTTATATTCAGTGATACAAGGAATCAACACATAGCAACC
* *
38280453 CTTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGACA
*
38280472 CGGTGGAATCAGCACTTAGCAACCAACTTATGTTCAGTGATACAAGGAATCAACACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCAACTTATATTCAGTGATACAAGGAATCAACACATAGCAACC
38280537 CCTTTCACAATCAAGGACA
66 CCTTTCACAATCAAGGACA
* * * * * * * * * *
38280556 CGGTGGAATCAACACTTAACAACCACCTTTAGAATCAATAATTCAAGGAATCAGCACTTAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCAAC-TTATATTCAGTGATACAAGGAATCAACACATAGCAAC
38280621 CCCT
65 CCCT
38280625 CGGGGAATCT
Statistics
Matches: 137, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
84 104 0.76
85 33 0.24
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.22
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCAACTTATATTCAGTGATACAAGGAATCAACACATAGCAACC
CCTTTCACAATCAAGGACA
Found at i:38280669 original size:41 final size:41
Alignment explanation
Indices: 38280624--38280732 Score: 157
Period size: 41 Copynumber: 2.7 Consensus size: 41
38280614 TAGCAACCCC
*
38280624 TCGGGGAATCTGCACTTACCAACCCCTTTTTGATCAGTGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGAT
* ** *
38280665 TCGGGGAACCCACACTTAGCAACCCCTTTTTGATTAGTGAT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGAT
*
38280706 TCAGGGAATCTGCACTTAGC-ACCCCTT
1 TCGGGGAATCTGCACTTAGCAACCCCTT
38280733 ACATTCAATG
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 7 0.12
41 52 0.88
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (41 bp):
TCGGGGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGAT
Found at i:38290444 original size:98 final size:98
Alignment explanation
Indices: 38290272--38290466 Score: 338
Period size: 98 Copynumber: 2.0 Consensus size: 98
38290262 ACAATAAAAT
*
38290272 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGAACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGAACAATTCC
* *
38290337 TCTAGAATCCCAGACTCGGAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
38290370 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTATGGG-ACAATTC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTA-GGGAACAATTC
*
38290434 CTTTAAAATCCCAAACTCGGAATATTTCCTTTA
65 CTCTAAAATCCCAAACTCGGAATATTTCCTTTA
38290467 TTGTTTTTAG
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 89 0.97
99 3 0.03
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGAACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCCTTTAC
Found at i:38291596 original size:24 final size:25
Alignment explanation
Indices: 38291546--38291597 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
38291536 ATTGGAATTT
* *
38291546 AAAATAAATAAAAGTGTAAATTAAA
1 AAAATAAAGAAAACTGTAAATTAAA
*
38291571 AAAATAAAGAAAACT-T-AATTACA
1 AAAATAAAGAAAACTGTAAATTAAA
38291594 AAAA
1 AAAA
38291598 CATTAAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.42
24 1 0.04
25 13 0.54
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (25 bp):
AAAATAAAGAAAACTGTAAATTAAA
Found at i:38291920 original size:21 final size:21
Alignment explanation
Indices: 38291894--38291969 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
38291884 AATCATATCT
38291894 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
38291915 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
38291936 TCTAAGATTG-CT-TATCATA
1 TCTAAGATTGTATATATCATA
38291955 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
38291970 CCTCGAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 17 0.34
20 2 0.04
21 31 0.62
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:38291929 original size:19 final size:19
Alignment explanation
Indices: 38291907--38291970 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
38291897 AAGATTGTAT
38291907 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
38291926 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
* *
38291947 TTATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
38291966 ATATC
1 ATATC
38291971 CTCGAAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 21 0.52
21 19 0.47
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:38292315 original size:44 final size:44
Alignment explanation
Indices: 38292247--38292342 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
38292237 ACTTCAGGAG
*
38292247 GATAAGACTTGCCGGCTTAAATCTGCTTCCCACTA-T-CTTAGAAA
1 GATAAGATTTGCCGGCTTAAATCTGC-T-CCACTACTGCTTAGAAA
* ** **
38292291 GATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGA
1 GATAAGATTTGCCGGCTTAAATCTGCTCCACTACTGCTTAGAAA
38292335 GATAAGAT
1 GATAAGAT
38292343 CTACAATCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
42 6 0.14
43 2 0.05
44 36 0.82
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
GATAAGATTTGCCGGCTTAAATCTGCTCCACTACTGCTTAGAAA
Found at i:38292402 original size:132 final size:132
Alignment explanation
Indices: 38292260--38293180 Score: 1430
Period size: 132 Copynumber: 7.0 Consensus size: 132
38292250 AAGACTTGCC
*
38292260 GGCTTAAATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * *
38292325 TGCTTAGGGAGATAAGATCTACAATCTTCAGCCCACTCCACTAG-TGCTCAGGGAGACAAGGCTT
66 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCT-GCTGCTCAGGGAGACAAGGCTT
38292389 GGT
130 GGT
* * * *
38292392 GGCTTAAATCTGCTTCCCATTATCTTGGAAAGATAAGACTTGTCGTCTTTGATCTGCTCCACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* *
38292457 TGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGTTCAGGGAGACAAGGCTTG
66 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38292522 GT
131 GT
* * * *
38292524 GACTTAAATCTACTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTCGATCTACTCCACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * *
38292589 TGCTTAAGGAGATAAGATCTACAATCTTCAACTTACTCCGCTGCTGCTCAGGGAAACAAGGCTTG
66 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38292654 GT
131 GT
* * *
38292656 GACTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTCAATCTGCTCCACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* **
38292721 TGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCGCTATTGCTCAGGGAGACAAGGCTTG
66 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38292786 GT
131 GT
* * * *
38292788 GGCATAAATCTACTTCCCATTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTTCTCCACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * *
38292853 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTATTCCACTGCTGCTCAGGGAGACAAGGCTTA
66 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38292918 GT
131 GT
* * * * *
38292920 CGCTTAAATCTGCTTCCCACTATCCTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCTACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * *
38292985 TGCTTAGGGAGATAAGATCTACAATATTCAACTTACTTCGCTGCTGCTCAGGGAGACAAGGCTTG
66 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
38293050 GT
131 GT
* *
38293052 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCCTCGATCTACTCCACTAC
1 GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
* * * *
38293117 TGCTTAGGGAGATAAGATCTACGATCCTCAACATACTCCGCTGGTGCTCAGGGAGACAAGGCTT
66 TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTT
38293181 AGTGTTTCAC
Statistics
Matches: 719, Mismatches: 69, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
131 1 0.00
132 718 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (132 bp):
GGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTAC
TGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTG
GT
Found at i:38292734 original size:44 final size:44
Alignment explanation
Indices: 38292443--38292900 Score: 129
Period size: 44 Copynumber: 10.4 Consensus size: 44
38292433 GTCGTCTTTG
* * * *
38292443 ATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCA
1 ATCTACTCCACTACTGCTTAAGGAGATAAGATTTGCCATCTTCA
* * * * * * * ** *
38292487 ACCTACTCCGCTGCTG-TTCAGGGAGACAAGGCTTGGTGA-CTTAA
1 ATCTACTCCACTACTGCTT-AAGGAGATAA-GATTTGCCATCTTCA
*
38292531 ATCTACTTCCCACTA-T-CTT--GGAAAGATAAGATTTGCCATCTTCG
1 ATCTAC-T-CCACTACTGCTTAAGG--AGATAAGATTTGCCATCTTCA
* * *
38292575 ATCTACTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCA
1 ATCTACTCCACTACTGCTTAAGGAGATAAGATTTGCCATCTTCA
* * * * * * * * ** *
38292619 A-CTTACTCCGCTGCTGCTCAGGGAAACAAGGCTTGGTGA-CTTAA
1 ATC-TACTCCACTACTGCTTAAGGAGATAA-GATTTGCCATCTTCA
*
38292663 ATCTGCTTCCCACTA-T-CTT--GGAAAGATAAGATTTGCCATCTTCA
1 ATCTAC-T-CCACTACTGCTTAAGG--AGATAAGATTTGCCATCTTCA
* * * *
38292707 ATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCA
1 ATCTACTCCACTACTGCTTAAGGAGATAAGATTTGCCATCTTCA
* * * * * * ** **** * *
38292751 ACCTACTCCGCTATTGCTCAGGGAGACAAGGCTTGGTGGCATAA
1 ATCTACTCCACTACTGCTTAAGGAGATAAGATTTGCCATCTTCA
* * *
38292795 ATCTACTTCCCATTA-T-CTT--GGAAAGATAAGATTTGCCGTCTTCG
1 ATCTAC-T-CCACTACTGCTTAAGG--AGATAAGATTTGCCATCTTCA
* * * * *
38292839 ATCTTCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTACTCCACTACTGCTTAAGGAGATAAGATTTGCCATCTTCA
* * *
38292883 ACCTATTCCACTGCTGCT
1 ATCTACTCCACTACTGCT
38292901 CAGGGAGACA
Statistics
Matches: 287, Mismatches: 95, Indels: 64
0.64 0.21 0.14
Matches are distributed among these distances:
42 23 0.08
43 19 0.07
44 212 0.74
45 15 0.05
46 18 0.06
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTTAAGGAGATAAGATTTGCCATCTTCA
Found at i:38294433 original size:8 final size:8
Alignment explanation
Indices: 38294422--38294466 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
38294412 TCTATTTTAC
38294422 TTTTTTCA
1 TTTTTTCA
38294430 -TTTTTCA
1 TTTTTTCA
*
38294437 CTTTTTCA
1 TTTTTTCA
38294445 TTTTTTCA
1 TTTTTTCA
**
38294453 TTTCGTCA
1 TTTTTTCA
38294461 TTTTTT
1 TTTTTT
38294467 TCCGACTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 7 0.23
8 24 0.77
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTTTTCA
Found at i:38298967 original size:98 final size:98
Alignment explanation
Indices: 38298795--38298989 Score: 329
Period size: 98 Copynumber: 2.0 Consensus size: 98
38298785 ACAATAAAAT
*
38298795 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
38298860 TCTAGAATCCCGAACTCGGAATATTTCATTTAC
66 TCTAAAATCCCAAACTCGGAATATTTCATTTAC
38298893 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTATGGG-ACAATTC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTA-GGGCACAATTC
* *
38298957 CTTTAAAATCCCAAACTCGGAATATTTCCTTTA
65 CTCTAAAATCCCAAACTCGGAATATTTCATTTA
38298990 TTGTTTTTAG
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 88 0.97
99 3 0.03
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.29
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGGAATATTTCATTTAC
Found at i:38299891 original size:25 final size:23
Alignment explanation
Indices: 38299831--38299883 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 23
38299821 ATATATAGCT
38299831 AAAATAATAATAATTACATATGAA
1 AAAATAATAATAATTACATATG-A
38299855 AATAATAATAATAATTACAT-TGA
1 AA-AATAATAATAATTACATATGA
38299878 CAAAAT
1 -AAAAT
38299884 TAACTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.15
24 6 0.22
25 17 0.63
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAATAATAATAATTACATATGA
Found at i:38300121 original size:24 final size:25
Alignment explanation
Indices: 38300071--38300122 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
38300061 ATTGGAATTT
* *
38300071 AAAATAAATAAAAGTGTAAATTAAA
1 AAAATAAAGAAAACTGTAAATTAAA
*
38300096 AAAATAAAGAAAACT-T-AATTACA
1 AAAATAAAGAAAACTGTAAATTAAA
38300119 AAAA
1 AAAA
38300123 CATTAAAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.42
24 1 0.04
25 13 0.54
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (25 bp):
AAAATAAAGAAAACTGTAAATTAAA
Found at i:38300450 original size:21 final size:21
Alignment explanation
Indices: 38300424--38300499 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
38300414 AATCATATCT
38300424 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
38300445 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
38300466 TCTAAGATTG-CT-TATCATA
1 TCTAAGATTGTATATATCATA
38300485 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
38300500 CCTTGAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 17 0.34
20 2 0.04
21 31 0.62
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:38300459 original size:19 final size:19
Alignment explanation
Indices: 38300437--38300500 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
38300427 AAGATTGTAT
38300437 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
38300456 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
* *
38300477 TTATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
38300496 ATATC
1 ATATC
38300501 CTTGAAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
19 21 0.52
21 19 0.47
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:38300869 original size:44 final size:44
Alignment explanation
Indices: 38300821--38301005 Score: 108
Period size: 44 Copynumber: 4.2 Consensus size: 44
38300811 TATCTTACAA
*
38300821 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGG
* * ** * * * * * *
38300865 AGATAAGATCTACAATCTTC-AGCCCACTTCGCTAGTGCTCAGGG
1 AGATAAGATTTGCCGTCTTCGA-TCTACTCCACTACTGCTTAGGG
* ** ** * ** * *
38300909 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCGTCTTCGATCTAC-T-CCACTACTGCTTAGG-G
*
38300953 AGATAAGATTTGCCGTCCTCGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGG
38300997 AGATAAGAT
1 AGATAAGAT
38301006 CTACGATCCT
Statistics
Matches: 94, Mismatches: 39, Indels: 16
0.63 0.26 0.11
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
44 74 0.79
45 5 0.05
46 4 0.04
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGG
Found at i:38300939 original size:132 final size:132
Alignment explanation
Indices: 38300785--38301051 Score: 419
Period size: 132 Copynumber: 2.0 Consensus size: 132
38300775 GAGGATAAGA
* *
38300785 CTTGCTGGCTTAAATCTGCTTCCCACTATCTTACAAAGATAAGATTTGCCGTCTTCGATCTGCTC
1 CTTGCTGGCTTAAATCTGCTTCCCACTATCTTACAAAGATAAGATTTGCCGTCCTCGATCTACTC
* * *
38300850 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCCACTTCGCTAG-TGCTCAGGGAGACA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCCTCAACCCACTCCGCT-GTTGCTCAGGGAGACA
38300914 AGG
130 AGG
* **
38300917 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCCTCGATCTACTC
1 CTTGCTGGCTTAAATCTGCTTCCCACTATCTTACAAAGATAAGATTTGCCGTCCTCGATCTACTC
* **
38300982 CACTACTGCTTAGGGAGATAAGATCTACGATCCTCAACGTACTCCGCTGTTGCTCAGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCCTCAACCCACTCCGCTGTTGCTCAGGGAGACAA
38301047 GG
131 GG
38301049 CTT
1 CTT
38301052 AGTGTTTCAC
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
131 1 0.01
132 122 0.99
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (132 bp):
CTTGCTGGCTTAAATCTGCTTCCCACTATCTTACAAAGATAAGATTTGCCGTCCTCGATCTACTC
CACTACTGCTTAGGGAGATAAGATCTACAATCCTCAACCCACTCCGCTGTTGCTCAGGGAGACAA
GG
Found at i:38302307 original size:8 final size:8
Alignment explanation
Indices: 38302296--38302340 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
38302286 TCTATTTTAC
38302296 TTTTTTCA
1 TTTTTTCA
38302304 -TTTTTCA
1 TTTTTTCA
*
38302311 CTTTTTCA
1 TTTTTTCA
38302319 TTTTTTCA
1 TTTTTTCA
**
38302327 TTTCGTCA
1 TTTTTTCA
38302335 TTTTTT
1 TTTTTT
38302341 TTTCCGACTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 7 0.23
8 24 0.77
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTTTTCA
Found at i:38306838 original size:98 final size:98
Alignment explanation
Indices: 38306661--38306855 Score: 309
Period size: 98 Copynumber: 2.0 Consensus size: 98
38306651 ATAATAAAAT
* * *
38306661 TTTAAAAAAATATCCACTTATCCAAGATTTAAGCAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
38306726 TCTAGAATCTCAAACTCGAAATATTTCCTTTAC
66 TCTAAAATCCCAAACTCGAAATATTTCCTTTAC
* *
38306759 TTTAAAAGAACATCCACTTATCCAAGATTTATGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
38306824 TTTAAAATCCCAAACTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCGAAATATTTCCTTTA
38306856 TTGTTTTTAG
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (98 bp):
TTTAAAAAAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCGAAATATTTCCTTTAC
Found at i:38308871 original size:19 final size:19
Alignment explanation
Indices: 38308849--38308886 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
38308839 TTTTTTCTTG
38308849 CTCTATTTATTTTATGTAA
1 CTCTATTTATTTTATGTAA
38308868 CTCTATTTATTTTATGTAA
1 CTCTATTTATTTTATGTAA
38308887 AAATAGACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (19 bp):
CTCTATTTATTTTATGTAA
Found at i:38309024 original size:16 final size:16
Alignment explanation
Indices: 38309003--38309034 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
38308993 GTTTTGTTGC
*
38309003 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
38309019 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
38309035 CTTTCAATCA
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:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:38309321 original size:51 final size:51
Alignment explanation
Indices: 38309253--38309452 Score: 205
Period size: 51 Copynumber: 3.9 Consensus size: 51
38309243 TTAATGATAC
* * * *
38309253 CGGTTCACATAGTAGCCTGGACATAGTACTACACATGTGACCATCACTATT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATT
* * * *
38309304 CGATACACGTAGTAGCCTACACATTGTACTACACACGT-A--ATCGAAGCTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATC--A-CTATT
* * * *
38309355 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-T-A-TCATT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT-ATT
38309404 CTGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 C-GGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
38309453 TTCACTTTCA
Statistics
Matches: 118, Mismatches: 20, Indels: 20
0.75 0.13 0.13
Matches are distributed among these distances:
48 4 0.03
49 3 0.03
50 40 0.34
51 67 0.57
52 2 0.02
53 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATT
Found at i:38309468 original size:101 final size:101
Alignment explanation
Indices: 38309252--38309442 Score: 271
Period size: 102 Copynumber: 1.9 Consensus size: 101
38309242 ATTAATGATA
* *
38309252 CCGGTTCACATAGTAGCCTGGACATAGTACTACACATGTGACCATCACTATTCGATACACGTAGT
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATTCGATACACGTAGT
*
38309317 AGCCTACACATTGTACTACACACGTAATCGAAGCTAT
66 AGCCTACACATAGTACTACACACGTAATC-AAGCTAT
* * *
38309354 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-T-A-TCATTCTGGTACACGTA
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACT-ATTC-GATACACGTA
*
38309416 GTAGCCTGCACATAGTACTACACACGT
64 GTAGCCTACACATAGTACTACACACGT
38309443 GACCATCACT
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
99 1 0.01
100 5 0.06
101 35 0.44
102 39 0.49
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (101 bp):
CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATTCGATACACGTAGT
AGCCTACACATAGTACTACACACGTAATCAAGCTAT
Found at i:38315214 original size:35 final size:34
Alignment explanation
Indices: 38315173--38315378 Score: 240
Period size: 35 Copynumber: 6.1 Consensus size: 34
38315163 TCACTTGTCT
* *
38315173 TTTGTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
38315207 TTCTGTTGCAGGGAATCTTTCCTATTCA--CATCA
1 TT-TGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
38315240 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
38315274 TTTTGTTGTAGGGAATCTCTCCTGTTCACACATTA
1 -TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
38315309 TTTTGTTGCAGGGAATCTCTCATGTTCA--CATCA
1 -TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
38315342 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
38315376 TTT
1 TTT
38315379 CTTTTTGGAC
Statistics
Matches: 149, Mismatches: 17, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
32 47 0.32
33 10 0.07
34 12 0.08
35 80 0.54
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (34 bp):
TTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:38315269 original size:67 final size:67
Alignment explanation
Indices: 38315172--38315368 Score: 238
Period size: 67 Copynumber: 2.9 Consensus size: 67
38315162 TTCACTTGTC
* * * * *
38315172 TTTTGTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTATTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATT-TGTTGCAGGGAATCTCTCCTGTTCACA
38315237 TCA
65 TCA
*
38315240 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGTAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA-TTTGTTGCAGGGAATCTCTCCTGTT--CA
*
38315304 CATTA
63 CATCA
* * * *
38315309 TTTTGTTGCAGGGAATCTCTCATGTTCA--CATCATTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTGTTGCAGGGAATCTCTCCTGTTCA
38315369 TGTATTATTT
Statistics
Matches: 113, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
65 2 0.02
67 74 0.65
68 6 0.05
69 6 0.05
70 25 0.22
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (67 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTGTTGCAGGGAATCTCTCCTGTTCACAT
CA
Found at i:38315308 original size:102 final size:102
Alignment explanation
Indices: 38315172--38315378 Score: 324
Period size: 102 Copynumber: 2.0 Consensus size: 102
38315162 TTCACTTGTC
* * * *
38315172 TTTTGTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTATTCACA
1 TTTTGTTGCAGGGAATATCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTCTCATATTCACA
38315237 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * * *
38315274 TTTTGTTGTAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTCTCATGTTCACA
1 TTTTGTTGCAGGGAATATCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTCTCATATTCACA
* *
38315339 TCATTTCTTGCAGGGAATCTCTCCTGTTCATGTATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
38315376 TTT
1 TTT
38315379 CTTTTTGGAC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATATCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTCTCATATTCACA
TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:38335683 original size:18 final size:17
Alignment explanation
Indices: 38335660--38335704 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
38335650 ATTTGGGATG
*
38335660 TTATTTTTTATTTTAAAT
1 TTATTTTTT-TTTCAAAT
38335678 TTATTTTATTTTTCAAAT
1 TTATTTT-TTTTTCAAAT
38335696 TTCATTTTT
1 TT-ATTTTT
38335705 CTCTCTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTTTTTTTCAAAT
Found at i:38338063 original size:79 final size:81
Alignment explanation
Indices: 38337927--38338111 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
38337917 TTGAATGATG
* *
38337927 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
38337991 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
38338006 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
38338068 ATTGTGTGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
38338086 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38338112 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:38338125 original size:40 final size:41
Alignment explanation
Indices: 38337927--38338111 Score: 213
Period size: 40 Copynumber: 4.6 Consensus size: 41
38337917 TTGAATGATG
* * *
38337927 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
38337967 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
38338007 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
38338046 TCCGGGTTAAGTCCCGAAGGCAATTGTGTGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38338087 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38338112 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:38338134 original size:79 final size:79
Alignment explanation
Indices: 38337980--38338144 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
38337970 GGACTAAGAT
* * **
38337980 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
38338045 ATCCGGGTTAAGTC
66 ATCCGAGTTAAATC
* * *
38338059 CCGAAGGCAATTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
38338122 TATATCC-AGTTAAATT
63 TAAATCCGAGTTAAATC
38338138 CCGAAGG
1 CCGAAGG
38338145 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.62
80 25 0.35
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGAGTTAAATC
Found at i:38355203 original size:43 final size:43
Alignment explanation
Indices: 38355142--38355279 Score: 138
Period size: 42 Copynumber: 3.5 Consensus size: 43
38355132 AGTGATTAGG
*
38355142 GGAATCAGCGCTTAGCAACCCCTTTCACATTCAATGATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGGT
*
38355185 GGAATCGGCACTTAGCAA---C---CAC---CAATGA-ATCGG-
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATA-CGGT
* *
38355218 GGAATCAGCAGTTAGCAACCCCTTTCACATTTAA-GATACGGT
1 GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGGT
*
38355260 GGGATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
38355280 ACCAATGAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 25
0.70 0.06 0.23
Matches are distributed among these distances:
33 17 0.22
34 9 0.12
36 1 0.01
37 3 0.04
39 3 0.04
40 1 0.01
41 5 0.07
42 21 0.28
43 16 0.21
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCCCTTTCACATTCAATGATACGGT
Found at i:38355223 original size:33 final size:33
Alignment explanation
Indices: 38355185--38355414 Score: 148
Period size: 33 Copynumber: 6.6 Consensus size: 33
38355175 ATGATACGGT
*
38355185 GGAATCGGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
38355218 GGAATCAGCAGTTAGCAACCCCTTTCACATTTAAGATACGG
1 GGAATCAGCACTTAGCAACCAC---CA-A--TGA-AT-CGG
* *
38355259 TGGGATCAGCACTTAGCAACCACCAATGAATCGA
1 -GGAATCAGCACTTAGCAACCACCAATGAATCGG
*
38355293 GGAATCAGCACTTAGCAACC-CC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
* * *
38355320 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGAT
1 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-GAAT-CG-G
**
38355362 GGAATCAGCACTTAGCAACCACCAATGAATTAG
1 GGAATCAGCACTTAGCAACCACCAATGAATCGG
38355395 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
38355415 CCTTGGGGGA
Statistics
Matches: 154, Mismatches: 19, Indels: 48
0.70 0.09 0.22
Matches are distributed among these distances:
27 20 0.13
28 2 0.01
29 1 0.01
30 1 0.01
31 1 0.01
32 2 0.01
33 58 0.38
34 2 0.01
35 5 0.03
36 6 0.04
37 1 0.01
38 2 0.01
39 6 0.04
40 3 0.02
41 7 0.05
42 37 0.24
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAATCGG
Found at i:38355233 original size:76 final size:75
Alignment explanation
Indices: 38355105--38355316 Score: 318
Period size: 76 Copynumber: 2.8 Consensus size: 75
38355095 TATCCGTTAT
* * * *
38355105 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTAGGGGAATCAGC-GCTTAGCAACCCCTTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAG-TTAGCAACCCCTTTCA
38355169 CATTCAATGATA
65 CATTCAA-GATA
*
38355181 CGGTGGAATCGGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
*
38355246 ATTTAAGATA
66 ATTCAAGATA
* * *
38355256 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGAGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTT
38355317 GGGGGAATCA
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
75 61 0.49
76 63 0.50
77 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
ATTCAAGATA
Found at i:38355287 original size:75 final size:76
Alignment explanation
Indices: 38355105--38355316 Score: 313
Period size: 75 Copynumber: 2.8 Consensus size: 76
38355095 TATCCGTTAT
* * *
38355105 CGGT-GGATTCAGCACTTAGCAACCACCAGTGATTAGGGGAATCAGC-GCTTAGCAACCCCTTTC
1 CGGTGGGA-TCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAG-TTAGCAACCCCTTTC
38355168 ACATTCAATGATA
64 ACATTCAATGATA
* *
38355181 CGGTGGAATCGGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
1 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
*
38355246 ATTTAA-GATA
66 ATTCAATGATA
* *
38355256 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGAGGAATCAGCACTTAGCAACCCCTT
1 CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTT
38355317 GGGGGAATCA
Statistics
Matches: 124, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
75 61 0.49
76 60 0.48
77 3 0.02
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (76 bp):
CGGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCAGTTAGCAACCCCTTTCAC
ATTCAATGATA
Found at i:38355337 original size:102 final size:102
Alignment explanation
Indices: 38355216--38355447 Score: 385
Period size: 102 Copynumber: 2.3 Consensus size: 102
38355206 CCAATGAATC
* * * *
38355216 GGGGAATCAGCAGTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
38355281 CCAATGAATCGA-GGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAAT-GAGGGAATCAGCACTTAGCAACCCCTTG
*
38355318 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
*
38355383 CCAATGAATTAGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAATGAGGGAATCAGCACTTAGCAACCCCTTG
38355420 GGGGAATCAGCACTTAGCAAACCCCTTT
1 GGGGAATCAGCACTTAGC-AACCCCTTT
38355448 ATATTCATTG
Statistics
Matches: 121, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
101 1 0.01
102 112 0.93
103 8 0.07
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAAATACGATGGAATCAGCACTTAGCAACCA
CCAATGAATGAGGGAATCAGCACTTAGCAACCCCTTG
Found at i:38355424 original size:27 final size:28
Alignment explanation
Indices: 38355394--38355446 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
38355384 CAATGAATTA
38355394 GGGAATCAGCACTTAGC-AACCCCTTGG
1 GGGAATCAGCACTTAGCAAACCCCTTGG
38355421 GGGAATCAGCACTTAGCAAACCCCTT
1 GGGAATCAGCACTTAGCAAACCCCTT
38355447 TATATTCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (28 bp):
GGGAATCAGCACTTAGCAAACCCCTTGG
Found at i:38363939 original size:37 final size:37
Alignment explanation
Indices: 38363874--38363982 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
38363864 TACGTATGAT
* *
38363874 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
38363909 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
38363946 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
38363983 TAAAGCTATC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 10 0.14
36 3 0.04
37 56 0.81
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:38364065 original size:52 final size:52
Alignment explanation
Indices: 38363989--38364358 Score: 485
Period size: 52 Copynumber: 7.3 Consensus size: 52
38363979 TAGCTAAAGC
* * *
38363989 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
38364042 TTTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
38364094 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
38364146 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
38364192 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
38364244 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* ** *
38364290 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
38364342 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
38364359 ATCAGAAGTA
Statistics
Matches: 276, Mismatches: 28, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
46 84 0.30
52 175 0.63
53 17 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:38364157 original size:98 final size:98
Alignment explanation
Indices: 38363946--38364364 Score: 616
Period size: 98 Copynumber: 4.3 Consensus size: 98
38363936 TAAGTGTAGC
* * **
38363946 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCAC--T----TT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
* * *
38364005 GTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
* * *
38364038 CACTTTTCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTATCACTTATCACTTT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT
38364103 CCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
60 CCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
38364142 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
38364207 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
*
38364240 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
* *
38364305 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
38364338 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
38364365 AGTACTCAAA
Statistics
Matches: 301, Mismatches: 14, Indels: 18
0.90 0.04 0.05
Matches are distributed among these distances:
92 9 0.03
95 1 0.00
98 248 0.82
100 1 0.00
101 1 0.00
104 41 0.14
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:38364180 original size:150 final size:144
Alignment explanation
Indices: 38363946--38364358 Score: 574
Period size: 150 Copynumber: 2.8 Consensus size: 144
38363936 TAAGTGTAGC
* * *
38363946 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACT
*
38364011 TGATCAGATAAGTATAGCCGAAGCTATCACTTTTCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
38364076 GTAACCGAAGCTAT
131 GTAACCGAAGCTAT
38364090 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
* *
38364155 GTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAG
60 GTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAG
* *
38364220 ATAAGTGTAGCTGAAGCTAT
125 ATAAGTGTAACCGAAGCTAT
* * *
38364240 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC--T----TT
* ** *
38364305 GTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
60 GTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTT-TCACTTG
38364359 ATCAGAAGTA
Statistics
Matches: 239, Mismatches: 17, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
144 52 0.22
146 2 0.01
148 1 0.00
150 178 0.74
151 6 0.03
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (144 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTGTCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
GTAACCGAAGCTAT
Found at i:38370808 original size:49 final size:49
Alignment explanation
Indices: 38370663--38370827 Score: 145
Period size: 49 Copynumber: 3.2 Consensus size: 49
38370653 GAGATCGCAT
** *
38370663 GTAAGACCATGTCTGGGACATGAAATTGGCATCATTGAGATTATGAGAGGTCCCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCA-C--T-A-A-TATGAGAGGTCCCA
* *
38370718 TGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATGAGAGGTCTCCCA
1 -GTAAGACCATGTCTGGGACATGGCATGGGCACTAATATGAGAGG--TCCCA
* * **
38370770 -TAAGACCATGTC-GGGACATGGCATGGGTACTGATATGAGAACTCCCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCACTAATATGAGAGGTCCCA
38370817 TGTAAGACCAT
1 -GTAAGACCAT
38370828 ATCTTGTAAC
Statistics
Matches: 96, Mismatches: 9, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
47 5 0.05
49 33 0.34
50 20 0.21
51 1 0.01
52 6 0.06
53 1 0.01
55 1 0.01
56 29 0.30
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACTAATATGAGAGGTCCCA
Found at i:38372131 original size:44 final size:45
Alignment explanation
Indices: 38372036--38372169 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
38372026 ACAGGACAGA
* *
38372036 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
38372082 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
38372126 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
38372170 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:38378497 original size:44 final size:45
Alignment explanation
Indices: 38378402--38378535 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
38378392 ACAGGACAGA
* *
38378402 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
38378448 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
38378492 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
38378536 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:38381415 original size:19 final size:20
Alignment explanation
Indices: 38381372--38381424 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
38381362 TGCCTCTTTT
38381372 TGCATT-CATTTCATTCATCA
1 TGCATTACATTTCA-TCATCA
*
38381392 -CCATTACATTTCATCAT-A
1 TGCATTACATTTCATCATCA
*
38381410 TGCATTAAATTTCAT
1 TGCATTACATTTCAT
38381425 AAAAAGACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.04
19 20 0.71
20 7 0.25
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (20 bp):
TGCATTACATTTCATCATCA
Found at i:38388049 original size:9 final size:9
Alignment explanation
Indices: 38388035--38388065 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
38388025 GTTAAACGAA
38388035 TCGAGTTAT
1 TCGAGTTAT
*
38388044 TCGAGTTAA
1 TCGAGTTAT
38388053 TCGAGTTAT
1 TCGAGTTAT
38388062 TCGA
1 TCGA
38388066 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:38388135 original size:9 final size:9
Alignment explanation
Indices: 38388118--38388154 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
38388108 TGAGTTTTCG
38388118 AATTCGAAT
1 AATTCGAAT
*
38388127 AACTCGAAT
1 AATTCGAAT
38388136 AATTCGAAT
1 AATTCGAAT
38388145 AATTCGAAT
1 AATTCGAAT
38388154 A
1 A
38388155 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:38390721 original size:90 final size:89
Alignment explanation
Indices: 38390578--38390932 Score: 325
Period size: 90 Copynumber: 3.9 Consensus size: 89
38390568 AATTCCTATA
* * * *
38390578 CCCCTTAAGTTATAGTGGGTTGGGTTGAACTTACTATAGCGAATCTTATCTCCCTGATGTTGCAG
1 CCCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAGTTGCAG
*
38390643 TGGAGCAA-ATTGAAGCTATAAAATC
66 TAGAGCAAGA-TGAAGCTA-AAAATC
*
38390668 CCCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGTGAATCTTATCTCCCTGAAGTTGCAG
1 CCCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAGTTGCAG
*
38390733 TAGAGCAA-ATTGAAGCTACAAACCTTATT
66 TAGAGCAAGA-TGAAGCTA-AAA----ATC
* ** * *
38390762 TCCCTGAAGTTGTAGTGGAG-CAGATTGAAGC-TAC---A---AATCTTATTTCCCTAAAGTTGC
1 CCCCTGAAGTTGTAGTGG-GTTGGATTGAA-CTTACTATAGCGAATCTTATCTCCCTGAAGTTGC
* * *
38390819 AGTAAAGCAAGATAAAGCTACAAATC
64 AGTAGAGCAAGATGAAGCTAAAAATC
* * * *
38390845 CTATACTCCTAAAGTTGCAGTGGGTTGGATTGAATTTACTATAGCGAATCTTATCTCCCTGAAAT
1 C----C-CCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAGT
*
38390910 TGCAGTGGAGCAAGATGAAGCTA
61 TGCAGTAGAGCAAGATGAAGCTA
38390933 CAACTCCTAT
Statistics
Matches: 216, Mismatches: 29, Indels: 36
0.77 0.10 0.13
Matches are distributed among these distances:
83 2 0.01
87 4 0.02
88 60 0.28
89 1 0.00
90 80 0.37
91 2 0.01
94 65 0.30
95 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (89 bp):
CCCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAGTTGCAG
TAGAGCAAGATGAAGCTAAAAATC
Found at i:38390925 original size:94 final size:94
Alignment explanation
Indices: 38390566--38390972 Score: 375
Period size: 94 Copynumber: 4.4 Consensus size: 94
38390556 TAGTAAAACC
* * * * *
38390566 ACAATTCCTATACCCCTTAAGTTATAGTGGGTTGGGTTGAACTTACTATAGCGAATCTTATCTCC
1 ACAAATCCTATACTCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCC
** *
38390631 CTGATGTTGCAGTGGAGCAAATTGAAGCT
66 CTGAAATTGCAGTAGAGCAAATTGAAGCT
* *
38390660 ATAAAATCC----C-CCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGTGAATCTTATCTC
1 A-CAAATCCTATACTCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTC
*
38390720 CCTGAAGTTGCAGTAGAGCAAATTGAAGCT
65 CCTGAAATTGCAGTAGAGCAAATTGAAGCT
* **
38390750 ACAAA-CCT-TATTTCCCTGAAGTTGTAGTGGAG-CAGATTGAAGC-TAC---A---AATCTTAT
1 ACAAATCCTATA-CT-CCTGAAGTTGTAGTGG-GTTGGATTGAA-CTTACTATAGCGAATCTTAT
* * *
38390805 TTCCCT-AAAGTTGCAGTAAAGCAAGA-TAAAGCT
62 CTCCCTGAAA-TTGCAGTAGAGCAA-ATTGAAGCT
* * *
38390838 ACAAATCCTATACTCCTAAAGTTGCAGTGGGTTGGATTGAATTTACTATAGCGAATCTTATCTCC
1 ACAAATCCTATACTCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCC
*
38390903 CTGAAATTGCAGTGGAGCAAGA-TGAAGCT
66 CTGAAATTGCAGTAGAGCAA-ATTGAAGCT
* * * *
38390932 ACAACTCCTATA-TCCCTGAAGTTGCAGTGGATCGGATTGAA
1 ACAAATCCTATACT-CCTGAAGTTGTAGTGGGTTGGATTGAA
38390973 ACTACAATTC
Statistics
Matches: 260, Mismatches: 30, Indels: 46
0.77 0.09 0.14
Matches are distributed among these distances:
87 3 0.01
88 63 0.24
89 8 0.03
90 77 0.30
91 3 0.01
93 1 0.00
94 95 0.37
95 10 0.04
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (94 bp):
ACAAATCCTATACTCCTGAAGTTGTAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCC
CTGAAATTGCAGTAGAGCAAATTGAAGCT
Found at i:38390978 original size:44 final size:44
Alignment explanation
Indices: 38390709--38391005 Score: 203
Period size: 44 Copynumber: 6.6 Consensus size: 44
38390699 TACTATAGTG
* * * * *
38390709 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCTACA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACA
* * *
38390753 AA-CCTTATTTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACA
1 AATCC-TATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACA
* * * **
38390797 AATCTTATTTCCCTAAAGTTGCAGTAAAGCAAGA-T-AAAGCTACA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGC-AGATTGAAA-CTACA
* ** *
38390841 AATCCTATA-CTCCTAAAGTTGCAGTGG-GTTGGATTGAATTTACTATAGCG
1 AATCCTATATC-CCTGAAGTTGCAGTGGAG-CAGATTGAA---AC--TA-CA
* * * *
38390891 AATCTTATCTCCCTGAAATTGCAGTGGAGCAAGA-TGAAGCTACA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGC-AGATTGAAACTACA
* * *
38390935 ACTCCTATATCCCTGAAGTTGCAGTGGATCGGATTGAAACTACA
1 AATCCTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACA
*
38390979 ATTCCTATA-CCTCTGAAGTTGCAGTGG
1 AATCCTATATCC-CTGAAGTTGCAGTGG
38391006 GTTAGAATGA
Statistics
Matches: 200, Mismatches: 34, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
43 11 0.05
44 146 0.73
45 8 0.04
47 2 0.01
48 1 0.00
49 2 0.01
50 26 0.13
51 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCCTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACA
Found at i:38391000 original size:182 final size:182
Alignment explanation
Indices: 38390674--38391003 Score: 477
Period size: 182 Copynumber: 1.8 Consensus size: 182
38390664 AATCCCCCTG
* * *
38390674 AAGTTGTAGTGGGTTGGATTGAACTTACTATAGTGAATCTTATCTCCCTGAAGTTGCAGTAGAGC
1 AAGTTGCAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAATTGCAGTAGAGC
* * * * *
38390739 AAATTGAAGCTACAAACCTTATTTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCTTA
66 AAATTGAAGCTACAAACCCTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCCTA
*
38390804 TTTCCCTAAAGTTGCAGTAAAGCAAGATAAAGCTACAAATCCTATACTCCTA
131 TTACCCTAAAGTTGCAGTAAAGCAAGATAAAGCTACAAATCCTATACTCCTA
* *
38390856 AAGTTGCAGTGGGTTGGATTGAATTTACTATAGCGAATCTTATCTCCCTGAAATTGCAGTGGAGC
1 AAGTTGCAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAATTGCAGTAGAGC
* * *
38390921 AAGA-TGAAGCTAC-AACTCCTATATCCCTGAAGTTGCAGTGGATCGGATTGAAACTACAATTCC
66 AA-ATTGAAGCTACAAAC-CCTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCC
*
38390984 TA-TACCTCTGAAGTTGCAGT
129 TATTACC-CTAAAGTTGCAGT
38391004 GGGTTAGAAT
Statistics
Matches: 130, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
181 6 0.05
182 123 0.95
183 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (182 bp):
AAGTTGCAGTGGGTTGGATTGAACTTACTATAGCGAATCTTATCTCCCTGAAATTGCAGTAGAGC
AAATTGAAGCTACAAACCCTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCCTA
TTACCCTAAAGTTGCAGTAAAGCAAGATAAAGCTACAAATCCTATACTCCTA
Found at i:38393179 original size:26 final size:26
Alignment explanation
Indices: 38393117--38393189 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
38393107 GGTCTCGACA
* * *
38393117 CAATTCACATAACCATTTCATGTAAT
1 CAATTCATATAACCATTTCATATAAC
* *
38393143 C-ATTCCCTATAACCATTTCGTATAAC
1 CAATT-CATATAACCATTTCATATAAC
* *
38393169 CAATTCATATAATCGTTTCAT
1 CAATTCATATAACCATTTCAT
38393190 CTAAACGTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
25 3 0.08
26 30 0.83
27 3 0.08
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (26 bp):
CAATTCATATAACCATTTCATATAAC
Found at i:38395046 original size:207 final size:207
Alignment explanation
Indices: 38394691--38395108 Score: 764
Period size: 207 Copynumber: 2.0 Consensus size: 207
38394681 TTTGGAAGAA
*
38394691 GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACATAATTA
1 GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTA
*
38394756 CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGTCTAAAACCGTCCACTACTA
66 CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGCCTAAAACCGTCCACTACTA
38394821 ACCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTAAACTAATAAAACTATCTTT
131 ACCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTAAACTAATAAAACTATCTTT
38394886 TTCAATCTTTAC
196 TTCAATCTTTAC
38394898 GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTA
1 GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTA
*
38394963 CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGCCTAAAATCGTCCACTACTA
66 CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGCCTAAAACCGTCCACTACTA
* * *
38395028 ACCATGATGGTTTAATTACCATTCTAGTCCTTAAATTTTCCTTTTTAACTAATAAAGCTATCTTT
131 ACCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTAAACTAATAAAACTATCTTT
**
38395093 TTTTATCTTTAC
196 TTCAATCTTTAC
38395105 GATT
1 GATT
38395109 AGTCCTTTTT
Statistics
Matches: 203, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
207 203 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (207 bp):
GATTCAAGAAGATAACACTTTCATTTGACTTTTATTTTAGTTATAATTTACTTTTTACACAATTA
CAATTATACCCTTTTAATTTACACTCAAATCTTAACGTTTTCAAGCCTAAAACCGTCCACTACTA
ACCATGATGGTTTAATTACCATTCTAGTCCATAAATTTTCCTTTTAAACTAATAAAACTATCTTT
TTCAATCTTTAC
Found at i:38396568 original size:19 final size:21
Alignment explanation
Indices: 38396544--38396593 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 21
38396534 CAGCATCTGT
38396544 ATGTATA-TC-ATTCCGAGAA
1 ATGTATATTCTATTCCGAGAA
38396563 ATGTATAAAATTCTATTCCGAGAA
1 ATGTAT---ATTCTATTCCGAGAA
38396587 ATGTATA
1 ATGTATA
38396594 AAATTTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 6 0.23
21 1 0.04
22 1 0.04
23 2 0.08
24 16 0.62
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (21 bp):
ATGTATATTCTATTCCGAGAA
Found at i:38396581 original size:24 final size:24
Alignment explanation
Indices: 38396553--38396598 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
38396543 TATGTATATC
38396553 ATTCCGAGAAATGTATAAAATTCT
1 ATTCCGAGAAATGTATAAAATTCT
38396577 ATTCCGAGAAATGTATAAAATT
1 ATTCCGAGAAATGTATAAAATT
38396599 TTATCTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (24 bp):
ATTCCGAGAAATGTATAAAATTCT
Found at i:38398985 original size:42 final size:42
Alignment explanation
Indices: 38398922--38399003 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
38398912 TGTTAAAAAA
*
38398922 ATTATGTATCAAAATAGTACATCCAAAGAGGT-AGAAGGTGAG
1 ATTATGTATCAAAATAATACATCCAAAGAGGTGA-AAGGTGAG
38398964 ATTATGTA-CTAAAATAATACATCCAAAGAGGTGAAAGGTG
1 ATTATGTATC-AAAATAATACATCCAAAGAGGTGAAAGGTG
38399004 GTACAAATTC
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
41 1 0.03
42 35 0.95
43 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.24
Consensus pattern (42 bp):
ATTATGTATCAAAATAATACATCCAAAGAGGTGAAAGGTGAG
Done.