Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 65 of 120
Found at i:19220371 original size:14 final size:15
Alignment explanation
Indices: 19220352--19220383 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
19220342 TATTAAAATT
19220352 AAATAATTGTTTT-A
1 AAATAATTGTTTTCA
19220366 AAATAATTGTTTTCA
1 AAATAATTGTTTTCA
19220381 AAA
1 AAA
19220384 ACTCCAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (15 bp):
AAATAATTGTTTTCA
Found at i:19225340 original size:20 final size:20
Alignment explanation
Indices: 19225315--19225355 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
19225305 TGTGCCCTTA
19225315 ACTCAAAA-TTTATAATTTTG
1 ACTCAAAATTTTAT-ATTTTG
19225335 ACTCAAAATTTTATATTTTG
1 ACTCAAAATTTTATATTTTG
19225355 A
1 A
19225356 TCAGATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (20 bp):
ACTCAAAATTTTATATTTTG
Found at i:19228984 original size:16 final size:16
Alignment explanation
Indices: 19228964--19229011 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 16
19228954 AAATGAAGGC
19228964 AAAAATAAAAATAGCAT
1 AAAAATAAAAATA-CAT
19228981 AAAAAATAACAAATACAT
1 -AAAAATAA-AAATACAT
19228999 -AAAATAAATAATA
1 AAAAATAAA-AATA
19229012 AAATTAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 11 0.39
18 11 0.39
19 5 0.18
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAAATAAAAATACAT
Found at i:19228985 original size:18 final size:18
Alignment explanation
Indices: 19228964--19229002 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
19228954 AAATGAAGGC
19228964 AAAAATAA-AAATAGCATA
1 AAAAATAACAAATA-CATA
19228982 AAAAATAACAAATACATA
1 AAAAATAACAAATACATA
19229000 AAA
1 AAA
19229003 TAAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAAATAACAAATACATA
Found at i:19229039 original size:63 final size:62
Alignment explanation
Indices: 19228945--19229075 Score: 151
Period size: 63 Copynumber: 2.1 Consensus size: 62
19228935 TCAATGAATA
* * *
19228945 AATAAAATTAAATGAAGGCAAAAATAAAAATAGCATAA-AAAAT-AACAA-ATACATAAAATAAA
1 AATAAAATTAAATAAAAGCAAAAATAAAAATAACA-AAGAAAATGAACAACA-A-AT-AAATAAA
19229007 T
62 T
* **
19229008 AATAAAATTAAATAAAAGCAAGAATGCAAATAACAAAGAAAATGAACAACAAATAAATAAAT
1 AATAAAATTAAATAAAAGCAAAAATAAAAATAACAAAGAAAATGAACAACAAATAAATAAAT
19229070 AATAAA
1 AATAAA
19229076 TAAAACAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
62 16 0.27
63 36 0.61
64 6 0.10
65 1 0.02
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (62 bp):
AATAAAATTAAATAAAAGCAAAAATAAAAATAACAAAGAAAATGAACAACAAATAAATAAAT
Found at i:19229087 original size:12 final size:12
Alignment explanation
Indices: 19229059--19229092 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
19229049 ATGAACAACA
*
19229059 AATAAAT-AAAT
1 AATAAATAAAAC
19229070 AATAAATAAAAC
1 AATAAATAAAAC
19229082 AATAAATAAAA
1 AATAAATAAAA
19229093 ATAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (12 bp):
AATAAATAAAAC
Found at i:19229096 original size:18 final size:18
Alignment explanation
Indices: 19229063--19229110 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
19229053 ACAACAAATA
19229063 AATAAATAATAAATAAAAC
1 AATAAATAA-AAATAAAAC
*
19229082 AATAAATAAAAATAAAAT
1 AATAAATAAAAATAAAAC
*
19229100 ATTAAATAAAA
1 AATAAATAAAA
19229111 TAATGCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAATAAAAATAAAAC
Found at i:19229099 original size:23 final size:25
Alignment explanation
Indices: 19229035--19229100 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 25
19229025 GCAAGAATGC
*
19229035 AAATAACAAAGAAAATGAACAACAAAT
1 AAATAA-AAATAAAAT-AACAACAAAT
19229062 AAATAAATAAT-AAATAA-AAC-AAT
1 AAATAAA-AATAAAATAACAACAAAT
19229085 AAATAAAAATAAAATA
1 AAATAAAAATAAAATA
19229101 TTAAATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
22 3 0.08
23 15 0.42
24 3 0.08
25 2 0.06
26 5 0.14
27 8 0.22
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (25 bp):
AAATAAAAATAAAATAACAACAAAT
Found at i:19235878 original size:56 final size:56
Alignment explanation
Indices: 19235761--19236025 Score: 338
Period size: 56 Copynumber: 4.8 Consensus size: 56
19235751 ACAGATTTAC
* * * * *
19235761 GCTCTACCCGATCCAGAATCAAG-ATAATGCTCTACCCAAGCC-AAAGTAGAATAAT
1 GCTCTACCCGAGCAAGATTC-AGTATAACGCTCTACCCGAGCCAAAAGTAGAATAAT
* *
19235816 GCTCTACCTGAGCAAGATTCATTATAACGCTCTACCCGAGCCAAAAGTAGAATAAT
1 GCTCTACCCGAGCAAGATTCAGTATAACGCTCTACCCGAGCCAAAAGTAGAATAAT
* * * *
19235872 GCTCTACCCCAACAAGATTCAGTATAACGCT-TCACCCAAGCCAGAAGTAGAATAAT
1 GCTCTACCCGAGCAAGATTCAGTATAACGCTCT-ACCCGAGCCAAAAGTAGAATAAT
* *
19235928 GCTCTACCCGAGCAAGATTCAGGATAATGCTCTACCCGAGCCAAAAGTAGAATAAT
1 GCTCTACCCGAGCAAGATTCAGTATAACGCTCTACCCGAGCCAAAAGTAGAATAAT
* * **
19235984 GCTCTACCCGAGCAAGATTAAGAATTTCGCTCTACCCGAGCC
1 GCTCTACCCGAGCAAGATTCAGTATAACGCTCTACCCGAGCC
19236026 TTCCATTTGG
Statistics
Matches: 182, Mismatches: 24, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
54 1 0.01
55 34 0.19
56 146 0.80
57 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.21
Consensus pattern (56 bp):
GCTCTACCCGAGCAAGATTCAGTATAACGCTCTACCCGAGCCAAAAGTAGAATAAT
Found at i:19236007 original size:28 final size:27
Alignment explanation
Indices: 19235784--19236024 Score: 200
Period size: 28 Copynumber: 8.7 Consensus size: 27
19235774 CAGAATCAAG
* *
19235784 ATAATGCTCTACCCAAGCCAA-AGTAGA
1 ATAATGCTCTACCCGAG-CAAGATTAGA
* **
19235811 ATAATGCTCTACCTGAGCAAGATTCATT
1 ATAATGCTCTACCCGAGCAAGATT-AGA
* * *
19235839 ATAACGCTCTACCCGAGCCAAAAGTAGA
1 ATAATGCTCTACCCGAG-CAAGATTAGA
* * *
19235867 ATAATGCTCTACCCCAACAAGATTCAGT
1 ATAATGCTCTACCCGAGCAAGATT-AGA
* * * *
19235895 ATAACGCT-TCACCCAAGCCAGAAGTAGA
1 ATAATGCTCT-ACCCGAGCAAG-ATTAGA
*
19235923 ATAATGCTCTACCCGAGCAAGATTCAGG
1 ATAATGCTCTACCCGAGCAAGATT-AGA
* *
19235951 ATAATGCTCTACCCGAGCCAAAAGTAGA
1 ATAATGCTCTACCCGAG-CAAGATTAGA
19235979 ATAATGCTCTACCCGAGCAAGATTAAGA
1 ATAATGCTCTACCCGAGCAAGATT-AGA
*
19236007 AT-TTCGCTCTACCCGAGC
1 ATAAT-GCTCTACCCGAGC
19236025 CTTCCATTTG
Statistics
Matches: 169, Mismatches: 34, Indels: 21
0.75 0.15 0.09
Matches are distributed among these distances:
26 3 0.02
27 31 0.18
28 122 0.72
29 13 0.08
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.21
Consensus pattern (27 bp):
ATAATGCTCTACCCGAGCAAGATTAGA
Found at i:19238036 original size:23 final size:21
Alignment explanation
Indices: 19238006--19238074 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 21
19237996 ATATGTGAGC
19238006 CCTTCATGTTGTATTAGGCAAA
1 CCTTCATGTTGTATTAGG-AAA
19238028 CCTTACATGTTGTA-TATGTG-AA
1 CCTT-CATGTTGTATTA-G-GAAA
19238050 CCATTCATGTTGTATTAGGAGAA
1 CC-TTCATGTTGTATTAGGA-AA
19238073 CC
1 CC
19238075 CAACATGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
21 1 0.03
22 20 0.50
23 18 0.45
24 1 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (21 bp):
CCTTCATGTTGTATTAGGAAA
Found at i:19238051 original size:22 final size:21
Alignment explanation
Indices: 19237995--19238092 Score: 70
Period size: 23 Copynumber: 4.4 Consensus size: 21
19237985 TAGCAAATTA
*
19237995 TATATGTGAGCCCTTCATGTTG
1 TATATGTGA-ACCTTCATGTTG
* **
19238017 TATTAGGCAAACCTTACATGTTG
1 TA-TATGTGAACCTT-CATGTTG
19238040 TATATGTGAACCATTCATGTTG
1 TATATGTGAACC-TTCATGTTG
* * **
19238062 TATTAGGAGAACCCAACATGTTG
1 TA-TATGTGAA-CCTTCATGTTG
19238085 TATATGTG
1 TATATGTG
19238093 CAAACCCCTT
Statistics
Matches: 58, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
22 26 0.45
23 30 0.52
24 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (21 bp):
TATATGTGAACCTTCATGTTG
Found at i:19238059 original size:45 final size:45
Alignment explanation
Indices: 19237995--19238092 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 45
19237985 TAGCAAATTA
* * **
19237995 TATATGTGAGCCCTTCATGTTGTATTAGGCA-AACCTTACATGTTG
1 TATATGTGAACCATTCATGTTGTATTAGG-AGAACCCAACATGTTG
19238040 TATATGTGAACCATTCATGTTGTATTAGGAGAACCCAACATGTTG
1 TATATGTGAACCATTCATGTTGTATTAGGAGAACCCAACATGTTG
19238085 TATATGTG
1 TATATGTG
19238093 CAAACCCCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (45 bp):
TATATGTGAACCATTCATGTTGTATTAGGAGAACCCAACATGTTG
Found at i:19238081 original size:23 final size:23
Alignment explanation
Indices: 19238010--19238087 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
19238000 GTGAGCCCTT
**
19238010 CATGTTGTATTAGGCA-AACCTTA
1 CATGTTGTATTAGG-AGAACCCAA
* * *
19238033 CATGTTGTA-TATGTGAA-CCATT
1 CATGTTGTATTAGGAGAACCCA-A
19238055 CATGTTGTATTAGGAGAACCCAA
1 CATGTTGTATTAGGAGAACCCAA
19238078 CATGTTGTAT
1 CATGTTGTAT
19238088 ATGTGCAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
21 1 0.02
22 14 0.33
23 25 0.58
24 3 0.07
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (23 bp):
CATGTTGTATTAGGAGAACCCAA
Found at i:19238680 original size:23 final size:21
Alignment explanation
Indices: 19238649--19238701 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
19238639 TATGAATATC
*
19238649 ATGCGAACCTTACACATGTACTT
1 ATGCAAACCTTAC-CA-GTACTT
* *
19238672 ATGCAAACCTTACTAGTAGTT
1 ATGCAAACCTTACCAGTACTT
19238693 ATGCAAACC
1 ATGCAAACC
19238702 CATGTGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 14 0.52
22 1 0.04
23 12 0.44
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (21 bp):
ATGCAAACCTTACCAGTACTT
Found at i:19238772 original size:24 final size:23
Alignment explanation
Indices: 19238715--19238770 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
19238705 GTGTTTAGTT
* * *
19238715 ATGCGAACCTTTTATATGTTAGC
1 ATGCGAACCCTTTATATGATAAC
*
19238738 ATACGAACCCTTTATATGATAAC
1 ATGCGAACCCTTTATATGATAAC
19238761 ATGCGAACCC
1 ATGCGAACCC
19238771 CTAGGTGCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (23 bp):
ATGCGAACCCTTTATATGATAAC
Found at i:19242305 original size:14 final size:14
Alignment explanation
Indices: 19242286--19242318 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
19242276 CAATGGATTT
19242286 ATTAAAATTTTATA
1 ATTAAAATTTTATA
*
19242300 ATTAAAATTTTGTA
1 ATTAAAATTTTATA
19242314 ATTAA
1 ATTAA
19242319 TTATTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
ATTAAAATTTTATA
Found at i:19242326 original size:3 final size:3
Alignment explanation
Indices: 19242318--19242346 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19242308 TTTGTAATTA
19242318 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
19242347 ATTTTTTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:19243599 original size:15 final size:14
Alignment explanation
Indices: 19243565--19243599 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
19243555 TGGTGCTTTC
19243565 TATTTTTCATTTAA
1 TATTTTTCATTTAA
*
19243579 TATTTTTTATTTAA
1 TATTTTTCATTTAA
*
19243593 TACTTTT
1 TATTTTT
19243600 ATTCAAATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTTTTCATTTAA
Found at i:19247205 original size:14 final size:13
Alignment explanation
Indices: 19247181--19247210 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
19247171 GTCAATGCAA
19247181 TCAGAGTTAAATG
1 TCAGAGTTAAATG
19247194 TCAGACGTTAAATG
1 TCAGA-GTTAAATG
19247208 TCA
1 TCA
19247211 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (13 bp):
TCAGAGTTAAATG
Found at i:19251748 original size:13 final size:14
Alignment explanation
Indices: 19251730--19251759 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19251720 GTCAACGCAA
19251730 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
19251743 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
19251757 TCA
1 TCA
19251760 TTGTACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:19254545 original size:98 final size:97
Alignment explanation
Indices: 19254374--19254563 Score: 265
Period size: 98 Copynumber: 1.9 Consensus size: 97
19254364 TGGAAAAGGA
* ** *
19254374 TATTCGATTATCTCGATTTGAAGAAAAGTCGCAACTAGTAAGTTAAGGCACGGATTTTCAGAATC
1 TATTCGATTATCTCGATTTGAAGAAAAATCGCAACTAGTAAGTTAAGGCACAAATTTTCAAAATC
*
19254439 AAAGATAAAGAAACATTGCCTCGATTTGAGGG
66 AAAGATAAAGAAACATTGCCACGATTTGAGGG
* * *
19254471 TATTCGATTATTTCGATTTGAGGAAAATATTGCAACTAGTAAGTTAAGGCACAAATTTTCAAAAT
1 TATTCGATTATCTCGATTTGAAGAAAA-ATCGCAACTAGTAAGTTAAGGCACAAATTTTCAAAA-
* *
19254536 TCGAA-ATAAAGAAATATTGCCACGATTT
64 TCAAAGATAAAGAAACATTGCCACGATTT
19254564 TAAAATAATT
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
97 25 0.31
98 52 0.64
99 4 0.05
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (97 bp):
TATTCGATTATCTCGATTTGAAGAAAAATCGCAACTAGTAAGTTAAGGCACAAATTTTCAAAATC
AAAGATAAAGAAACATTGCCACGATTTGAGGG
Found at i:19254798 original size:29 final size:29
Alignment explanation
Indices: 19254765--19254830 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
19254755 CAAAAATGTG
** * *
19254765 ATTTTTGGATGCTTGGGGGTAAAACGATA
1 ATTTTTGGACACTCGGGGGCAAAACGATA
* *
19254794 A-TTTTGGACACTCGGGGGCAAAATGGTA
1 ATTTTTGGACACTCGGGGGCAAAACGATA
19254822 ATTTTTGGA
1 ATTTTTGGA
19254831 AGGTTCGAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.27, C:0.09, G:0.30, T:0.33
Consensus pattern (29 bp):
ATTTTTGGACACTCGGGGGCAAAACGATA
Found at i:19254855 original size:30 final size:30
Alignment explanation
Indices: 19254813--19255228 Score: 153
Period size: 29 Copynumber: 14.1 Consensus size: 30
19254803 ACTCGGGGGC
19254813 AAAATGGTAATTTTTGGAAGGTTCGAGGTCA
1 AAAATGGTAATTTTTGGAA-GTTCGAGGTCA
* * ***
19254844 AAAATGG-AATTTTTAG-A-TATCAAGGGGT
1 AAAATGGTAATTTTTGGAAGT-TCGAGGTCA
* * *
19254872 AAAATGGTAATTTTTGGATGGTTCGGGGTTA
1 AAAATGGTAATTTTTGGA-AGTTCGAGGTCA
* *
19254903 AAAATGG-AATTTTTAGACA-TTTGAGGGT--
1 AAAATGGTAATTTTTGGA-AGTTCGA-GGTCA
* *
19254931 AAAATGGTAATTTTTGGAAGCTT-TACGGTTA
1 AAAATGGTAATTTTTGGAAG-TTCGA-GGTCA
* *
19254962 AAAATGG-AATTTTTGGACA-TTCGGGGGC-
1 AAAATGGTAATTTTTGGA-AGTTCGAGGTCA
* *
19254990 AAAGTGGTAATTTTTAGAAGTTTCGAGGTCA
1 AAAATGGTAATTTTTGGAAG-TTCGAGGTCA
*
19255021 AAAATGG-AATTTTTAGACA-TTCGAGAGT--
1 AAAATGGTAATTTTTGGA-AGTTCGAG-GTCA
* **
19255049 AAAATGGTAATTTTTAGAAAAAATC-AGGGTCA
1 AAAATGGTAATTTTT-G-GAAGTTCGA-GGTCA
** * * *
19255081 AAAATGGT-GCTTTTGGAAATTTGGGGTCA
1 AAAATGGTAATTTTTGGAAGTTCGAGGTCA
*** * *
19255110 AAAATGG-AATTTTAAAAAGTTTG-GG-GA
1 AAAATGGTAATTTTTGGAAGTTCGAGGTCA
* * *
19255137 GAAAT-GTAATTTTTGGAACATTCTG-GGTAA
1 AAAATGGTAATTTTTGGAA-GTTC-GAGGTCA
* *
19255167 AAAATGG-AA-TTTTGAAAAGTTCGAGGGCA
1 AAAATGGTAATTTTTG-GAAGTTCGAGGTCA
***
19255196 AAAAT-GTAATTTTCAAAAAGTTCGAGGTCA
1 AAAATGGTAATTTT-TGGAAGTTCGAGGTCA
19255226 AAA
1 AAA
19255229 TATAATTTCT
Statistics
Matches: 287, Mismatches: 60, Indels: 77
0.68 0.14 0.18
Matches are distributed among these distances:
26 1 0.00
27 14 0.05
28 40 0.14
29 97 0.34
30 84 0.29
31 42 0.15
32 9 0.03
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.32
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAGTTCGAGGTCA
Found at i:19255067 original size:59 final size:59
Alignment explanation
Indices: 19254795--19255063 Score: 326
Period size: 59 Copynumber: 4.6 Consensus size: 59
19254785 AAAACGATAA
* * * *
19254795 TTTTGGACACTCGGGGGCAAAATGGTAATTTTTGGAAGGTTCGAGGTCAAAAATGGAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGGTCAAAAATGGAAT
* * * * *
19254854 TTTTAGATA-TCAAGGGGTAAAATGGTAATTTTTGGATGGTTCGGGGTTAAAAATGGAAT
1 TTTTAGACATTCGA-GGGTAAAATGGTAATTTTTGGAAGGTTCGAGGTCAAAAATGGAAT
* * * *
19254913 TTTTAGACATTTGAGGGTAAAATGGTAATTTTTGGAAGCTT-TACGGTTAAAAATGGAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGA-GGTCAAAAATGGAAT
* * * * * *
19254972 TTTTGGACATTCGGGGGCAAAGTGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGGAAT
1 TTTTAGACATTCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGGTCAAAAATGGAAT
*
19255031 TTTTAGACATTCGAGAGTAAAATGGTAATTTTT
1 TTTTAGACATTCGAGGGTAAAATGGTAATTTTT
19255064 AGAAAAAATC
Statistics
Matches: 177, Mismatches: 29, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
58 2 0.01
59 172 0.97
60 3 0.02
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.35
Consensus pattern (59 bp):
TTTTAGACATTCGAGGGTAAAATGGTAATTTTTGGAAGGTTCGAGGTCAAAAATGGAAT
Found at i:19255123 original size:118 final size:118
Alignment explanation
Indices: 19254813--19255131 Score: 293
Period size: 118 Copynumber: 2.7 Consensus size: 118
19254803 ACTCGGGGGC
* *** * * * * *
19254813 AAAATGGTAATTTTTGGAAGGTTCGA-GGTCAAAAATGGAATTTTTAGATA-TCAAGGGGTAAAA
1 AAAATGGTAATTTTTGAAAAAATC-ACGGTCAAAAATGGAACTTTTGGAAATTC-GGGGGCAAAA
* * * * * * *
19254876 TGGTAATTTTTGGATGGTTCGGGGTTAAAAATGGAATTTTTAGACATTTGAGGGT
64 TGGTAATTTTTAGAAGTTTCGAGGTCAAAAATGGAATTTTTAGACATTCGAGAGT
* *** * * * * *
19254931 AAAATGGTAATTTTTGGAAGCTTTACGGTTAAAAATGGAATTTTTGGACATTCGGGGGCAAAGTG
1 AAAATGGTAATTTTTGAAAAAATCACGGTCAAAAATGGAACTTTTGGAAATTCGGGGGCAAAATG
19254996 GTAATTTTTAGAAGTTTCGAGGTCAAAAATGGAATTTTTAGACATTCGAGAGT
66 GTAATTTTTAGAAGTTTCGAGGTCAAAAATGGAATTTTTAGACATTCGAGAGT
* ** * *
19255049 AAAATGGTAATTTTTAGAAAAAATCAGGGTCAAAAATGGTGCTTTTGGAAATTTGGGGTCAAAAA
1 AAAATGGTAATTTTT-GAAAAAATCACGGTCAAAAATGGAACTTTTGGAAATTCGGGGGC-AAAA
* *
19255114 TGG-AATTTTAAAAAGTTT
64 TGGTAATTTTTAGAAGTTT
19255132 GGGGAGAAAT
Statistics
Matches: 166, Mismatches: 31, Indels: 7
0.81 0.15 0.03
Matches are distributed among these distances:
117 1 0.01
118 113 0.68
119 46 0.28
120 6 0.04
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (118 bp):
AAAATGGTAATTTTTGAAAAAATCACGGTCAAAAATGGAACTTTTGGAAATTCGGGGGCAAAATG
GTAATTTTTAGAAGTTTCGAGGTCAAAAATGGAATTTTTAGACATTCGAGAGT
Found at i:19255178 original size:57 final size:58
Alignment explanation
Indices: 19255091--19255208 Score: 161
Period size: 57 Copynumber: 2.1 Consensus size: 58
19255081 AAAATGGTGC
* * *
19255091 TTTTGGAAATTTGGGGTCAAAAATGGAATTTTAAAAAGTTTG-GGG-AGAAATGTAAT
1 TTTTGGAAATTTGGGGTAAAAAATGGAATTTTAAAAAGTTCGAGGGCAAAAATGTAAT
*
19255147 TTTTGGAACATTCT-GGGTAAAAAATGGAATTTTGAAAAGTTCGAGGGCAAAAATGTAAT
1 TTTTGGAA-ATT-TGGGGTAAAAAATGGAATTTTAAAAAGTTCGAGGGCAAAAATGTAAT
19255206 TTT
1 TTT
19255209 CAAAAAGTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
56 8 0.15
57 29 0.54
58 4 0.07
59 13 0.24
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (58 bp):
TTTTGGAAATTTGGGGTAAAAAATGGAATTTTAAAAAGTTCGAGGGCAAAAATGTAAT
Found at i:19255229 original size:29 final size:29
Alignment explanation
Indices: 19255166--19255236 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
19255156 ATTCTGGGTA
* *
19255166 AAAAATGGAATTTTGAAAAGTTCGAGGGC
1 AAAAATGTAATTTTAAAAAGTTCGAGGGC
*
19255195 AAAAATGTAATTTTCAAAAAGTTCGAGGTC
1 AAAAATGTAATTTT-AAAAAGTTCGAGGGC
*
19255225 -AAAATATAATTT
1 AAAAATGTAATTT
19255237 CTGGACAGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 24 0.65
30 13 0.35
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (29 bp):
AAAAATGTAATTTTAAAAAGTTCGAGGGC
Found at i:19256277 original size:3 final size:3
Alignment explanation
Indices: 19256263--19256331 Score: 68
Period size: 3 Copynumber: 23.0 Consensus size: 3
19256253 AATATTATAT
* * * * *
19256263 TTA TTA TCA TTA TTA TTA TTA ATA TTA ATA TTA TTA -AA ATA GTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
19256308 TTA TTA TTA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
19256332 CTGATTCATT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
2 1 0.02
3 50 0.94
4 2 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:19256330 original size:15 final size:15
Alignment explanation
Indices: 19256253--19256331 Score: 72
Period size: 15 Copynumber: 5.1 Consensus size: 15
19256243 TTATTTACTA
19256253 AATATTA-TATTTATT
1 AATATTATTA-TTATT
19256268 -ATCATTATTATTATT
1 AAT-ATTATTATTATT
*
19256283 AATATTAATATTATT
1 AATATTATTATTATT
19256298 AAAATAGTTATTATTATT
1 --AATA-TTATTATTATT
* *
19256316 ATTAATATTATTATT
1 AATATTATTATTATT
19256331 A
1 A
19256332 CTGATTCATT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.04
15 31 0.57
16 7 0.13
17 4 0.07
18 10 0.19
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (15 bp):
AATATTATTATTATT
Found at i:19258406 original size:352 final size:352
Alignment explanation
Indices: 19257762--19258465 Score: 1399
Period size: 352 Copynumber: 2.0 Consensus size: 352
19257752 CGCTAGTGGC
19257762 TTCAGAGAAACACTGAATTTGTTTCTAGTTCCCTTCTCTTTTAATTTCTTGTTTCTGTTATGATG
1 TTCAGAGAAACACTGAATTTGTTTCTAGTTCCCTTCTCTTTTAATTTCTTGTTTCTGTTATGATG
19257827 AATACTCATAGTTTTGTTACTTTTAATTTTAAATAAACTTGCTTAATTTAATTTGTGTTAGATTG
66 AATACTCATAGTTTTGTTACTTTTAATTTTAAATAAACTTGCTTAATTTAATTTGTGTTAGATTG
19257892 ATTGTGTTCGATTGCTTAATTTATTAAAAATCATGTTTGTGTTGTTATAGGCCTTGCTAATTTGT
131 ATTGTGTTCGATTGCTTAATTTATTAAAAATCATGTTTGTGTTGTTATAGGCCTTGCTAATTTGT
19257957 TCAATTAAATATAATCATGCTTATGTTATGTTTGCATTTCAATTGTAAGGTAACAAATGAATTAA
196 TCAATTAAATATAATCATGCTTATGTTATGTTTGCATTTCAATTGTAAGGTAACAAATGAATTAA
19258022 TTATTTAAGCGGATTGAAATTCTAATTAATGGACGCAATATTTAATTGGTGCATGTTTAATCTTC
261 TTATTTAAGCGGATTGAAATTCTAATTAATGGACGCAATATTTAATTGGTGCATGTTTAATCTTC
19258087 TAAGGTAACTGAAGGTTAAATTAGTGA
326 TAAGGTAACTGAAGGTTAAATTAGTGA
*
19258114 TTCAGAGAGACACTGAATTTGTTTCTAGTTCCCTTCTCTTTTAATTTCTTGTTTCTGTTATGATG
1 TTCAGAGAAACACTGAATTTGTTTCTAGTTCCCTTCTCTTTTAATTTCTTGTTTCTGTTATGATG
19258179 AATACTCATAGTTTTGTTACTTTTAATTTTAAATAAACTTGCTTAATTTAATTTGTGTTAGATTG
66 AATACTCATAGTTTTGTTACTTTTAATTTTAAATAAACTTGCTTAATTTAATTTGTGTTAGATTG
19258244 ATTGTGTTCGATTGCTTAATTTATTAAAAATCATGTTTGTGTTGTTATAGGCCTTGCTAATTTGT
131 ATTGTGTTCGATTGCTTAATTTATTAAAAATCATGTTTGTGTTGTTATAGGCCTTGCTAATTTGT
19258309 TCAATTAAATATAATCATGCTTATGTTATGTTTGCATTTCAATTGTAAGGTAACAAATGAATTAA
196 TCAATTAAATATAATCATGCTTATGTTATGTTTGCATTTCAATTGTAAGGTAACAAATGAATTAA
19258374 TTATTTAAGCGGATTGAAATTCTAATTAATGGACGCAATATTTAATTGGTGCATGTTTAATCTTC
261 TTATTTAAGCGGATTGAAATTCTAATTAATGGACGCAATATTTAATTGGTGCATGTTTAATCTTC
19258439 TAAGGTAACTGAAGGTTAAATTAGTGA
326 TAAGGTAACTGAAGGTTAAATTAGTGA
19258466 CGGCATTAAA
Statistics
Matches: 351, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
352 351 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.45
Consensus pattern (352 bp):
TTCAGAGAAACACTGAATTTGTTTCTAGTTCCCTTCTCTTTTAATTTCTTGTTTCTGTTATGATG
AATACTCATAGTTTTGTTACTTTTAATTTTAAATAAACTTGCTTAATTTAATTTGTGTTAGATTG
ATTGTGTTCGATTGCTTAATTTATTAAAAATCATGTTTGTGTTGTTATAGGCCTTGCTAATTTGT
TCAATTAAATATAATCATGCTTATGTTATGTTTGCATTTCAATTGTAAGGTAACAAATGAATTAA
TTATTTAAGCGGATTGAAATTCTAATTAATGGACGCAATATTTAATTGGTGCATGTTTAATCTTC
TAAGGTAACTGAAGGTTAAATTAGTGA
Found at i:19260777 original size:173 final size:175
Alignment explanation
Indices: 19260471--19260794 Score: 407
Period size: 173 Copynumber: 1.9 Consensus size: 175
19260461 TGAGGGAAAG
* *
19260471 TAAATAGGAGAGTAAAATTTTGGAAGAAAAATATTCAAAAATAAAATTAGGAGGGGGGAATGGGT
1 TAAATAGGAGAGTAAAATTTTGGAAGAAAAATATTCAAAAATAAAATTA-GAGGGGGAAATGGAT
*
19260536 TTGGATAGATGGAGGATTGAATAGGAGGAGAGTAAAAGTTTTAGGTAAAAAGTGAGAAAGAGTAA
65 TTGGATAGATGGAGGAGTGAATAGGAGGAGAGTAAAAGTTTTAGGTAAAAAGTGAGAAAGAGTAA
19260601 AAGTTTTGGGAGAAAA-TAAAGAGTTTTGAGGATCTTTGAGAAAAA
130 AAGTTTTGGGAGAAAAGTAAAGAGTTTTGAGGATCTTTGAGAAAAA
* * *
19260646 TAAATGGGAGAGTAAAATTTTGGAGGGAAAATATT-AAAAA-AAAATT-G-GGGGGAAATGGATT
1 TAAATAGGAGAGTAAAATTTTGGAAGAAAAATATTCAAAAATAAAATTAGAGGGGGAAATGGATT
* * *
19260707 TGGGGTAGATGG-GGGGTGAGAT-GAGAGGGGAGTAAAAAAGTTTT--GTGAGAAAAGTG-GAAA
66 T-GGATAGATGGAGGAGTGA-ATAG-GAGGAGAGT--AAAAGTTTTAGGT-A-AAAAGTGAGAAA
*
19260767 GGAGTAAAAGTTTTGGGGGAAAAGTAAA
124 -GAGTAAAAGTTTTGGGAGAAAAGTAAA
19260795 AAAGGTTTGG
Statistics
Matches: 130, Mismatches: 10, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
170 19 0.15
171 22 0.17
172 5 0.04
173 43 0.33
174 9 0.07
175 32 0.25
ACGTcount: A:0.43, C:0.01, G:0.33, T:0.23
Consensus pattern (175 bp):
TAAATAGGAGAGTAAAATTTTGGAAGAAAAATATTCAAAAATAAAATTAGAGGGGGAAATGGATT
TGGATAGATGGAGGAGTGAATAGGAGGAGAGTAAAAGTTTTAGGTAAAAAGTGAGAAAGAGTAAA
AGTTTTGGGAGAAAAGTAAAGAGTTTTGAGGATCTTTGAGAAAAA
Found at i:19260952 original size:18 final size:19
Alignment explanation
Indices: 19260915--19260953 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
19260905 ATTCGAAAAA
* *
19260915 AATTCGAGTTGACTCGAAT
1 AATTCGAGTTAACTCAAAT
19260934 AATTCGA-TTAACTCAAAT
1 AATTCGAGTTAACTCAAAT
19260952 AA
1 AA
19260954 CTAGATTCGT
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:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (19 bp):
AATTCGAGTTAACTCAAAT
Found at i:19261604 original size:10 final size:10
Alignment explanation
Indices: 19261591--19261615 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19261581 TCAATTTTTA
19261591 TCTTTATTCT
1 TCTTTATTCT
19261601 TCTTTATTCT
1 TCTTTATTCT
19261611 TCTTT
1 TCTTT
19261616 TGAAACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (10 bp):
TCTTTATTCT
Found at i:19275800 original size:46 final size:47
Alignment explanation
Indices: 19275731--19275831 Score: 159
Period size: 46 Copynumber: 2.1 Consensus size: 47
19275721 ATGAATAAAG
* *
19275731 ATTTGATATATAAATGGAAGACTCCTGTCTCGGGATGAGCATGAGATT
1 ATTT-ATATATAAATGGAAGACTCATATCTCGGGATGAGCATGAGATT
19275779 ATTTATATA-AAATGGAAGACTCATATCTCGGGATGAGCATGAGATT
1 ATTTATATATAAATGGAAGACTCATATCTCGGGATGAGCATGAGATT
*
19275825 ATGTATA
1 ATTTATA
19275832 AACGGAAGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 41 0.82
47 5 0.10
48 4 0.08
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (47 bp):
ATTTATATATAAATGGAAGACTCATATCTCGGGATGAGCATGAGATT
Found at i:19275946 original size:43 final size:43
Alignment explanation
Indices: 19275813--19275950 Score: 188
Period size: 43 Copynumber: 3.2 Consensus size: 43
19275803 ATCTCGGGAT
* * *
19275813 GAGCATGAGATTATGTATAAACGGAAG-ACTTATGTCTTGGTAA
1 GAGCATAAGATTAT-TGTAAATGGAAGAACTTATGTCTTGGTAA
* *
19275856 GAGAATAAGATTATTGTAAATGGAAGAACTTATGTCTCGGTAA
1 GAGCATAAGATTATTGTAAATGGAAGAACTTATGTCTTGGTAA
* **
19275899 GAGCATAAGATTATTGTAAATGGAAGAACTTATGACTTGGTGG
1 GAGCATAAGATTATTGTAAATGGAAGAACTTATGTCTTGGTAA
19275942 GAGCATAAG
1 GAGCATAAG
19275951 GTTAATTCAG
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 10 0.12
43 74 0.88
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (43 bp):
GAGCATAAGATTATTGTAAATGGAAGAACTTATGTCTTGGTAA
Found at i:19290230 original size:12 final size:11
Alignment explanation
Indices: 19290205--19290253 Score: 73
Period size: 12 Copynumber: 4.4 Consensus size: 11
19290195 AAGGAAAATG
19290205 AGAAAAAG-AA
1 AGAAAAAGAAA
19290215 AGAAAAAGAAAA
1 AGAAAAAG-AAA
19290227 AGAAAAAGAAA
1 AGAAAAAGAAA
19290238 AGAGAAAAGAAA
1 AGA-AAAAGAAA
19290250 AGAA
1 AGAA
19290254 GAAAAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.22
11 7 0.19
12 21 0.58
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:19290232 original size:5 final size:6
Alignment explanation
Indices: 19290191--19290262 Score: 64
Period size: 6 Copynumber: 12.0 Consensus size: 6
19290181 TCAGTCACTT
19290191 GAAAAA GGAAAATGA GAAAAA G--AAA GAAAAA GAAAAA GAAAAA G-AAAA
1 GAAAAA -GAAAA--A GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
19290239 GAGAAAA G-AAAA GAAGAAA -AAAAA
1 GA-AAAA GAAAAA GAA-AAA GAAAAA
19290263 TGTTTGCTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 18
0.76 0.00 0.24
Matches are distributed among these distances:
4 4 0.07
5 13 0.23
6 21 0.37
7 13 0.23
8 5 0.09
9 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (6 bp):
GAAAAA
Found at i:19290234 original size:18 final size:17
Alignment explanation
Indices: 19290205--19290262 Score: 68
Period size: 17 Copynumber: 3.4 Consensus size: 17
19290195 AAGGAAAATG
19290205 AGAAAAAG-AAAGAAAA
1 AGAAAAAGAAAAGAAAA
19290221 AGAAAAAGAAAA-AGAAA
1 AGAAAAAGAAAAGA-AAA
19290238 AGAGAAAAGAAAAGAAGAA
1 AGA-AAAAGAAAAGAA-AA
19290257 A-AAAAA
1 AGAAAAA
19290263 TGTTTGCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
16 9 0.24
17 13 0.35
18 11 0.30
19 4 0.11
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AGAAAAAGAAAAGAAAA
Found at i:19298920 original size:21 final size:21
Alignment explanation
Indices: 19298896--19298948 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
19298886 TTGTGCTAGC
19298896 TCTACCGATACAAGT-ATG-A
1 TCTACCGATACAAGTCATGCA
*
19298915 TTTCTACTGATACAAGTCATGCA
1 --TCTACCGATACAAGTCATGCA
19298938 TCTACCGATAC
1 TCTACCGATAC
19298949 CAAAAACTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 24 0.86
22 3 0.11
23 1 0.04
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (21 bp):
TCTACCGATACAAGTCATGCA
Found at i:19312770 original size:151 final size:151
Alignment explanation
Indices: 19312491--19312787 Score: 461
Period size: 151 Copynumber: 2.0 Consensus size: 151
19312481 AAGTAACATA
* * *
19312491 CTGGACGTAAAGCTCACTAGTCTATTTTGTTTCATTTCAGGTGATCCTTAGGCTTAGGATTGGAT
1 CTGGACGTAAAGCTCACTAGTCTATTCTGTTTCATTTCAAGTGATCCTTAGGCTTAGGATTAGAT
* *
19312556 GGCGACTCTGGAGCTCGGTTTACACGCTATTGGTTTAGTATGTTTTGGAATAATTTTATGGACTT
66 GGCAACTCTGGAGCTCGATTTACACGCTATTGGTTTAGTATGTTTTGGAATAATTTTATGGACTT
19312621 TTTGAACTTTTAATTTACACG
131 TTTGAACTTTTAATTTACACG
* * *
19312642 CTGGGCGTAAAGCTCACTCA-TTTGTTCTGTTTCATTTCAAGTGATCCTTAGGCTTAGGATTAGA
1 CTGGACGTAAAGCTCACT-AGTCTATTCTGTTTCATTTCAAGTGATCCTTAGGCTTAGGATTAGA
* * * * *
19312706 TGGTAACTTTGGAGCTCGATTTACATGTTATTGGTTTAGTATGTTTTGGACTAATTTTATGGACT
65 TGGCAACTCTGGAGCTCGATTTACACGCTATTGGTTTAGTATGTTTTGGAATAATTTTATGGACT
19312771 TTTTGAACTTTTAATTT
130 TTTTGAACTTTTAATTT
19312788 TTGTCTAGGA
Statistics
Matches: 132, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
151 131 0.99
152 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (151 bp):
CTGGACGTAAAGCTCACTAGTCTATTCTGTTTCATTTCAAGTGATCCTTAGGCTTAGGATTAGAT
GGCAACTCTGGAGCTCGATTTACACGCTATTGGTTTAGTATGTTTTGGAATAATTTTATGGACTT
TTTGAACTTTTAATTTACACG
Found at i:19313909 original size:22 final size:22
Alignment explanation
Indices: 19313881--19313925 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
19313871 CTTTTATACA
19313881 AACACATGGCCAAGGTAAGTTC
1 AACACATGGCCAAGGTAAGTTC
19313903 AACACATGGCCAAGGTAAGTTC
1 AACACATGGCCAAGGTAAGTTC
19313925 A
1 A
19313926 TGTATTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (22 bp):
AACACATGGCCAAGGTAAGTTC
Found at i:19315629 original size:29 final size:28
Alignment explanation
Indices: 19315531--19315754 Score: 267
Period size: 28 Copynumber: 8.0 Consensus size: 28
19315521 CGCGATCAAC
* * *
19315531 AGGTTATATCTG-AATGATATATTGAAA
1 AGGTTATATCCGTAAGGATATTTTGAAA
* * *
19315558 AGGTTATATTCGAAAGCATATTTTGAAA
1 AGGTTATATCCGTAAGGATATTTTGAAA
19315586 AGG-TATATCC-TAAGGATATTATTGAAA
1 AGGTTATATCCGTAAGGATATT-TTGAAA
19315613 AGGTTATATCCGTAAGGATATTTTGAAA
1 AGGTTATATCCGTAAGGATATTTTGAAA
19315641 AGG-TATATCCGTAAGGATATTATTGAAA
1 AGGTTATATCCGTAAGGATATT-TTGAAA
** *
19315669 AGGTTATATCTTTAAGGATGTTATTGAAA
1 AGGTTATATCCGTAAGGATATT-TTGAAA
*
19315698 AGGTTATATCCGAAAGGATATTTTGAAA
1 AGGTTATATCCGTAAGGATATTTTGAAA
* * * *
19315726 AGGTGATATTCGAAATGATATTTTGAAA
1 AGGTTATATCCGTAAGGATATTTTGAAA
19315754 A
1 A
19315755 AGGTATAATC
Statistics
Matches: 173, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.05
27 43 0.25
28 72 0.42
29 50 0.29
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (28 bp):
AGGTTATATCCGTAAGGATATTTTGAAA
Found at i:19315782 original size:28 final size:28
Alignment explanation
Indices: 19315546--19315783 Score: 199
Period size: 28 Copynumber: 8.5 Consensus size: 28
19315536 ATATCTGAAT
*
19315546 GATA-TATTGAAAAGGTTATATTCGAAAG
1 GATATTATTGAAAAGG-TATAATCGAAAG
* **
19315574 CATATT-TTGAAAAGGTAT-ATCCTAAG
1 GATATTATTGAAAAGGTATAATCGAAAG
*
19315600 GATATTATTGAAAAGGT-TATATCCGTAAG
1 GATATTATTGAAAAGGTATA-AT-CGAAAG
*
19315629 GATATT-TTGAAAAGGTAT-ATCCGTAAG
1 GATATTATTGAAAAGGTATAAT-CGAAAG
**
19315656 GATATTATTGAAAAGGT-TATATCTTTAAG
1 GATATTATTGAAAAGGTATA-ATC-GAAAG
*
19315685 GATGTTATTGAAAAGGT-TATATCCGAAAG
1 GATATTATTGAAAAGGTATA-AT-CGAAAG
* *
19315714 GATATT-TTGAAAAGGTGATATTCGAAAT
1 GATATTATTGAAAAGGT-ATAATCGAAAG
19315742 GATATT-TTGAAAAAGGTATAATCGAAAG
1 GATATTATTG-AAAAGGTATAATCGAAAG
* *
19315770 AATATTATTAAAAA
1 GATATTATTGAAAA
19315784 AGGGTCATAT
Statistics
Matches: 178, Mismatches: 17, Indels: 30
0.79 0.08 0.13
Matches are distributed among these distances:
26 11 0.06
27 29 0.16
28 77 0.43
29 58 0.33
30 3 0.02
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.34
Consensus pattern (28 bp):
GATATTATTGAAAAGGTATAATCGAAAG
Found at i:19328976 original size:40 final size:39
Alignment explanation
Indices: 19328906--19329207 Score: 220
Period size: 40 Copynumber: 7.6 Consensus size: 39
19328896 AGCTTAGCTA
* * * * *
19328906 TGTTTATAGTGTCACAGCTAGTTC-GATAGTAATACTGCAG
1 TGTTTACAGTGTCACTGCCAATTCAG-TAGTAAT-GTGCAG
* *
19328946 TGTTTACAGTGTCACTACCAATTCAGTAGTAATATTGCAG
1 TGTTTACAGTGTCACTGCCAATTCAGTAGTAAT-GTGCAG
* * *
19328986 TGTTTACAATGTCATTGCCAGTTCAGTAGTAATGT-CATAG
1 TGTTTACAGTGTCACTGCCAATTCAGTAGTAATGTGC--AG
* * *
19329026 TGTTTACAGTGTGACTGCTAATTCAGTAGTAATGTCGTAG
1 TGTTTACAGTGTCACTGCCAATTCAGTAGTAATGT-GCAG
* *
19329066 TGTTTACA--GTCACTGCCAGTTCAGTAGTAATGT-CACTA
1 TGTTTACAGTGTCACTGCCAATTCAGTAGTAATGTGCA--G
** * * * *
19329104 TGTTTACAGTACCACTGCTAGTTCAGTAGTAATGTCACAA
1 TGTTTACAGTGTCACTGCCAATTCAGTAGTAATGT-GCAG
* * * * **
19329144 TGTTTAAAGTGTCACTACCAGTTTAGTA-TAGCGTTGCAG
1 TGTTTACAGTGTCACTGCCAATTCAGTAGTAATG-TGCAG
*
19329183 TGTTTACAGTGTTACTGCCAATTCA
1 TGTTTACAGTGTCACTGCCAATTCA
19329208 ATAATCTTTC
Statistics
Matches: 210, Mismatches: 40, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
36 1 0.00
38 31 0.15
39 26 0.12
40 149 0.71
41 1 0.00
42 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (39 bp):
TGTTTACAGTGTCACTGCCAATTCAGTAGTAATGTGCAG
Found at i:19329121 original size:78 final size:80
Alignment explanation
Indices: 19328944--19329207 Score: 286
Period size: 78 Copynumber: 3.3 Consensus size: 80
19328934 GTAATACTGC
* * * * *
19328944 AGTGTTTACAGTGTCACTACCAATTCAGTAGTAATATTGCAGTGTTTACAATGTCATTGCCAGTT
1 AGTGTTTACAGTGTCACTGCTAATTCAGTAGTAATGTCGCAGTGTTTACAATGTCACTGCCAGTT
19329009 CAGTAGTAATGTCAT
66 CAGTAGTAATGTCAT
* *
19329024 AGTGTTTACAGTGTGACTGCTAATTCAGTAGTAATGTCGTAGTGTTTAC-A-GTCACTGCCAGTT
1 AGTGTTTACAGTGTCACTGCTAATTCAGTAGTAATGTCGCAGTGTTTACAATGTCACTGCCAGTT
19329087 CAGTAGTAATGTCACT
66 CAGTAGTAATGTCA-T
** * * * *
19329103 A-TGTTTACAGTACCACTGCTAGTTCAGTAGTAATGTCACAATGTTTA-AAGTGTCACTACCAGT
1 AGTGTTTACAGTGTCACTGCTAATTCAGTAGTAATGTCGCAGTGTTTACAA-TGTCACTGCCAGT
* ** ***
19329166 TTAGTA-TAGCGTTGC
65 TCAGTAGTAATGTCAT
* *
19329181 AGTGTTTACAGTGTTACTGCCAATTCA
1 AGTGTTTACAGTGTCACTGCTAATTCA
19329208 ATAATCTTTC
Statistics
Matches: 153, Mismatches: 26, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
78 67 0.44
79 27 0.18
80 59 0.39
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (80 bp):
AGTGTTTACAGTGTCACTGCTAATTCAGTAGTAATGTCGCAGTGTTTACAATGTCACTGCCAGTT
CAGTAGTAATGTCAT
Found at i:19335951 original size:40 final size:39
Alignment explanation
Indices: 19335906--19336128 Score: 176
Period size: 40 Copynumber: 5.6 Consensus size: 39
19335896 AGCTTAGCTG
* * * *
19335906 TGTTTACATTGTCACAACTAGTTCGATAGTAATACTGCAA
1 TGTTTACAATGTCACTACCAGTTC-ATAGTAATATTGCAA
* *
19335946 TGTTTACAATGTCACTGCCAGTTCAATAGTAATATTGCAG
1 TGTTTACAATGTCACTACCAGTTC-ATAGTAATATTGCAA
* * *
19335986 TGTTAACAGTGTCACTACCAGTTCAGTAGTAATATTGTAA
1 TGTTTACAATGTCACTACCAGTTCA-TAGTAATATTGCAA
* * ** * * * * *
19336026 TGTTTACAGTATCACTGTCAATTCAGTAGTAATGTCGTAG
1 TGTTTACAATGTCACTACCAGTTCA-TAGTAATATTGCAA
* * * * *
19336066 TGTTTACAGTGTCACTGCCAGTTCAATAGTAATGTCGCAG
1 TGTTTACAATGTCACTACCAGTTC-ATAGTAATATTGCAA
* *
19336106 TGTTTACAATATCACTGCCAGTT
1 TGTTTACAATGTCACTACCAGTT
19336129 TAGTATAGCA
Statistics
Matches: 155, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 153 0.99
41 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (39 bp):
TGTTTACAATGTCACTACCAGTTCATAGTAATATTGCAA
Found at i:19336041 original size:80 final size:80
Alignment explanation
Indices: 19335905--19336156 Score: 283
Period size: 80 Copynumber: 3.2 Consensus size: 80
19335895 TAGCTTAGCT
* * * * *
19335905 GTGTTTACATTGTCACAACTAGTTC-GATAGTAATACTGCAATGTTTACAATGTCACTGCCAGTT
1 GTGTTTACAGTGTCACTACCAGTTCAG-TAGTAATATTGCAATGTTTACAATATCACTGCCAGTT
*
19335969 CAATAGTAATATTGCA
65 CAGTAGTAATATTGCA
* * * * *
19335985 GTGTTAACAGTGTCACTACCAGTTCAGTAGTAATATTGTAATGTTTACAGTATCACTGTCAATTC
1 GTGTTTACAGTGTCACTACCAGTTCAGTAGTAATATTGCAATGTTTACAATATCACTGCCAGTTC
* * *
19336050 AGTAGTAATGTCGTA
66 AGTAGTAATATTGCA
* * * * * *
19336065 GTGTTTACAGTGTCACTGCCAGTTCAATAGTAATGTCGCAGTGTTTACAATATCACTGCCAGTTT
1 GTGTTTACAGTGTCACTACCAGTTCAGTAGTAATATTGCAATGTTTACAATATCACTGCCAGTTC
**
19336130 AGTA-TAGCATTGCA
66 AGTAGTAATATTGCA
19336144 GTGTTTACAGTGT
1 GTGTTTACAGTGT
19336157 TATTGCCAAT
Statistics
Matches: 141, Mismatches: 30, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
79 18 0.13
80 122 0.87
81 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (80 bp):
GTGTTTACAGTGTCACTACCAGTTCAGTAGTAATATTGCAATGTTTACAATATCACTGCCAGTTC
AGTAGTAATATTGCA
Found at i:19339020 original size:21 final size:21
Alignment explanation
Indices: 19338994--19339035 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
19338984 TGGTTGAAAG
19338994 AAAGAAATAAAAATATAAAAT
1 AAAGAAATAAAAATATAAAAT
19339015 AAAGAAATAAAAATATAAAAT
1 AAAGAAATAAAAATATAAAAT
19339036 CTTTCTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (21 bp):
AAAGAAATAAAAATATAAAAT
Found at i:19339182 original size:91 final size:91
Alignment explanation
Indices: 19339058--19339238 Score: 281
Period size: 91 Copynumber: 2.0 Consensus size: 91
19339048 CCTTCCTTAG
* * *
19339058 GGTTTTTAGGTTCAAGTTTCAAATTGGTAAGCTTAAATTAATCATTTTCTCGTATTTTTTATATA
1 GGTTTTTAGGTTCAAGTTTCAAATTGGCAAGCTTAAAATAATCATTTTCTCGTAATTTTTATATA
**
19339123 TTTGGAATCCTGGTACCTTAATCTAA
66 TTTGGAATCCCAGTACCTTAATCTAA
* *
19339149 GGTTTTTAGGTTCAAGTTTCAAATTGGCAAGCTTAAAATAGTTATTTTCTCGTAATTTTTATATA
1 GGTTTTTAGGTTCAAGTTTCAAATTGGCAAGCTTAAAATAATCATTTTCTCGTAATTTTTATATA
* *
19339214 TTTGGTATCCCAGTACTTTAATCTA
66 TTTGGAATCCCAGTACCTTAATCTA
19339239 GCTAACTCGA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 81 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (91 bp):
GGTTTTTAGGTTCAAGTTTCAAATTGGCAAGCTTAAAATAATCATTTTCTCGTAATTTTTATATA
TTTGGAATCCCAGTACCTTAATCTAA
Found at i:19340346 original size:24 final size:24
Alignment explanation
Indices: 19340313--19340483 Score: 173
Period size: 24 Copynumber: 7.1 Consensus size: 24
19340303 AATGTTTCTT
* * *
19340313 GTATTCATGCTAACGACCGTAAAC
1 GTATTCATGCTGACGAGCATAAAC
* * *
19340337 ATATTCATGCCGACGAGCGTAAAC
1 GTATTCATGCTGACGAGCATAAAC
* * *
19340361 ATATTCATTCTGGCGAGCATAAAC
1 GTATTCATGCTGACGAGCATAAAC
* *
19340385 GTATTCATGCTGACGACCACAAAC
1 GTATTCATGCTGACGAGCATAAAC
*
19340409 GTATTCATGCTGGCGAGCATAAAC
1 GTATTCATGCTGACGAGCATAAAC
* **
19340433 GTATTCATGCT-AGCAAGCGCAAAC
1 GTATTCATGCTGA-CGAGCATAAAC
**
19340457 GTATTCATGCTGACGAGTGTAAAC
1 GTATTCATGCTGACGAGCATAAAC
19340481 GTA
1 GTA
19340484 ATGAACTTGC
Statistics
Matches: 122, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
24 121 0.99
25 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (24 bp):
GTATTCATGCTGACGAGCATAAAC
Found at i:19340443 original size:48 final size:48
Alignment explanation
Indices: 19340313--19340483 Score: 191
Period size: 48 Copynumber: 3.6 Consensus size: 48
19340303 AATGTTTCTT
* * * * * *
19340313 GTATTCATGCTAACGACCGTAAACATATTCATGCCGACGAGCGTAAAC
1 GTATTCATGCTGACGAGCATAAACGTATTCATGCTGACGAGCGCAAAC
* * * * *
19340361 ATATTCATTCTGGCGAGCATAAACGTATTCATGCTGACGACCACAAAC
1 GTATTCATGCTGACGAGCATAAACGTATTCATGCTGACGAGCGCAAAC
* *
19340409 GTATTCATGCTGGCGAGCATAAACGTATTCATGCT-AGCAAGCGCAAAC
1 GTATTCATGCTGACGAGCATAAACGTATTCATGCTGA-CGAGCGCAAAC
**
19340457 GTATTCATGCTGACGAGTGTAAACGTA
1 GTATTCATGCTGACGAGCATAAACGTA
19340484 ATGAACTTGC
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 102 0.99
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (48 bp):
GTATTCATGCTGACGAGCATAAACGTATTCATGCTGACGAGCGCAAAC
Found at i:19340481 original size:72 final size:72
Alignment explanation
Indices: 19340313--19340483 Score: 207
Period size: 72 Copynumber: 2.4 Consensus size: 72
19340303 AATGTTTCTT
* * * * * *
19340313 GTATTCATGCTAACGACCGTAAACATATTCATGCCGACGAGCGTAAACATATTCATTCTGGCGAG
1 GTATTCATGCTGACGACCGTAAACGTATTCATGCCGACGAGCATAAACATATTCATGCTAGCAAG
*
19340378 CATAAAC
66 CACAAAC
** * * *
19340385 GTATTCATGCTGACGACCACAAACGTATTCATGCTGGCGAGCATAAACGTATTCATGCTAGCAAG
1 GTATTCATGCTGACGACCGTAAACGTATTCATGCCGACGAGCATAAACATATTCATGCTAGCAAG
*
19340450 CGCAAAC
66 CACAAAC
**
19340457 GTATTCATGCTGACGAGTGTAAACGTA
1 GTATTCATGCTGACGACCGTAAACGTA
19340484 ATGAACTTGC
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
72 82 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (72 bp):
GTATTCATGCTGACGACCGTAAACGTATTCATGCCGACGAGCATAAACATATTCATGCTAGCAAG
CACAAAC
Found at i:19354285 original size:14 final size:14
Alignment explanation
Indices: 19354241--19354278 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
19354231 TTTAGTTTTT
19354241 ATATA-ATATATAA
1 ATATACATATATAA
* *
19354254 ATATACATACATAC
1 ATATACATATATAA
19354268 ATATACATATA
1 ATATACATATA
19354279 CATATATTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (14 bp):
ATATACATATATAA
Found at i:19355186 original size:24 final size:24
Alignment explanation
Indices: 19355159--19355377 Score: 235
Period size: 24 Copynumber: 9.1 Consensus size: 24
19355149 AATGTTTCTT
* *
19355159 GTATTCATGTTGACGAGAGTAAAC
1 GTATTCATGCTGACGAGCGTAAAC
* *
19355183 GTATTAAT-CTTGACGAGAGTAAAC
1 GTATTCATGC-TGACGAGCGTAAAC
* * *
19355207 GTATTCAAGCTGATGGGCGTAAAC
1 GTATTCATGCTGACGAGCGTAAAC
*
19355231 GTATTCATGCTGGCGAGCGTAAAC
1 GTATTCATGCTGACGAGCGTAAAC
* * * *
19355255 GTATTCATGTTGACAAGTGTAAAT
1 GTATTCATGCTGACGAGCGTAAAC
19355279 GTATTCATGCT-AGCGAGCGTAAAC
1 GTATTCATGCTGA-CGAGCGTAAAC
*
19355303 GTATTCATTCTGACGAGCGTAAAC
1 GTATTCATGCTGACGAGCGTAAAC
* * *
19355327 ATATTCATGCTGGCGAGCGTAAAT
1 GTATTCATGCTGACGAGCGTAAAC
** *
19355351 GTATTCATGCTGGTGAGCATAAAC
1 GTATTCATGCTGACGAGCGTAAAC
19355375 GTA
1 GTA
19355378 ATGAACTTGT
Statistics
Matches: 162, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
23 1 0.01
24 159 0.98
25 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (24 bp):
GTATTCATGCTGACGAGCGTAAAC
Found at i:19365189 original size:30 final size:30
Alignment explanation
Indices: 19365092--19365711 Score: 438
Period size: 29 Copynumber: 21.2 Consensus size: 30
19365082 TTGGATGCCC
* * *
19365092 GAGGGT-AAAATGGTAATTTTTAGAGA-TTC
1 GAGGGTAAAAAT-GTAATTTTTGGAAAGTTT
* * * *
19365121 GAGAGT-AAAATGGTAATTTTTGGACA-CTC
1 GAGGGTAAAAAT-GTAATTTTTGGAAAGTTT
*
19365150 AAGGGTAAAAATGTAATTTTTGGAAAGTTT
1 GAGGGTAAAAATGTAATTTTTGGAAAGTTT
** *
19365180 GAGATTAAAAATGCAATTTTTGG-AAGTTT
1 GAGGGTAAAAATGTAATTTTTGGAAAGTTT
*
19365209 AAGGGT-AAAATGGTAATTTTTGGAAAGTTT
1 GAGGGTAAAAAT-GTAATTTTTGGAAAGTTT
* * ** * *
19365239 -AGGGTCAAAATGGAATTTTTATAAA-ATA
1 GAGGGTAAAAATGTAATTTTTGGAAAGTTT
*
19365267 G-GGGT-AAAATGGTAATTTTTAGAAA-TTT
1 GAGGGTAAAAAT-GTAATTTTTGGAAAGTTT
* *
19365295 G-GGGTCAAAAATGGAATTTTTGTAAA-TTT
1 GAGGGT-AAAAATGTAATTTTTGGAAAGTTT
*
19365324 GAGGGT-AAAATGGTAATTTTTGGAAAGTTC
1 GAGGGTAAAAAT-GTAATTTTTGGAAAGTTT
*
19365354 GAGGGTAAACATGTAATTTTT-GAAAGTTT
1 GAGGGTAAAAATGTAATTTTTGGAAAGTTT
** *
19365383 -AGGG-GCAAATGGTAATTTTTGGAAAGTTC
1 GAGGGTAAAAAT-GTAATTTTTGGAAAGTTT
* * *
19365412 GAGGGAAAAAATGTAATTTTTGTACA-TTT
1 GAGGGTAAAAATGTAATTTTTGGAAAGTTT
* *
19365441 GAGGGT-AAAATGGTAATCTTTAGAAAGTTT
1 GAGGGTAAAAAT-GTAATTTTTGGAAAGTTT
* *
19365471 G-GTGTCAAAAATAG-AATTTTTGTAAA-TTT
1 GAGGGT-AAAAAT-GTAATTTTTGGAAAGTTT
19365500 -AGGGGT-AAAATGGTAATTTTTGGAAAGTTT
1 GA-GGGTAAAAAT-GTAATTTTTGGAAAGTTT
* * *
19365530 AAGGGCAAAGATGTAATTTTTGG-AAGTTT
1 GAGGGTAAAAATGTAATTTTTGGAAAGTTT
* *
19365559 G-GTGGTAAAAATGGAGTTTTTGTG-AAGTTT
1 GAG-GGTAAAAATGTAATTTTTG-GAAAGTTT
**
19365589 GA-GGTCAAAAATGTAATTTTTTAAAAGTTT
1 GAGGGT-AAAAATGTAATTTTTGGAAAGTTT
* * * *
19365619 AAGTGTCAAAATGTAATTTTTGAAAAGTTT
1 GAGGGTAAAAATGTAATTTTTGGAAAGTTT
*
19365649 -AGGGGTTAAAATGTAATTTTTGGAAAGTTT
1 GA-GGGTAAAAATGTAATTTTTGGAAAGTTT
* * * *
19365679 -AGGGTTAAAATATGATTTTTGGATAGTTT
1 GAGGGTAAAAATGTAATTTTTGGAAAGTTT
19365708 -AGGG
1 GAGGG
19365712 ACTTTTTGGG
Statistics
Matches: 480, Mismatches: 77, Indels: 68
0.77 0.12 0.11
Matches are distributed among these distances:
27 8 0.02
28 58 0.12
29 206 0.43
30 187 0.39
31 21 0.04
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.37
Consensus pattern (30 bp):
GAGGGTAAAAATGTAATTTTTGGAAAGTTT
Found at i:19365201 original size:59 final size:59
Alignment explanation
Indices: 19365093--19365711 Score: 524
Period size: 59 Copynumber: 10.6 Consensus size: 59
19365083 TGGATGCCCG
* * * * * * * *
19365093 AGGGTAAAATGGTAATTTTTAGAGA-TTCGAGAGT-AAAATGGTAATTTTTGGACACTCA
1 AGGGTAAAATGGTAATTTTTGGAAAGTTTGAGGGTAAAAAT-GTAATTTTTGTAAATTTA
** * * *
19365151 AGGGTAAAAAT-GTAATTTTTGGAAAGTTTGAGATTAAAAATGCAATTTTTGGAAGTTTA
1 AGGGT-AAAATGGTAATTTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGTAAATTTA
* * * *
19365210 AGGGTAAAATGGTAATTTTTGGAAAGTTT-AGGGTCAAAATGGAATTTTTATAAA-ATA
1 AGGGTAAAATGGTAATTTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGTAAATTTA
* * * *
19365267 GGGGTAAAATGGTAATTTTTAGAAA-TTTG-GGGTCAAAAATGGAATTTTTGTAAATTTG
1 AGGGTAAAATGGTAATTTTTGGAAAGTTTGAGGGT-AAAAATGTAATTTTTGTAAATTTA
* *
19365325 AGGGTAAAATGGTAATTTTTGGAAAGTTCGAGGGTAAACATGTAATTTTTG-AAAGTTT-
1 AGGGTAAAATGGTAATTTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGTAAA-TTTA
** * * * *
19365383 AGGGGCAAATGGTAATTTTTGGAAAGTTCGAGGGAAAAAATGTAATTTTTGTACATTTG
1 AGGGTAAAATGGTAATTTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGTAAATTTA
* * *
19365442 AGGGTAAAATGGTAATCTTTAGAAAGTTTG-GTGTCAAAAATAG-AATTTTTGTAAATTTA
1 AGGGTAAAATGGTAATTTTTGGAAAGTTTGAGGGT-AAAAAT-GTAATTTTTGTAAATTTA
* * * * * *
19365501 GGGGTAAAATGGTAATTTTTGGAAAGTTTAAGGGCAAAGATGTAATTTTTGGAAGTTT-
1 AGGGTAAAATGGTAATTTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGTAAATTTA
* *
19365559 GGTGGTAAAAATGG-AGTTTTTGTG-AAGTTTGA-GGTCAAAAATGTAATTTTT-TAAAAGTTTA
1 AG-GGT-AAAATGGTAATTTTTG-GAAAGTTTGAGGGT-AAAAATGTAATTTTTGT-AAA-TTTA
* * * *
19365620 AGTGTCAAAAT-GTAATTTTTGAAAAGTTT-AGGGGTTAAAATGTAATTTTTGGAAAGTTT-
1 AGGGT-AAAATGGTAATTTTTGGAAAGTTTGA-GGGTAAAAATGTAATTTTTGTAAA-TTTA
* * *
19365679 AGGGTTAAAAT-ATGATTTTTGGATAGTTT-AGGG
1 AGGG-TAAAATGGTAATTTTTGGAAAGTTTGAGGG
19365712 ACTTTTTGGG
Statistics
Matches: 463, Mismatches: 69, Indels: 58
0.78 0.12 0.10
Matches are distributed among these distances:
56 7 0.02
57 43 0.09
58 127 0.27
59 217 0.47
60 65 0.14
61 4 0.01
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.37
Consensus pattern (59 bp):
AGGGTAAAATGGTAATTTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGTAAATTTA
Found at i:19365684 original size:29 final size:29
Alignment explanation
Indices: 19365126--19365711 Score: 384
Period size: 30 Copynumber: 20.0 Consensus size: 29
19365116 GATTCGAGAG
* * **
19365126 TAAAATGGTAATTTTTGGACACTCAAGGGT
1 TAAAAT-GTAATTTTTGGAAAGTTTAGGGT
* *
19365156 AAAAATGTAATTTTTGGAAAGTTT-GAGAT
1 TAAAATGTAATTTTTGGAAAGTTTAG-GGT
*
19365185 TAAAAATGCAATTTTTGG-AAGTTTAAGGG-
1 T-AAAATGTAATTTTTGGAAAGTTT-AGGGT
19365214 TAAAATGGTAATTTTTGGAAAGTTTAGGGT
1 TAAAAT-GTAATTTTTGGAAAGTTTAGGGT
* * ** * *
19365244 CAAAATGGAATTTTTATAAA--ATAGGGG
1 TAAAATGTAATTTTTGGAAAGTTTAGGGT
* *
19365271 TAAAATGGTAATTTTTAGAAA-TTTGGGGT
1 TAAAAT-GTAATTTTTGGAAAGTTTAGGGT
* * *
19365300 CAAAAATGGAATTTTTGTAAA-TTTGAGGG-
1 -TAAAATGTAATTTTTGGAAAGTTT-AGGGT
*
19365329 TAAAATGGTAATTTTTGGAAAGTTCGAGGG-
1 TAAAAT-GTAATTTTTGGAAAGTT-TAGGGT
19365359 TAAACATGTAATTTTT-GAAAGTTTAGGG-
1 TAAA-ATGTAATTTTTGGAAAGTTTAGGGT
** * *
19365387 GCAAATGGTAATTTTTGGAAAGTTCGAGGGA
1 TAAAAT-GTAATTTTTGGAAAGTT-TAGGGT
* * *
19365418 AAAAATGTAATTTTTGTACA-TTTGAGGG-
1 TAAAATGTAATTTTTGGAAAGTTT-AGGGT
* *
19365446 TAAAATGGTAATCTTTAGAAAGTTT-GGTGT
1 TAAAAT-GTAATTTTTGGAAAGTTTAGG-GT
* * *
19365476 CAAAAATAG-AATTTTTGTAAA-TTTAGGGG
1 -TAAAAT-GTAATTTTTGGAAAGTTTAGGGT
19365505 TAAAATGGTAATTTTTGGAAAGTTTAAGGG-
1 TAAAAT-GTAATTTTTGGAAAGTTT-AGGGT
* *
19365535 CAAAGATGTAATTTTTGG-AAGTTTGGTGGT
1 TAAA-ATGTAATTTTTGGAAAGTTTAG-GGT
* * *
19365565 AAAAATGGAGTTTTTGTG-AAGTTT-GAGGT
1 TAAAATGTAATTTTTG-GAAAGTTTAG-GGT
* ** *
19365594 CAAAAATGTAATTTTTTAAAAGTTTAAGTGT
1 -TAAAATGTAATTTTTGGAAAGTTT-AGGGT
* *
19365625 CAAAATGTAATTTTTGAAAAGTTTAGGGGT
1 TAAAATGTAATTTTTGGAAAGTTTA-GGGT
19365655 TAAAATGTAATTTTTGGAAAGTTTAGGGT
1 TAAAATGTAATTTTTGGAAAGTTTAGGGT
* * *
19365684 TAAAATATGATTTTTGGATAGTTTAGGG
1 TAAAATGTAATTTTTGGAAAGTTTAGGG
19365712 ACTTTTTGGG
Statistics
Matches: 445, Mismatches: 73, Indels: 77
0.75 0.12 0.13
Matches are distributed among these distances:
27 12 0.03
28 52 0.12
29 176 0.40
30 183 0.41
31 21 0.05
32 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (29 bp):
TAAAATGTAATTTTTGGAAAGTTTAGGGT
Found at i:19366807 original size:3 final size:3
Alignment explanation
Indices: 19366782--19366831 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
19366772 CCTTTTTTAT
* * *
19366782 TTA TTAA TTA TTG TTA ATA TTA TTA TTA TTA TTG TTA TTTA TTA TTA
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
19366829 TTA
1 TTA
19366832 AAACGTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 33 0.85
4 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:19366831 original size:19 final size:19
Alignment explanation
Indices: 19366778--19366831 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
19366768 TCTTCCTTTT
19366778 TTATTTATTA--ATTATTG
1 TTATTTATTATTATTATTG
19366795 TTAATATTATTATTATTATTG
1 TT-AT-TTATTATTATTATTG
19366816 TTATTTATTATTATTA
1 TTATTTATTATTATTA
19366832 AAACGTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 2 0.06
18 2 0.06
19 18 0.55
20 2 0.06
21 9 0.27
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (19 bp):
TTATTTATTATTATTATTG
Found at i:19367518 original size:6 final size:6
Alignment explanation
Indices: 19367509--19367589 Score: 80
Period size: 6 Copynumber: 13.8 Consensus size: 6
19367499 TAGATTACTG
* *
19367509 TTAAAT TTAAAAT ATAAAT TTAAAC TTAAA- TTAAAT TTAAAT TTAAAT
1 TTAAAT TT-AAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
19367557 TTAAA- ATAAAT TT-AAT CTTAAA- ATAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAA
19367590 AAAGGATTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
5 16 0.26
6 39 0.63
7 7 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:19367545 original size:17 final size:17
Alignment explanation
Indices: 19367490--19367589 Score: 80
Period size: 17 Copynumber: 5.8 Consensus size: 17
19367480 GCTTTTAATT
*
19367490 ATTTAAATTTAGATT-A
1 ATTTAAATTTAAATTAA
*
19367506 CTGTTAAATTTAAAATATAA
1 AT-TTAAATTT-AAAT-TAA
*
19367526 ATTTAAACTTAAATTAA
1 ATTTAAATTTAAATTAA
19367543 ATTTAAATTTAAATTTAA
1 ATTTAAATTTAAA-TTAA
* *
19367561 A-ATAAATTTAATCTTAA
1 ATTTAAATTTAA-ATTAA
*
19367578 A-ATAAATTTAAA
1 ATTTAAATTTAAA
19367590 AAAGGATTTA
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
16 1 0.01
17 47 0.67
18 12 0.17
19 8 0.11
20 2 0.03
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTAAATTAA
Found at i:19367549 original size:23 final size:23
Alignment explanation
Indices: 19367509--19367571 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
19367499 TAGATTACTG
*
19367509 TTAAATTTAAAATATAAATTTAAAC
1 TTAAA-TT-AAATTTAAATTTAAAC
*
19367534 TTAAATTAAATTTAAATTTAAAT
1 TTAAATTAAATTTAAATTTAAAC
*
19367557 TTAAAATAAATTTAA
1 TTAAATTAAATTTAA
19367572 TCTTAAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
23 28 0.80
24 2 0.06
25 5 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TTAAATTAAATTTAAATTTAAAC
Found at i:19368624 original size:209 final size:207
Alignment explanation
Indices: 19367913--19369183 Score: 1359
Period size: 209 Copynumber: 6.2 Consensus size: 207
19367903 TTTGAGTCTG
* * *
19367913 GTTTCATTGATTTGGTCTACTTCTCAG----T-ATCAGGAAGATGACAGCATCAGTTGTTTTGAT
1 GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCGAT
* * * * *
19367973 CTACTTCTCTGTTCTCATTAGGAAGATGGATCTGTTTCACTTCTCTGTATCTCATCAGGAAGGTA
66 C-CCTTCTCTGTTCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTA
* *
19368038 ACCGCTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCT
130 ACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCGCT
* *
19368103 TACTTTGAGCTTT
195 CACATTGAGCTTT
* * *
19368116 GTTTCATTGATTTGGTCTACTTCTTAGTA--TCA--A-GAAAATGACCGCATCACTTGTTTTGAT
1 GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCGAT
* * * * *
19368176 CTACGTCTCTGTGTCTCATTAGGAAGACGAATCTAGTTTACTTCTCTGTATCTCATCAGGAAGGT
66 C-CCTTCTCTGT-TCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGT
* * * *
19368241 AACCGCTTTATTGCTTCTACCTGCTTGTCAGTATCTCATCAGAAAGAT-GAGGTTCGAAGATTT-
129 AACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAG-GGTTCGAAG-TTTC
*
19368304 GCTCACTTTGAGC---
192 GCTCACATTGAGCTTT
* * * * * *
19368317 ----C-TTGAGTCGGTATACTTCCCTA-TATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAA
1 GTTTCATTGATTTGGTCTACTTCTC-AGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCGA
* * * * *
19368376 TCCACTTCTCTATATCTCATCAGGAAGATGAATTTGGTCCACTT-TTTAGTATCTCATCAGGAAG
65 TCC-CTTCTCTGT-TCTCATCAGGAAGACGAATCTGGTTCACTTCTCT-GTATCTCATCAGGAAG
* * * *
19368440 CTAACTGTTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGAGTTCGAAGTTTC
127 GTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTC
*
19368505 GCTCACTTTGAGCTTT
192 GCTCACATTGAGCTTT
*
19368521 GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT
1 GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCGA-
* * * * *
19368586 TCCCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGTT
65 TCCCTTCTCTGT-TCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGT
** * **
19368651 AACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAAATTCGC
129 AACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCGC
* * *
19368716 TCACATCGAGCCTG
194 TCACATTGAGCTTT
* ** *
19368730 GTTTCATTGATTTAGTCTACTTCTCAGTATCAAATCAGGAAGAAGACCGCATCAC-----T---T
1 GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCGAT
* * * * *
19368787 --C-TCTATG-TCACATCAGGAAGACGGATCTAGTTGACTTCTCTGTATCTCATCAGGAAGGTAA
66 CCCTTCTCTGTTCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAA
* * * * * *
19368848 CTGCTTTATTGCTTCAACCTACTTCTCAGTATCTCATCAAGAAGCAAGGGTTCGAAGTTTCGCTT
131 CCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCGCTC
*
19368913 ACATTGAGCTTG
196 ACATTGAGCTTT
* * * *
19368925 GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGGCCGCATCATTTGTTTTGAT
1 GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCGAT
* * * *** *
19368990 CCTCTTCTCTGTGTCTCATCAAGAAGATGGATCTGGTTCACTTCTCTACGTCTCGTCAGGAAGGT
66 CC-CTTCTCTGT-TCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGT
* ** *
19369055 GACCATTTTATTGCTTCTACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCGC
129 AACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCGC
19369120 TCACATTGAGCTTT
194 TCACATTGAGCTTT
* ** * * *
19369134 GGTTCATCAAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGC
1 GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGC
19369184 CTCGTTATTT
Statistics
Matches: 901, Mismatches: 126, Indels: 76
0.82 0.11 0.07
Matches are distributed among these distances:
195 159 0.18
196 16 0.02
197 7 0.01
198 4 0.00
200 8 0.01
201 135 0.15
202 1 0.00
203 63 0.07
204 112 0.12
205 4 0.00
206 2 0.00
207 5 0.01
208 2 0.00
209 379 0.42
210 4 0.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (207 bp):
GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCGAT
CCCTTCTCTGTTCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAA
CCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTCGCTC
ACATTGAGCTTT
Found at i:19368923 original size:404 final size:400
Alignment explanation
Indices: 19367975--19369183 Score: 1417
Period size: 404 Copynumber: 3.0 Consensus size: 400
19367965 GTTTTGATCT
* *
19367975 ACTTCTCTGTTCTCATTAGGAAGATGGATCTGTTTCACTTCTCTGTATCTCATCAGGAAGGTAAC
1 ACTTCTCTATTCTCATCAGGAAGATGGATCTG-TTCACTTCTCTGTATCTCATCAGGAAGGTAAC
* *
19368040 CGCTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTTA
65 TGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTTA
* *
19368105 CTTTGAGCTTTGTTTCATTGATTTGGTCTACTTCTTAGTA--TCA--AGAAAATGACCGCATCAC
130 CTTTGAGCTTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGAAGATGACCGCATCAC
* * * * *
19368166 TTGTTTTGATCTACGTCTCTGTGTCTCATTAGGAAGACGAATCTAGTTTACTTCTCTGTATCTCA
195 TTGTTTTGATC-CCTTCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTC-GTATCTCA
** * * *
19368231 TCAGGAAGGTAACCGCTTTATTGCTTCTACCTGCTTGTCAGTATCTCATCAGAAAGAT-GAGGTT
258 TCAGGAAGGTAACCATTTTATTGCTTCTACCTGCTTCTCAGTATCTCATCAGGAAGCTAG-GGTT
* * * *
19368295 CGAAGATTTGCTCACTTTGAG-C-----C-TTGAGTCGGTATACTTCCCTA-TATCTCATCAGGA
322 CGAAGATTCGCTCACATTGAGCCTGGTTCATTGAGTTGGTATACTTCTC-AGTATCTCATCAGGA
*
19368352 AGATGACCGCCTCACTTGTTTCAATCC
386 AGA--A--G----AC-CG---CAATCC
* * * * *
19368379 ACTTCTCTATATCTCATCAGGAAGATGAATTTGGTCCACTT-TTTAGTATCTCATCAGGAAGCTA
1 ACTTCTCTAT-TCTCATCAGGAAGATGGATCT-GTTCACTTCTCT-GTATCTCATCAGGAAGGTA
* * *
19368443 ACTGTTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGAGTTCGAAGTTTCGCT
63 ACTGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCT
*
19368508 CACTTTGAGCTTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCAT
128 TACTTTGAGCTTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCA-GAAGATGACCGCAT
** * * *
19368573 CACTTGTTTCAATTCCCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATC
192 CACTTGTTTTGA-TCCCTTCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTC-GTATC
* * * *
19368638 TCATCAAGAAGTTAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTAGGG
255 TCATCAGGAAGGTAACCATTTTATTGCTTCTACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGG
* * * * * **
19368703 TTCGAAAATTCGCTCACATCGAGCCTGGTTTCATTGATTTAGTCTACTTCTCAGTATCAAATCAG
320 TTCGAAGATTCGCTCACATTGAGCCTGG-TTCATTGAGTTGGTATACTTCTCAGTATCTCATCAG
19368768 GAAGAAGACCGC-AT-C
384 GAAGAAGACCGCAATCC
* * *
19368783 ACTTCTCTATGTCACATCAGGAAGACGGATCTAGTTGACTTCTCTGTATCTCATCAGGAAGGTAA
1 ACTTCTCTAT-TCTCATCAGGAAGATGGATCT-GTTCACTTCTCTGTATCTCATCAGGAAGGTAA
* * *
19368848 CTGCTTTATTGCTTCAACCTACTTCTCAGTATCTCATCAAGAAGCAAGGGTTCGAAGTTTCGCTT
64 CTGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTT
* * *
19368913 ACATTGAGCTTGGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAAGAAGATGGCCGCATC
129 ACTTTGAGCTTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATC-AGAAGATGACCGCATC
* * * *
19368978 ATTTGTTTTGATCCTCTTCTCTGTGTCTCATCAAGAAGATGGATCTGGTTCACTTCTC-TACGTC
193 ACTTGTTTTGATCC-CTTCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCGTA--TC
* *
19369042 TCGTCAGGAAGGTGACCATTTTATTGCTTCTACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGG
255 TCATCAGGAAGGTAACCATTTTATTGCTTCTACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGG
* * ** *
19369107 TTCGAAGTTTCGCTCACATTGAGCTTTGGTTCATCAAGTTGGTATACTTCTCTGTATCTCATCAG
320 TTCGAAGATTCGCTCACATTGAGC-CTGGTTCATTGAGTTGGTATACTTCTCAGTATCTCATCAG
*
19369172 GAAGATGACCGC
384 GAAGAAGACCGC
19369184 CTCGTTATTT
Statistics
Matches: 685, Mismatches: 95, Indels: 50
0.83 0.11 0.06
Matches are distributed among these distances:
402 2 0.00
403 3 0.00
404 348 0.51
405 150 0.22
406 2 0.00
407 3 0.00
409 2 0.00
410 139 0.20
411 4 0.01
414 1 0.00
416 1 0.00
417 2 0.00
418 28 0.04
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (400 bp):
ACTTCTCTATTCTCATCAGGAAGATGGATCTGTTCACTTCTCTGTATCTCATCAGGAAGGTAACT
GCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTTAC
TTTGAGCTTTGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGAAGATGACCGCATCACT
TGTTTTGATCCCTTCTCTGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCGTATCTCATCA
GGAAGGTAACCATTTTATTGCTTCTACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAA
GATTCGCTCACATTGAGCCTGGTTCATTGAGTTGGTATACTTCTCAGTATCTCATCAGGAAGAAG
ACCGCAATCC
Found at i:19369090 original size:613 final size:609
Alignment explanation
Indices: 19367913--19369183 Score: 1514
Period size: 613 Copynumber: 2.1 Consensus size: 609
19367903 TTTGAGTCTG
* * **
19367913 GTTTCATTGATTTGGTCTACTTCTCAG----T-ATCAGGAAGATGACAGCATCAGTTGTTTTGAT
1 GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT
* * * * * * *
19367973 CTACTTCTCTGTTCTCATTAGGAAGATGGATCTGTTTCACTTCTCTGTATCTCATCAGGAAGGTA
66 CTACTTCTCTGTTCTCATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCTCATCAAGAAGGTA
* * **
19368038 ACCGCTTTATTACTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCT
131 ACCACTTTATTACTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAAATTCGCT
* * * * * * * * * * *
19368103 TACTTTGAGCTTTGTTTCATTGATTTGGTCTACTTCTTAGTATCAAGAAAATGACCGCATCACTT
196 CACATCGAGCCTGGTTTCATTGATTTAGTCTACTTCTCAGTATCAAGAAAAGGACAGCAACACTC
* * * * *
19368168 GTTTTGATCTACGTCTCTGTGTCTCATTAGGAAGACGAATCTAGTTTACTTCTCTGTATCTCATC
261 G---TCATCTACGTCTCTATGTCACATCAGGAAGACGAATCTAGTTGACTTCTCTGTATCTCATC
* * * *
19368233 AGGAAGGTAACCGCTTTATTGCTTCTACCTGCTTGTCAGTATCTCATCAGAAAGATGAGGTTCGA
323 AGGAAGGTAACCGCTTTATTGCTTCAACCTACTTCTCAGTATCTCATCAGAAAGAAGAGGTTCGA
* * *
19368298 AGATTTGCTCACTTTGAGCCTTGAGTCGGTATACTTCCCTATATCTCATCAGGAAGATGACCGCC
388 AGATTTGCTCACATTGAGCCTTGAGTCGGTATACTTCCCTATATCTCATCAAGAAGATGACCGCA
* * *
19368363 TCACTTGTTTCAATCCACTTCTCTATATCTCATCAGGAAGATGAATTTGGTCCACTTTTTAGTAT
453 TCACTTGTTTCAATCCACTTCTCTATATCTCATCAAGAAGATGAATCTGGTCCACTTTCTAG-AT
**
19368428 CTCATCAGGAAGCTAACTGTTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGA
517 CTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGA
*
19368493 GTTCGAAGTTTCGCTCACTTTGAGCTTT
582 GTTCGAAGTTTCGCTCACATTGAGCTTT
19368521 GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT
1 GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT
* * *
19368586 -TCCCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATCTCATCAAGAAGT
66 CT-ACTTCTCTGT-TCTCATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCTCATCAAGAAGG
* * *
19368650 TAACCATTTTATTGCTTCGACCTACTTCTCAGTATCTCATCAGGAAGCTAGGGTTCGAAAATTCG
129 TAACCACTTTATTACTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAAATTCG
** *
19368715 CTCACATCGAGCCTGGTTTCATTGATTTAGTCTACTTCTCAGTATCAA-ATCAGGA-AG-AAGAC
194 CTCACATCGAGCCTGGTTTCATTGATTTAGTCTACTTCTCAGTATCAAGAAAAGGACAGCAACAC
* *
19368777 -CG-CATC-ACTTCTCTATGTCACATCAGGAAGACGGATCTAGTTGACTTCTCTGTATCTCATCA
259 TCGTCATCTACGTCTCTATGTCACATCAGGAAGACGAATCTAGTTGACTTCTCTGTATCTCATCA
*
19368839 GGAAGGTAACTGCTTTATTGCTTCAACCTACTTCTCAGTATCTCATCA-AGAAGCAAG-GGTTCG
324 GGAAGGTAACCGCTTTATTGCTTCAACCTACTTCTCAGTATCTCATCAGA-AAG-AAGAGGTTCG
* * * * *
19368902 AAG-TTTCGCTTACATTGAGCTTGGTTTCATTGATTTGGTCTACTTCTC-AGTATCTCATCAAGA
387 AAGATTT-GCTCACATTGAGC-------C-TTGAGTCGGTATACTTCCCTA-TATCTCATCAAGA
* * ** * * * * *
19368965 AGATGGCCGCATCATTTGTTTTGATCCTCTTCTCTGTGTCTCATCAAGAAGATGGATCTGGTTCA
442 AGATGACCGCATCACTTGTTTCAATCCACTTCTCTATATCTCATCAAGAAGATGAATCTGGTCCA
* * * *
19369030 CTTCTCTACG-TCTCGTCAGGAAGGTGACCATTTTATTGCTTCTACCTGCTTCTCAGTATCTCAT
507 CTT-TCTA-GATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCAT
*
19369094 CAGGAAGCTAGGGTTCGAAGTTTCGCTCACATTGAGCTTT
570 CAGGAAGCTAGAGTTCGAAGTTTCGCTCACATTGAGCTTT
* ** * * *
19369134 GGTTCATCAAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGC
1 GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGC
19369184 CTCGTTATTT
Statistics
Matches: 561, Mismatches: 81, Indels: 37
0.83 0.12 0.05
Matches are distributed among these distances:
604 4 0.01
605 117 0.21
606 5 0.01
608 27 0.05
610 1 0.00
611 3 0.01
612 5 0.01
613 254 0.45
614 144 0.26
615 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (609 bp):
GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAAT
CTACTTCTCTGTTCTCATCAGGAAGACGAATCTGGTCCACTTCTCAGTATCTCATCAAGAAGGTA
ACCACTTTATTACTTCGACCTACTTCTCAGTATCTCATCAAGAAGCTAGGGTTCGAAAATTCGCT
CACATCGAGCCTGGTTTCATTGATTTAGTCTACTTCTCAGTATCAAGAAAAGGACAGCAACACTC
GTCATCTACGTCTCTATGTCACATCAGGAAGACGAATCTAGTTGACTTCTCTGTATCTCATCAGG
AAGGTAACCGCTTTATTGCTTCAACCTACTTCTCAGTATCTCATCAGAAAGAAGAGGTTCGAAGA
TTTGCTCACATTGAGCCTTGAGTCGGTATACTTCCCTATATCTCATCAAGAAGATGACCGCATCA
CTTGTTTCAATCCACTTCTCTATATCTCATCAAGAAGATGAATCTGGTCCACTTTCTAGATCTCA
TCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGAGTTC
GAAGTTTCGCTCACATTGAGCTTT
Found at i:19378202 original size:29 final size:28
Alignment explanation
Indices: 19378170--19378350 Score: 139
Period size: 29 Copynumber: 6.2 Consensus size: 28
19378160 TAAAAGTATG
* *
19378170 ATTTTTGGATGCCCGAGGGTAAAATGGTA
1 ATTTTTGGATACTCGAGGGTAAAAT-GTA
*
19378199 ATTTTTGGATATTCGAGGGTAAAATGGTA
1 ATTTTTGGATACTCGAGGGTAAAAT-GTA
** *
19378228 ATTTTCAGATACTCGAGGGAAAAAATGTA
1 ATTTTTGGATACTCGAGGG-TAAAATGTA
* * *
19378257 ATTTTTTGACATTCGAGGGTAAGAATGTA
1 ATTTTTGGATACTCGAGGGTAA-AATGTA
* * *
19378286 ATTTTTGGAAAGTTC-AGGGTTAAAAAATGCA
1 ATTTTTGGATA-CTCGAGGG-T--AAAATGTA
* **
19378317 ATCTTTGGATGTTCGAGGGTAAAATGGTA
1 ATTTTTGGATACTCGAGGGTAAAAT-GTA
19378346 ATTTT
1 ATTTT
19378351 GGAAAGTTTA
Statistics
Matches: 124, Mismatches: 20, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
28 7 0.06
29 85 0.69
30 13 0.10
31 17 0.14
32 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (28 bp):
ATTTTTGGATACTCGAGGGTAAAATGTA
Found at i:19378324 original size:31 final size:30
Alignment explanation
Indices: 19378247--19378379 Score: 93
Period size: 29 Copynumber: 4.5 Consensus size: 30
19378237 TACTCGAGGG
* *
19378247 AAAAAATGTAATTTTTTGACA-TTCGAGGG-T
1 AAAAAATGTAA-TTTTGGAAAGTTC-AGGGTT
*
19378277 -AAGAATGTAATTTTTGGAAAGTTCAGGGTT
1 AAAAAATGTAA-TTTTGGAAAGTTCAGGGTT
* *
19378307 AAAAAATGCAATCTTTGG-ATGTTCGAGGG-T
1 AAAAAATGTAAT-TTTGGAAAGTTC-AGGGTT
*
19378337 --AAAATGGTAATTTTGGAAAGTTTAGGGTT
1 AAAAAAT-GTAATTTTGGAAAGTTCAGGGTT
*
19378366 -AAAAATGGAATTTT
1 AAAAAATGTAATTTT
19378380 TTTAAATAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
28 14 0.17
29 37 0.44
30 16 0.19
31 17 0.20
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (30 bp):
AAAAAATGTAATTTTGGAAAGTTCAGGGTT
Found at i:19378364 original size:59 final size:60
Alignment explanation
Indices: 19378190--19378830 Score: 504
Period size: 58 Copynumber: 10.9 Consensus size: 60
19378180 GCCCGAGGGT
* * ** * * **
19378190 AAAATGGTAATTTTTGGATATTCGAGGGTAAAATGGTAATTTTCAGATACTCGAGGG--AA
1 AAAAT-GTAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTTAA
* * * *
19378249 AAAATGTAATTTTTTGACATTCGAGGGTAAGAAT-GTAATTTTTGGAAAGTTCAGGGTTAA
1 AAAATGTAATTTTTGGAAATTTGAGGGTAA-AATGGTAATTTTTGGAAAGTTTAGGGTTAA
* * ** *
19378309 AAAATGCAATCTTTGGATGTTCGAGGGTAAAATGGTAA-TTTTGGAAAGTTTAGGGTT-A
1 AAAATGTAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTTAA
* ** ** * * * *
19378367 AAAATGGAATTTTTTTAAA-TAAAGGGGTAAAATGGTAACTTTTGGAAAGTTTATGATCAA
1 AAAATGTAATTTTTGGAAATTTGA-GGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTTAA
* * ***
19378427 AAATTG-AATTTTTGTAAATTTGAGGGTAAAATGGTAATTTTTGG-AAGTTT-GGGGGCA
1 AAAATGTAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTTAA
* * ** *
19378484 AAAATGTAATTTTT-AAAAGTAAAGGGTAAAATGGTAATTTTTGTG-AAGTTT-GAGG-TCA
1 AAAATGTAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTG-GAAAGTTTAG-GGTTAA
* * * * **
19378542 AAAATGGATTTTTTGTAAATTT-AGGGGTAAAATGGT-ATTTTTAGAAAGTTTAGGG--GC
1 AAAATGTAATTTTTGGAAATTTGA-GGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTTAA
* * * *
19378599 AAAATGTAATTTTTGGAAGTTT-AGAGGTAAAATTGTAATTTTTAGAAAGTTTGGGGTT--
1 AAAATGTAATTTTTGGAAATTTGAG-GGTAAAATGGTAATTTTTGGAAAGTTTAGGGTTAA
* * * * * * *
19378657 AAAATGGATTTTTTGTAAATTTAAGGGTAAAATGGAAATTTTTGGCAAGTTTAGGG-GAA
1 AAAATGTAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTTAA
* * *
19378716 AAGATGTAATTTTTGGAAGTTTGAGGGTAAAATGG-AATTTTTATG-AAGTTTAGGGTT-A
1 AAAATGTAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTT-GGAAAGTTTAGGGTTAA
*
19378774 AAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAAT-GTAATTTTTGGAAAGTTTAGGG
1 AAAATGTAATTTTTGGAAA-TTTGAGGG-TAAAATGGTAATTTTTGGAAAGTTTAGGG
19378831 ATCAAAATAT
Statistics
Matches: 477, Mismatches: 77, Indels: 55
0.78 0.13 0.09
Matches are distributed among these distances:
56 1 0.00
57 64 0.13
58 214 0.45
59 136 0.29
60 62 0.13
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (60 bp):
AAAATGTAATTTTTGGAAATTTGAGGGTAAAATGGTAATTTTTGGAAAGTTTAGGGTTAA
Found at i:19378378 original size:29 final size:28
Alignment explanation
Indices: 19378272--19378830 Score: 361
Period size: 29 Copynumber: 19.1 Consensus size: 28
19378262 TTGACATTCG
* *
19378272 AGGGTAAGAATGTAATTTTTGGAAAGTTC
1 AGGGTAA-AATGGAATTTTTGGAAAGTTT
* * * *
19378301 AGGGTTAAAAAATGCAATCTTTGG-ATGTTCG
1 AGGG-T--AAAATGGAATTTTTGGAAAGTT-T
19378332 AGGGTAAAATGGTAA-TTTTGGAAAGTTT
1 AGGGTAAAATGG-AATTTTTGGAAAGTTT
** **
19378360 AGGGTTAAAAATGGAATTTTTTTAAA-TAA
1 AGGG-T-AAAATGGAATTTTTGGAAAGTTT
*
19378389 AGGGGTAAAATGGTAACTTTTGGAAAGTTT
1 A-GGGTAAAATGG-AATTTTTGGAAAGTTT
* * * *
19378419 ATGATCAAAAATTGAATTTTTGTAAA-TTT
1 AGGGT--AAAATGGAATTTTTGGAAAGTTT
19378448 GAGGGTAAAATGGTAATTTTTGG-AAGTTT
1 -AGGGTAAAATGG-AATTTTTGGAAAGTTT
* * * * **
19378477 GGGGGCAAAAATGTAATTTTT-AAAAGTAA
1 -AGGG-TAAAATGGAATTTTTGGAAAGTTT
19378506 AGGGTAAAATGGTAATTTTTGTG-AAGTTT
1 AGGGTAAAATGG-AATTTTTG-GAAAGTTT
* *
19378535 -GAGGTCAAAAATGGATTTTTTGTAAA-TTT
1 AG-GGT--AAAATGGAATTTTTGGAAAGTTT
* *
19378564 AGGGGTAAAATGGTATTTTTAGAAAGTTT
1 A-GGGTAAAATGGAATTTTTGGAAAGTTT
* *
19378593 AGGGGCAAAATGTAATTTTTGG-AAGTTT
1 A-GGGTAAAATGGAATTTTTGGAAAGTTT
* *
19378621 AGAGGTAAAATTGTAATTTTTAGAAAGTTT
1 AG-GGTAAAA-TGGAATTTTTGGAAAGTTT
* * *
19378651 GGGGTTAAAATGGATTTTTTGTAAA-TTT
1 AGGG-TAAAATGGAATTTTTGGAAAGTTT
*
19378679 AAGGGTAAAATGGAAATTTTTGGCAAGTTT
1 -AGGGTAAAATGG-AATTTTTGGAAAGTTT
* *
19378709 AGGGGAAAAGATGTAATTTTTGG-AAGTTT
1 A-GGGTAAA-ATGGAATTTTTGGAAAGTTT
*
19378738 GAGGGTAAAATGGAATTTTTATG-AAGTTT
1 -AGGGTAAAATGGAATTTTT-GGAAAGTTT
*
19378767 AGGGTTAAAAATGTAATTTTTGGAAAGTTT
1 AGGG-T-AAAATGGAATTTTTGGAAAGTTT
*
19378797 AAGGGTTAAAATGTAATTTTTGGAAAGTTT
1 -AGGG-TAAAATGGAATTTTTGGAAAGTTT
19378827 AGGG
1 AGGG
19378831 ATCAAAATAT
Statistics
Matches: 420, Mismatches: 66, Indels: 88
0.73 0.11 0.15
Matches are distributed among these distances:
27 7 0.02
28 94 0.22
29 149 0.35
30 129 0.31
31 39 0.09
32 2 0.00
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (28 bp):
AGGGTAAAATGGAATTTTTGGAAAGTTT
Found at i:19378536 original size:87 final size:84
Alignment explanation
Indices: 19378185--19378826 Score: 376
Period size: 87 Copynumber: 7.3 Consensus size: 84
19378175 TGGATGCCCG
* * * * * ** *
19378185 AGGGTAAAATGGTAATTTTTGGATA-TTCGAGGGTAAAATGGTAATTTTCAGATACTCGAGGGAA
1 AGGGTAAAATGGTAATTTTTGGA-AGTTTGGGGGTAAAATGG-AATTTTTAGAAAGTTAAGGG-T
* *
19378249 AAAATGTAATTTTTTGACA-TTCG
63 AAAATGTAATTTTTGGA-AGTT-T
** * * * * * *
19378272 AGGGTAAGAAT-GTAATTTTTGGAAAGTTCAGGGTTAAAAAATGCAATCTTT-GGATGTTCGAGG
1 AGGGTAA-AATGGTAATTTTTGG-AAGTTTGGGGGT--AAAATGGAATTTTTAGAAAGTT-AAGG
19378335 GTAAAATGGTAA-TTTTGGAAAGTTT
61 GTAAAAT-GTAATTTTTGG-AAGTTT
** * *** * * * * *
19378360 AGGGTTAAAAATGG-AATTTTTTTAAATAAAGGGGTAAAATGGTAACTTTTGGAAAGTTTATGAT
1 AGGG-T-AAAATGGTAATTTTTGGAAGTTTGGGGGTAAAATGG-AATTTTTAGAAAGTTAAGGGT
* *
19378424 CAAAAAT-TGAATTTTTGTAAATTT
63 --AAAATGT-AATTTTTGGAAGTTT
* * *
19378448 GAGGGTAAAATGGTAATTTTTGGAAGTTTGGGGGCAAAAATGTAATTTTTA-AAAGTAAAGGGTA
1 -AGGGTAAAATGGTAATTTTTGGAAGTTTGGGGG-TAAAATGGAATTTTTAGAAAGTTAAGGGTA
19378512 AAATGGTAATTTTTGTGAAGTTT
64 AAAT-GTAATTTTTG-GAAGTTT
* * * * * *
19378535 -GAGGTCAAAAATGG-ATTTTTTGTAAATTTAGGGGTAAAATGGTATTTTTAGAAAGTTTAGGGG
1 AG-GGT--AAAATGGTAATTTTTGGAAGTTTGGGGGTAAAATGGAATTTTTAGAAAG-TTAAGGG
*
19378598 CAAAATGTAATTTTTGGAAGTTT
62 TAAAATGTAATTTTTGGAAGTTT
* * * * *
19378621 AGAGGTAAAATTGTAATTTTTAGAAAGTTTGGGGTTAAAATGG-ATTTTTTGTAAATTTAAGGGT
1 AG-GGTAAAATGGTAATTTTT-GGAAGTTTGGGGGTAAAATGGAATTTTTAG-AAAGTTAAGGGT
*
19378685 AAAATGGAAATTTTTGGCAAGTTT
63 AAAAT-GTAATTTTTGG-AAGTTT
* * *
19378709 AGGGGAAAA-GATGTAATTTTTGGAAGTTTGAGGGTAAAATGGAATTTTTATG-AAGTTTAGGGT
1 AGGGTAAAATG--GTAATTTTTGGAAGTTTGGGGGTAAAATGGAATTTTTA-GAAAGTTAAGGG-
19378772 TAAAAATGTAATTTTTGGAAAGTTT
62 T-AAAATGTAATTTTTGG-AAGTTT
19378797 AAGGGTTAAAAT-GTAATTTTTGGAAAGTTT
1 -AGGG-TAAAATGGTAATTTTTGG-AAGTTT
19378827 AGGGATCAAA
Statistics
Matches: 432, Mismatches: 78, Indels: 88
0.72 0.13 0.15
Matches are distributed among these distances:
85 12 0.03
86 61 0.14
87 146 0.34
88 136 0.31
89 64 0.15
90 13 0.03
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (84 bp):
AGGGTAAAATGGTAATTTTTGGAAGTTTGGGGGTAAAATGGAATTTTTAGAAAGTTAAGGGTAAA
ATGTAATTTTTGGAAGTTT
Found at i:19380654 original size:13 final size:13
Alignment explanation
Indices: 19380636--19380678 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 13
19380626 AGATTAATTT
19380636 TAAATTTAAAAAA
1 TAAATTTAAAAAA
19380649 TAAATTTAAACTTAAAA
1 TAAATTT-AA---AAAA
19380666 TAAATTTAAAAAA
1 TAAATTTAAAAAA
19380679 GGATTTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.42
14 2 0.08
16 2 0.08
17 11 0.42
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAATTTAAAAAA
Found at i:19381007 original size:2 final size:2
Alignment explanation
Indices: 19380997--19381033 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
19380987 TATTTTTTTA
19380997 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19381034 TATGACTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19383068 original size:24 final size:24
Alignment explanation
Indices: 19383040--19383098 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
19383030 TAGAGTAATA
* *
19383040 AGAGTTTGACTCCAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* * *
19383064 AGAGTTTAATTGAAACAAATAAAT
1 AGAGTTTAACTCAAACAAATAAAC
19383088 AGAGTTTAACT
1 AGAGTTTAACT
19383099 GAAAGATTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:19383101 original size:24 final size:24
Alignment explanation
Indices: 19383053--19383102 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
19383043 GTTTGACTCC
*
19383053 AACAAATAAACAGAGTTTAATTGA
1 AACAAATAAACAGAGTTTAACTGA
*
19383077 AACAAATAAATAGAGTTTAACTGA
1 AACAAATAAACAGAGTTTAACTGA
19383101 AA
1 AA
19383103 GATTATTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (24 bp):
AACAAATAAACAGAGTTTAACTGA
Found at i:19385078 original size:24 final size:24
Alignment explanation
Indices: 19385017--19385079 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
19385007 TAGAGTAATA
* * *
19385017 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTGAAACAAATAAAC
*
19385041 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
19385065 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
19385080 GATTATTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.51, C:0.10, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:19386775 original size:23 final size:23
Alignment explanation
Indices: 19386747--19386835 Score: 90
Period size: 23 Copynumber: 3.9 Consensus size: 23
19386737 TACATACTGT
*
19386747 AAATTGAGATGTTTAACTGTTGC
1 AAATTGAGATGTTTAAATGTTGC
* *
19386770 ATATTGAGGTGTTTAAATGTTGC
1 AAATTGAGATGTTTAAATGTTGC
* * *
19386793 AAATTGA-AGTGTTTAATTATTGT
1 AAATTGAGA-TGTTTAAATGTTGC
* *
19386816 AAATTGAGGTGTATAAATGT
1 AAATTGAGATGTTTAAATGT
19386836 GTCTAAACTA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.33, C:0.03, G:0.22, T:0.42
Consensus pattern (23 bp):
AAATTGAGATGTTTAAATGTTGC
Found at i:19395017 original size:6 final size:6
Alignment explanation
Indices: 19395006--19395034 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
19394996 TTCTGTTCTT
19395006 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
19395035 TGTACTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:19398127 original size:85 final size:84
Alignment explanation
Indices: 19397918--19398133 Score: 274
Period size: 85 Copynumber: 2.6 Consensus size: 84
19397908 ATGTTAGTGG
* * * *
19397918 CGTTTGTGGGAAAAGTGCCACTAAAGATCATGTT-TTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
1 CGTTTATGGGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
*
19397982 AAAAACATGTTTTTAGTGA
66 AAAAACATGTTTTTAGCGA
* * *
19398001 CGTTTATGGGATAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGATAAGCGTCGCT
1 CGTTTATGGGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
*
19398066 AAAGACCATGTTCTTTAGCGA
66 AAA-AACATGTT-TTTAGCGA
* * * * *
19398087 TGTTT-TTGGAAAAGCGCCGCTAAATACCATGTTCTATAGCGGTGTTT
1 CGTTTATGGGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTT
19398134 TTCCTCATAA
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
83 29 0.25
84 31 0.27
85 44 0.38
86 11 0.10
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (84 bp):
CGTTTATGGGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
AAAAACATGTTTTTAGCGA
Found at i:19398135 original size:42 final size:43
Alignment explanation
Indices: 19397911--19398133 Score: 265
Period size: 42 Copynumber: 5.3 Consensus size: 43
19397901 TTTGTTAATG
* * * *
19397911 TTAGTGGCGTTTGTGGGAAAAGTGCCACTAAAGATCATGTT-T
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
*
19397953 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA-AACATGTT-T
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
* * * *
19397994 TTAGTGACGTTTATGGGATAAGCGCCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
* *
19398037 TTAGCGGCGTTTGTGGGATAAGCGTCGCTAAAGACCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
** * *
19398080 TTAGCGATGTTT-TTGGAAAAGCGCCGCTAAATACCATGTTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
* *
19398122 ATAGCGGTGTTT
1 TTAGCGGCGTTT
19398134 TTCCTCATAA
Statistics
Matches: 158, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
41 36 0.23
42 72 0.46
43 50 0.32
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCT
Found at i:19398806 original size:15 final size:14
Alignment explanation
Indices: 19398778--19398805 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19398768 TAAAATAGTA
19398778 ACATTGAATTTTTT
1 ACATTGAATTTTTT
19398792 ACATTGAATTTTTT
1 ACATTGAATTTTTT
19398806 TGTCAAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (14 bp):
ACATTGAATTTTTT
Found at i:19399557 original size:28 final size:28
Alignment explanation
Indices: 19399493--19399592 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 28
19399483 AAAGAGTAGT
* *
19399493 CTTTGTGGAAAACTCTAGAACGAATGGC
1 CTTTGTGGCAAACTCTAGAAGGAATGGC
19399521 CTTTGTGGCAAACTCTAGAAGGAATGGC
1 CTTTGTGGCAAACTCTAGAAGGAATGGC
* * *
19399549 CCTTGTGGCGAAAATAT-GAAGGAAAT-GC
1 CTTTGTGGC-AAACTCTAGAAGG-AATGGC
*
19399577 CTTTGTGGCACACTCT
1 CTTTGTGGCAAACTCT
19399593 GAAAGGACAG
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 4 0.07
28 49 0.80
29 8 0.13
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
CTTTGTGGCAAACTCTAGAAGGAATGGC
Found at i:19399961 original size:54 final size:54
Alignment explanation
Indices: 19399896--19400005 Score: 186
Period size: 54 Copynumber: 2.0 Consensus size: 54
19399886 CTTGGTTGGA
*
19399896 AATTACGAACAATAGGGATAGAGAAGTAACGGGTTAGTATTGAAAG-GTCTTTCT
1 AATTACGAACAATAAGGATAGAGAAGTAACGGGTTAGTATTGAAAGTG-CTTTCT
*
19399950 AATTATGAACAATAAGGATAGAGAAGTAACGGGTTAGTATTGAAAGTGCTTTCT
1 AATTACGAACAATAAGGATAGAGAAGTAACGGGTTAGTATTGAAAGTGCTTTCT
19400004 AA
1 AA
19400006 ACAAGGATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
54 52 0.98
55 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (54 bp):
AATTACGAACAATAAGGATAGAGAAGTAACGGGTTAGTATTGAAAGTGCTTTCT
Found at i:19405392 original size:23 final size:24
Alignment explanation
Indices: 19405339--19405392 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
19405329 GAAATTAATA
*
19405339 AATATTT-TATAAAATAAGATATG
1 AATATTTAAATAAAATAAGATATG
* *
19405362 AATGTTTAAATAATATAA-ATATG
1 AATATTTAAATAAAATAAGATATG
*
19405385 AGTATTTA
1 AATATTTA
19405393 TGTAAATCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (24 bp):
AATATTTAAATAAAATAAGATATG
Found at i:19405475 original size:17 final size:18
Alignment explanation
Indices: 19405443--19405497 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
19405433 CATCTGTTAT
* *
19405443 TATTAAGTTTATATAATA
1 TATTAAGTTCATATAAAA
19405461 TATTAA-TTCATATAAAA
1 TATTAAGTTCATATAAAA
*
19405478 TATTATGTT-ATTATAAAA
1 TATTAAGTTCA-TATAAAA
19405496 TA
1 TA
19405498 AATTTTGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (18 bp):
TATTAAGTTCATATAAAA
Found at i:19407091 original size:30 final size:31
Alignment explanation
Indices: 19407032--19407154 Score: 101
Period size: 30 Copynumber: 4.1 Consensus size: 31
19407022 CCCTAAATTA
* * **
19407032 TCCAAAAA-TTTGTATTTGACCCCTGAACTT
1 TCCAAAAAGTTAGAATTTGACCCCCAAACTT
*
19407062 TTCAAAAAGTTAG-ATTTGACCCCCAAAC-T
1 TCCAAAAAGTTAGAATTTGACCCCCAAACTT
* * * *
19407091 TCCCAAAATTTTGAATTTGACACCCAAACTT
1 TCCAAAAAGTTAGAATTTGACCCCCAAACTT
* * * *
19407122 TCC-CAAATTTTGAATTTGACACCCAAACTT
1 TCCAAAAAGTTAGAATTTGACCCCCAAACTT
19407152 TCC
1 TCC
19407155 CAAATTTTGT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
29 10 0.12
30 63 0.79
31 7 0.09
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (31 bp):
TCCAAAAAGTTAGAATTTGACCCCCAAACTT
Found at i:19407110 original size:60 final size:61
Alignment explanation
Indices: 19407033--19407163 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 61
19407023 CCTAAATTAT
* * * *
19407033 CCAAAAATTTGTATTTGAC-CCCTGAACTTTTCAAAAAGTTAG-ATTTGACCCCCAAAC-TTC
1 CCAAAATTTTGAATTTGACACCC-AAAC-TTTCAAAAAGTTAGAATTTGACACCCAAACTTTC
** * *
19407093 CCAAAATTTTGAATTTGACACCCAAACTTTCCCAAATTTTGAATTTGACACCCAAACTTTC
1 CCAAAATTTTGAATTTGACACCCAAACTTTCAAAAAGTTAGAATTTGACACCCAAACTTTC
19407154 CC-AAATTTTG
1 CCAAAATTTTG
19407164 TTTTTGATCC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
59 10 0.17
60 42 0.70
61 8 0.13
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33
Consensus pattern (61 bp):
CCAAAATTTTGAATTTGACACCCAAACTTTCAAAAAGTTAGAATTTGACACCCAAACTTTC
Found at i:19407170 original size:30 final size:30
Alignment explanation
Indices: 19407075--19407163 Score: 153
Period size: 30 Copynumber: 3.0 Consensus size: 30
19407065 AAAAAGTTAG
*
19407075 ATTTGACCCCCAAAC-TTCCCAAAATTTTGA
1 ATTTGACACCCAAACTTTCCC-AAATTTTGA
19407105 ATTTGACACCCAAACTTTCCCAAATTTTGA
1 ATTTGACACCCAAACTTTCCCAAATTTTGA
19407135 ATTTGACACCCAAACTTTCCCAAATTTTG
1 ATTTGACACCCAAACTTTCCCAAATTTTG
19407164 TTTTTGATCC
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
30 52 0.91
31 5 0.09
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.33
Consensus pattern (30 bp):
ATTTGACACCCAAACTTTCCCAAATTTTGA
Found at i:19412315 original size:19 final size:19
Alignment explanation
Indices: 19412275--19412328 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
19412265 AAAAGGGGGG
*
19412275 AAGATAAAAAGAAAAAACA
1 AAGAGAAAAAGAAAAAACA
19412294 AAGA-AAAAAGAAAAAGGA-A
1 AAGAGAAAAAGAAAAA--ACA
19412313 AAGAAGAAAAAGAAAA
1 AAG-AGAAAAAGAAAA
19412329 GGAGAGGTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
18 11 0.35
19 8 0.26
20 2 0.06
21 10 0.32
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.02
Consensus pattern (19 bp):
AAGAGAAAAAGAAAAAACA
Found at i:19412322 original size:14 final size:15
Alignment explanation
Indices: 19412281--19412329 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
19412271 GGGGAAGATA
*
19412281 AAAAGAAAAAACAAAG
1 AAAAGAAGAAA-AAAG
*
19412297 AAAA-AAGAAAAAGG
1 AAAAGAAGAAAAAAG
19412311 AAAAGAAG-AAAAAG
1 AAAAGAAGAAAAAAG
19412325 AAAAG
1 AAAAG
19412330 GAGAGGTCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 17 0.59
15 8 0.28
16 4 0.14
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAGAAAAAAG
Found at i:19412783 original size:112 final size:112
Alignment explanation
Indices: 19412645--19413084 Score: 567
Period size: 112 Copynumber: 3.9 Consensus size: 112
19412635 TTGTCATTTT
** * *
19412645 TAATCTTTTCATTCATACGAATTTTGCCTCCAATAAAATTTAATTTCATCCACCTTACAGCCTTG
1 TAATCTTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTCATCCACCTTACAACCTTG
* * *
19412710 TTCAAACATTTTTCCATCGAAATAATGGTTAGTGGACCAATGATTCA
66 TTCAAGCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGATTCA
* * *
19412757 TAATCTTTTCATTCATACGAGCTTTGCCTCTAATAAAATTCAGTTTTATCCACCTTACAACCTTG
1 TAATCTTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTCATCCACCTTACAACCTTG
* * ** * **
19412822 TTTAAGC-TCTTTGCATCGAAATAACAATTAGTAGACCAATGATTTT
66 TTCAAGCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGATTCA
* * * * *
19412868 TAATCTTTTCATTTATACAAGCTTTGTCTCCAATAAAATTCAATTTTATCCACCTTACAACCTTA
1 TAATCTTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTCATCCACCTTACAACCTTG
*
19412933 TTCAAGCATTTTTGCATTGAAATAACGGTTAGTGGACCAATGATTCA
66 TTCAAGCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGATTCA
** * **
19412980 TAATCTTTTCATTCATACGAGCTTTGTTTCTAATAAAACACAATTTCATCCACCTTACAACCTTG
1 TAATCTTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTCATCCACCTTACAACCTTG
*
19413045 ATTCAAGCATTTTCTTTGCAATTGAAATAACGGTTAGTGG
66 -TTCAAGCA--TT-TTTGC-ATCGAAATAACGGTTAGTGG
19413085 TCTAACGACA
Statistics
Matches: 283, Mismatches: 39, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
111 96 0.34
112 152 0.54
113 8 0.03
115 2 0.01
116 5 0.02
117 20 0.07
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.38
Consensus pattern (112 bp):
TAATCTTTTCATTCATACGAGCTTTGCCTCCAATAAAATTCAATTTCATCCACCTTACAACCTTG
TTCAAGCATTTTTGCATCGAAATAACGGTTAGTGGACCAATGATTCA
Found at i:19413033 original size:223 final size:223
Alignment explanation
Indices: 19412640--19413044 Score: 641
Period size: 223 Copynumber: 1.8 Consensus size: 223
19412630 AATGTTTGTC
* * *
19412640 ATTTTTAATCTTTTCATTCATACGAATTTTGCCTCCAATAAAATTTAATTTCATCCACCTTACAG
1 ATTTTTAATCTTTTCATTCATACGAACTTTGCCTCCAATAAAATTCAATTTCATCCACCTTACAA
* *
19412705 CCTTGTTCAAACATTTTTCCATCGAAATAATGGTTAGTGGACCAATGATTCATAATCTTTTCATT
66 CCTTATTCAAACATTTTTCCATCGAAATAACGGTTAGTGGACCAATGATTCATAATCTTTTCATT
** * *
19412770 CATACGAGCTTTGCCTCTAATAAAATTCAGTTTTATCCACCTTACAACCTTGTTTAAGCTCTTTG
131 CATACGAGCTTTGCCTCTAATAAAACACAATTTCATCCACCTTACAACCTTGTTTAAGCTCTTTG
19412835 CATCGAAATAACAATTAGTAGACCAATG
196 CATCGAAATAACAATTAGTAGACCAATG
* * *
19412863 ATTTTTAATCTTTTCATTTATAC-AAGCTTTGTCTCCAATAAAATTCAATTTTATCCACCTTACA
1 ATTTTTAATCTTTTCATTCATACGAA-CTTTGCCTCCAATAAAATTCAATTTCATCCACCTTACA
* * *
19412927 ACCTTATTCAAGCATTTTTGCATTGAAATAACGGTTAGTGGACCAATGATTCATAATCTTTTCAT
65 ACCTTATTCAAACATTTTTCCATCGAAATAACGGTTAGTGGACCAATGATTCATAATCTTTTCAT
**
19412992 TCATACGAGCTTTGTTTCTAATAAAACACAATTTCATCCACCTTACAACCTTG
130 TCATACGAGCTTTGCCTCTAATAAAACACAATTTCATCCACCTTACAACCTTG
19413045 ATTCAAGCAT
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
222 2 0.01
223 162 0.99
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (223 bp):
ATTTTTAATCTTTTCATTCATACGAACTTTGCCTCCAATAAAATTCAATTTCATCCACCTTACAA
CCTTATTCAAACATTTTTCCATCGAAATAACGGTTAGTGGACCAATGATTCATAATCTTTTCATT
CATACGAGCTTTGCCTCTAATAAAACACAATTTCATCCACCTTACAACCTTGTTTAAGCTCTTTG
CATCGAAATAACAATTAGTAGACCAATG
Found at i:19413604 original size:50 final size:50
Alignment explanation
Indices: 19413549--19413702 Score: 120
Period size: 50 Copynumber: 3.1 Consensus size: 50
19413539 CAGCAAGCCT
19413549 TGTACCTTAGAAGATGT-TATGGGAAGGATTGAGGCCGCAACGGCGAATC
1 TGTACCTTAGAAGATGTATATGGGAAGGATTGAGGCCGCAACGGCGAATC
* * * * * * * *
19413598 TGGTACCAT-GAAGATATAAAAGGAAAGG--TGAGGCCGCAACCGCAAACCC
1 T-GTACCTTAGAAGATGTATATGGGAAGGATTGAGGCCGCAACGGCGAA-TC
* * * * * *
19413647 TGTACCTTAGAAGATGTGT-TAGGAAAGATTAAAGCCGCAACGACGAATC
1 TGTACCTTAGAAGATGTATATGGGAAGGATTGAGGCCGCAACGGCGAATC
19413696 TTGTACC
1 -TGTACC
19413703 ATGGAGATAT
Statistics
Matches: 76, Mismatches: 22, Indels: 13
0.68 0.20 0.12
Matches are distributed among these distances:
48 26 0.34
49 18 0.24
50 32 0.42
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (50 bp):
TGTACCTTAGAAGATGTATATGGGAAGGATTGAGGCCGCAACGGCGAATC
Found at i:19413731 original size:49 final size:49
Alignment explanation
Indices: 19413667--19413800 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
19413657 AAGATGTGTT
* *
19413667 AGGAAAGATTAAAGCCGCAACGACGAATCTTGTACCATGGAGATATGAA
1 AGGAAAGATTAAAGCCGCAACGACGAATCTTATACCATAGAGATATGAA
* * * * *
19413716 GGGAAAGGTTAAAGCCGCAACGATGAACCTTATACCTTAGAGATATGAA
1 AGGAAAGATTAAAGCCGCAACGACGAATCTTATACCATAGAGATATGAA
* * * * *
19413765 AGGAAAAATTGAGGCCGTAACGACGAATCTTCTACC
1 AGGAAAGATTAAAGCCGCAACGACGAATCTTATACC
19413801 TCGAAGTTGC
Statistics
Matches: 69, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 69 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (49 bp):
AGGAAAGATTAAAGCCGCAACGACGAATCTTATACCATAGAGATATGAA
Found at i:19413769 original size:98 final size:98
Alignment explanation
Indices: 19413582--19413800 Score: 237
Period size: 98 Copynumber: 2.2 Consensus size: 98
19413572 AAGGATTGAG
* * * *
19413582 GCCGCAACGGCGAATCTGGTACCATGAAGATATAAAAGGAAAGGTGAGGCCGCAACCGCAAACCC
1 GCCGCAACGACGAATCTTGTACCATGAAGATATAAAAGGAAAGGTAAAGCCGCAACCGCAAACCC
* * ** *
19413647 TGTACCTTAGAAGATGTGTTAGGAAAGATTAAA
66 TATACCTTAGAAGATATGAAAGGAAAAATTAAA
* * *
19413680 GCCGCAACGACGAATCTTGTACCATGGAGATATGAAGGGAAAGGTTAAAGCCGCAA-CG-ATGAA
1 GCCGCAACGACGAATCTTGTACCATGAAGATATAAAAGGAAAGG-TAAAGCCGCAACCGCA--AA
* * *
19413743 CCTTATACCTTAG-AGATATGAAAGGAAAAATTGAG
63 CCCTATACCTTAGAAGATATGAAAGGAAAAATTAAA
* *
19413778 GCCGTAACGACGAATCTTCTACC
1 GCCGCAACGACGAATCTTGTACC
19413801 TCGAAGTTGC
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
97 1 0.01
98 78 0.77
99 22 0.22
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.19
Consensus pattern (98 bp):
GCCGCAACGACGAATCTTGTACCATGAAGATATAAAAGGAAAGGTAAAGCCGCAACCGCAAACCC
TATACCTTAGAAGATATGAAAGGAAAAATTAAA
Found at i:19413801 original size:49 final size:49
Alignment explanation
Indices: 19413649--19413801 Score: 153
Period size: 49 Copynumber: 3.1 Consensus size: 49
19413639 GCAAACCCTG
* ** * *
19413649 TACCTTAGAAGATGTGTTAGGAAAGATTAAAGCCGCAACGACGAATCTTG
1 TACCTTAG-AGATATGAAAGGAAAAATTAAAGCCGCAACGACGAATCTTA
* * * ** * *
19413699 TACCATGGAGATATGAAGGGAAAGGTTAAAGCCGCAACGATGAACCTTA
1 TACCTTAGAGATATGAAAGGAAAAATTAAAGCCGCAACGACGAATCTTA
* * * *
19413748 TACCTTAGAGATATGAAAGGAAAAATTGAGGCCGTAACGACGAATCTTC
1 TACCTTAGAGATATGAAAGGAAAAATTAAAGCCGCAACGACGAATCTTA
19413797 TACCT
1 TACCT
19413802 CGAAGTTGCA
Statistics
Matches: 82, Mismatches: 21, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
49 76 0.93
50 6 0.07
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (49 bp):
TACCTTAGAGATATGAAAGGAAAAATTAAAGCCGCAACGACGAATCTTA
Found at i:19414017 original size:39 final size:39
Alignment explanation
Indices: 19413882--19415425 Score: 1223
Period size: 39 Copynumber: 39.0 Consensus size: 39
19413872 AGCGAAGACA
* * * *
19413882 TCATTCAATCTCTTACCCCGATCATAAGGTAGATTAAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* * ***
19413921 -CATCTAATCTTTTACCTTAATCA-GAAGGCTA-ATTGAAG
1 TCATCCAATCTCTTACCCCGATCATG-AGGC-AGATTGAAG
* * * *
19413959 ACACATTCAATCTCTTACCCTGATCATGAGGTAGATTGAAG
1 --TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* * *
19414000 TCATCTAATCTCTTACCCCGATCATGAGACAGATCGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* * *
19414039 CCATTCAATCTCTTACCCCGATCAT-AGGGTAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGA-GGCAGATTGAAG
* * * *
19414078 ACATCATCTAATCTTTTACCCCGATCATAAGGCAAATTGAAG
1 ---TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
*
19414120 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* *
19414159 TCATCTAATCTATTACCCCGATCATGAGGCAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
*
19414198 TCATCCAATCTCTTACCTCGATCATGAGGCAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* * * * ** *
19414237 -CATTCGATATTTTACCCTAATCA-AAGTGCAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGAG-GCAGATTGAAG
* * * * *
19414275 ACACACCAATCTCTTACCCCAATCATGGGGCAGATTGAAA
1 TCA-TCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
*
19414315 CCATCCAATCTCTTACCCCGAT--TGTAGGGCAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATG-A-GGCAGATTGAAG
* * * * *
19414354 CCATCCAATCTCTT-TCCCGATCATGGGGAAAATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* * * *
19414392 ACATCATCTAATTTTTTACCCCGATCATGGGGCAGATT-ATAG
1 ---TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGA-AG
* * * *
19414434 TTATCCAATCTCTTACCTCAATCATGAGGCAGATTGAAA
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* * *
19414473 CCATCCAATCTCTTACCTCGATCATGAGGAAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* * * *
19414512 ACATCATCCAATATCTTACCTCGATCAT-AGGGCATAGTGAAG
1 ---TCATCCAATCTCTTACCCCGATCATGA-GGCAGATTGAAG
* * * *
19414554 TCATCCAATCTCTTACCTCGATCATGGGGCATAATGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
** * *
19414593 TCATCCAATCTCTTACCCAAATCATGGGGTAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* **
19414632 ATATCATCCAATCTTTTACCCTAATCAT-AGGGCAGATTGAAG
1 ---TCATCCAATCTCTTACCCCGATCATGA-GGCAGATTGAAG
* *
19414674 TCATCCAATCTCTTACCCCGATTATGGGGCAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* * * * *
19414713 CCATCCAATCTCTTACTCCGATCATGGGGCAAATTAAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* *
19414752 ACATCATCCAATCTTTTACCCCGATCATGGGGCAGATTGAAG
1 ---TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
19414794 TCATCCAATCTCTTACCCCGATCATG-GGACAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGG-CAGATTGAAG
* * *
19414833 ACATCATCCAATCTCTTATCCCAACCATG-GGACAGATTGAAG
1 ---TCATCCAATCTCTTACCCCGATCATGAGG-CAGATTGAAG
* * *** * * *
19414875 -CATCCGATCTTTTACCATAATTA-GAGGGTAAATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGA-GGCAGATTGAAG
* * * *
19414913 ATACA-CCAATCTTTTACCTCGACCATGGGGCAGATTGAAG
1 -T-CATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
** * ** *
19414953 -CATCTGATCTTTTACCCTAATCA-AAGGGCA-ATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGA-GGCAGATTGAAG
* * *
19414990 ACACACCAATCTCTTACCCCGATCATGGGGCAGATTGAAG
1 TCA-TCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* *
19415030 CCATCCAATCTCTTACCCCGATCATGAGGCAAATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
*
19415069 CCATCCAATCTCTTACCCCGATCAT-AGGGCAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGA-GGCAGATTGAAG
* * *
19415108 ACATCATCCAATCTTTTACCCCGATCATGGGGCAAATTGAAG
1 ---TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
*
19415150 CCATCCAATCTCTTACCCCGATCAT-AGGGCAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGA-GGCAGATTGAAG
* *
19415189 CCATCCAATCTCTTACCCCGATCATGAGACAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* * * * *
19415228 ACATCATCTAATCTCTTACCCCAACCATGGGGCAGATTAAAG
1 ---TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* * ** *
19415270 -CATCCGATCTTTTACCCTAATCA-GAAGGCAGATTGAAA
1 TCATCCAATCTCTTACCCCGATCATG-AGGCAGATTGAAG
* * * *
19415308 ACACACCAATCTCTTACCCTGATCATGGGGCAGATTGAAG
1 TCA-TCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
* * ***
19415348 -CATCCGATCTTTTACCTTAATCA-GAGGCAAGATTGAAG
1 TCATCCAATCTCTTACCCCGATCATGAGGC-AGATTGAAG
* * * * * *
19415386 ACACACCGATCTCTTACCCCAATCATGGGGCAAATTGAAG
1 TCA-TCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
19415426 CCACCATCCA
Statistics
Matches: 1223, Mismatches: 209, Indels: 145
0.78 0.13 0.09
Matches are distributed among these distances:
37 19 0.02
38 170 0.14
39 613 0.50
40 118 0.10
41 49 0.04
42 253 0.21
43 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (39 bp):
TCATCCAATCTCTTACCCCGATCATGAGGCAGATTGAAG
Found at i:19414117 original size:120 final size:118
Alignment explanation
Indices: 19413966--19415446 Score: 1334
Period size: 120 Copynumber: 12.4 Consensus size: 118
19413956 AAGACACATT
* * * * * *
19413966 CAATCTCTTACCCTGATCATGAGGTAGATTGAAGTCATCTAATCTCTTACCCCGATCATGAGACA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGAGGCA
* * * *
19414031 GATCGAAG-CCATTCAATCTCTTACCCCGATCATAGGGTAGATTGAAGACATCATC
66 GATTGAAGACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG---TCATC
* * ** * * *
19414086 TAATCTTTTACCCCGATCATAAGGCAAATTGAAGTCATCCAATCTCTTACCCCGATCATGGGGCA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGAGGCA
* * * *
19414151 GATTGAAG-TCATCTAATCTATTACCCCGATCATGAGGCAGATTGAAGTCATC
66 GATTGAAGACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGTCATC
* * * * * * ** *
19414203 CAATCTCTTACCTCGATCATGAGGCAGATTGAAG-CATTCGATATTTTACCCTAATCA-AAGTGC
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGAG-GC
* **
19414266 AGATTGAAGACACA-CCAATCTCTTACCCCAATCATGGGGCAGATTGAAACCATC
65 AGATTGAAGAC-CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGTCATC
** * * * *
19414320 CAATCTCTTACCCCGATTGTAGGGCAGATTGAAGCCATCCAATCTCTT-TCCCGATCATGGGGAA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGAGGCA
* * * * *
19414384 AATTGAAGACATCATCTAATTTTTTACCCCGATCATGGGGCAGATT-ATAGTTATC
66 GATTGAAGAC--CATCCAATCTCTTACCCCGATCATGGGGCAGATTGA-AGTCATC
* * * * * *
19414439 CAATCTCTTACCTCAATCATGAGGCAGATTGAAACCATCCAATCTCTTACCTCGATCATGAGGAA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGAGGCA
* * * * *
19414504 GATTGAAGACATCATCCAATATCTTACCTCGATCATAGGGCATAGTGAAGTCATC
66 GATTGAAGAC--CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGTCATC
* * * * ** * *
19414559 CAATCTCTTACCTCGATCATGGGGCATAATGAAGTCATCCAATCTCTTACCCAAATCATGGGGTA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGAGGCA
* * ** *
19414624 GATTGAAGATATCATCCAATCTTTTACCCTAATCATAGGGCAGATTGAAGTCATC
66 GATTGAAG--ACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGTCATC
* * *
19414679 CAATCTCTTACCCCGATTATGGGGCAGATTGAAGCCATCCAATCTCTTACTCCGATCATGGGGCA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGAGGCA
* * *
19414744 AATTAAAGACATCATCCAATCTTTTACCCCGATCATGGGGCAGATTGAAGTCATC
66 GATTGAAGAC--CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGTCATC
* * * *
19414799 CAATCTCTTACCCCGATCATGGGACAGATTGAAGACATCATCCAATCTCTTATCCCAACCATG-G
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAG-C--CATCCAATCTCTTACCCCGATCATGAG
* * *** * * *
19414863 GACAGATTGAAG--CATCCGATCTTTTACCATAATTA-GAGGGTAAATTGAAGATACA-C
63 G-CAGATTGAAGACCATCCAATCTCTTACCCCGATCATG-GGGCAGATTGAAG-T-CATC
* * * ** * ** *
19414919 CAATCTTTTACCTCGACCATGGGGCAGATTGAAG-CATCTGATCTTTTACCCTAATCA-AAGGGC
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGA-GGC
*
19414982 A-ATTGAAGACACA-CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATC
65 AGATTGAAGAC-CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGTCATC
* *
19415035 CAATCTCTTACCCCGATCATGAGGCAAATTGAAGCCATCCAATCTCTTACCCCGATCAT-AGGGC
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGA-GGC
* * *
19415099 AGATTGAAGACATCATCCAATCTTTTACCCCGATCATGGGGCAAATTGAAGCCATC
65 AGATTGAAGAC--CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGTCATC
* *
19415155 CAATCTCTTACCCCGATCATAGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGAGACA
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGAGGCA
* * * *
19415220 GATTGAAGACATCATCTAATCTCTTACCCCAACCATGGGGCAGATTAAAG-CATC
66 GATTGAAGAC--CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGTCATC
* * ** * * * *
19415274 CGATCTTTTACCCTAATCA-GAAGGCAGATTGAAAACACA-CCAATCTCTTACCCTGATCATGGG
1 CAATCTCTTACCCCGATCATG-GGGCAGATTG-AAGC-CATCCAATCTCTTACCCCGATCATGAG
* * *** * * *
19415337 GCAGATTGAAG--CATCCGATCTTTTACCTTAATCA-GAGGCAAGATTGAAGACACAC
63 GCAGATTGAAGACCATCCAATCTCTTACCCCGATCATGGGGC-AGATTGAAGTCA-TC
* * * *
19415392 CGATCTCTTACCCCAATCATGGGGCAAATTGAAGCCACCATCCAATCTTTTACCC
1 CAATCTCTTACCCCGATCATGGGGCAGATTGAAG---CCATCCAATCTCTTACCC
19415447 ATAAATCAAG
Statistics
Matches: 1119, Mismatches: 197, Indels: 90
0.80 0.14 0.06
Matches are distributed among these distances:
115 14 0.01
116 102 0.09
117 169 0.15
118 55 0.05
119 134 0.12
120 606 0.54
121 7 0.01
122 3 0.00
123 29 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (118 bp):
CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCCATCCAATCTCTTACCCCGATCATGAGGCA
GATTGAAGACCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGTCATC
Found at i:19417108 original size:30 final size:30
Alignment explanation
Indices: 19417083--19417169 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
19417073 GAAATTACAT
* *
19417083 TTTAACCCCTAAACTACCTAAAAATTTGGA
1 TTTAACCCCTAAACTTCCTAAAAATTTAGA
*
19417113 TTTGACCCCTAAACTTTCC-AAAAATTTAGA
1 TTTAACCCCTAAAC-TTCCTAAAAATTTAGA
*
19417143 TTTAACCCCCAAACTTCCTAAAAATTT
1 TTTAACCCCTAAACTTCCTAAAAATTT
19417170 GAATTTGGCC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
29 4 0.08
30 43 0.86
31 3 0.06
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (30 bp):
TTTAACCCCTAAACTTCCTAAAAATTTAGA
Found at i:19417151 original size:60 final size:60
Alignment explanation
Indices: 19417083--19417195 Score: 181
Period size: 60 Copynumber: 1.9 Consensus size: 60
19417073 GAAATTACAT
* *
19417083 TTTAACCCCTAAACTACCTAAAAATTTGGATTTGACCCCTAAACTTTCCAAAAATTTAGA
1 TTTAACCCCCAAACTACCTAAAAATTTGAATTTGACCCCTAAACTTTCCAAAAATTTAGA
* * *
19417143 TTTAACCCCCAAACTTCCTAAAAATTTGAATTTGGCCCTTAAACTTTCCAAAA
1 TTTAACCCCCAAACTACCTAAAAATTTGAATTTGACCCCTAAACTTTCCAAAA
19417196 TTTCATTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (60 bp):
TTTAACCCCCAAACTACCTAAAAATTTGAATTTGACCCCTAAACTTTCCAAAAATTTAGA
Found at i:19417187 original size:30 final size:30
Alignment explanation
Indices: 19417087--19417188 Score: 118
Period size: 30 Copynumber: 3.4 Consensus size: 30
19417077 TTACATTTTA
* *
19417087 ACCCCTAAACTACCTAAAAATTTGGATTTG
1 ACCCCTAAACTTCCTAAAAATTTGAATTTG
*
19417117 ACCCCTAAACTTTCC-AAAAATTT-AGATTTA
1 ACCCCTAAAC-TTCCTAAAAATTTGA-ATTTG
*
19417147 ACCCCCAAACTTCCTAAAAATTTGAATTTG
1 ACCCCTAAACTTCCTAAAAATTTGAATTTG
* *
19417177 GCCCTTAAACTT
1 ACCCCTAAACTT
19417189 TCCAAAATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
29 4 0.07
30 52 0.87
31 4 0.07
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (30 bp):
ACCCCTAAACTTCCTAAAAATTTGAATTTG
Found at i:19426421 original size:61 final size:61
Alignment explanation
Indices: 19426326--19426450 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
19426316 TTCACGGTGT
*
19426326 AAGGTCTATTTAGTCCATTTTATTTGTGAGGAAAGAAAAGCTGAATTGTTCCAATTATAAG
1 AAGGTCTATTTAGTCCATTTTATTTGTGAGGAAAGAAAAGCTCAATTGTTCCAATTATAAG
19426387 AAGGTCTATTTAGTCCATTTTATTTGTGAGGAAAGAAAAGCTCAATTGTTCCAATTATAAG
1 AAGGTCTATTTAGTCCATTTTATTTGTGAGGAAAGAAAAGCTCAATTGTTCCAATTATAAG
19426448 AAG
1 AAG
19426451 TGGAATGAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (61 bp):
AAGGTCTATTTAGTCCATTTTATTTGTGAGGAAAGAAAAGCTCAATTGTTCCAATTATAAG
Found at i:19428164 original size:17 final size:18
Alignment explanation
Indices: 19428133--19428166 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19428123 AATTTAACTT
19428133 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
19428151 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
19428167 TTATAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:19429580 original size:40 final size:39
Alignment explanation
Indices: 19429523--19429645 Score: 129
Period size: 40 Copynumber: 3.1 Consensus size: 39
19429513 CGAATAATTA
*
19429523 AAAATATATTATCCGGAAGGATAATAGATGAAAAGGTTG
1 AAAATATATTATCCGGAAGGATAATAAATGAAAAGGTTG
* **
19429562 AAAATGATATTATTCGGAAGGATAATAAATGAAAAGACTG
1 AAAAT-ATATTATCCGGAAGGATAATAAATGAAAAGGTTG
* * * ** * *
19429602 AAAAAGATGTTACCCAAAAGGGTAATAAATGAAAAGGTCG
1 -AAAATATATTATCCGGAAGGATAATAAATGAAAAGGTTG
19429642 AAAA
1 AAAA
19429646 GATAAAATTG
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
39 9 0.13
40 55 0.81
41 4 0.06
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.22
Consensus pattern (39 bp):
AAAATATATTATCCGGAAGGATAATAAATGAAAAGGTTG
Found at i:19434268 original size:11 final size:11
Alignment explanation
Indices: 19434252--19434290 Score: 51
Period size: 11 Copynumber: 3.3 Consensus size: 11
19434242 CCCAGTATAC
19434252 TATTTTTATTT
1 TATTTTTATTT
19434263 TATTTTTATTAT
1 TATTTTTATT-T
19434275 TATTTATTTATTT
1 TA-TT-TTTATTT
19434288 TAT
1 TAT
19434291 AAATACAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 10 0.40
12 4 0.16
13 5 0.20
14 6 0.24
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:19435481 original size:30 final size:30
Alignment explanation
Indices: 19435280--19435530 Score: 245
Period size: 30 Copynumber: 8.3 Consensus size: 30
19435270 AAAATTATTT
* * *
19435280 TTTGACCTCTAAACTTTT-TAAAAATTCTAA
1 TTTGACCCCTAAA-TTTTCCAAAAATTCAAA
*
19435310 TTTGACCCCTAAATTTTCCACAAATTCAAA
1 TTTGACCCCTAAATTTTCCAAAAATTCAAA
* * *
19435340 TTTAACCCCCAAATGTTCCAAAAATTCAAA
1 TTTGACCCCTAAATTTTCCAAAAATTCAAA
* *
19435370 TTTAACCCCTAAATTTTTCAAAAATTCAAA
1 TTTGACCCCTAAATTTTCCAAAAATTCAAA
**
19435400 TTTGACCCCTAAATTTTCCAAAAATTTGAA
1 TTTGACCCCTAAATTTTCCAAAAATTCAAA
* * *
19435430 TTTGACCCTTAAATTTTTCCAAAAGTTCCAA
1 TTTGACCCCTAAA-TTTTCCAAAAATTCAAA
* ***
19435461 TTTGACCCC-CAATCTTTCCAAAAAATTTTGA
1 TTTGACCCCTAAAT-TTTCC-AAAAATTCAAA
* * **
19435492 TTTGACCCTTAAAGTTTTCAAAAAATTTGAA
1 TTTGACCCCTAAA-TTTTCCAAAAATTCAAA
19435523 TTTGACCC
1 TTTGACCC
19435531 AATTTTAATG
Statistics
Matches: 185, Mismatches: 30, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
29 5 0.03
30 119 0.64
31 54 0.29
32 6 0.03
33 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.36
Consensus pattern (30 bp):
TTTGACCCCTAAATTTTCCAAAAATTCAAA
Found at i:19439087 original size:5 final size:4
Alignment explanation
Indices: 19439052--19439120 Score: 67
Period size: 4 Copynumber: 18.0 Consensus size: 4
19439042 TATTTATATA
19439052 AAAT -AAT AAA- AAAT AAAT -AA- AAAT AAA- AAAT GAAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
* *
19439096 AAAT AACT AAAT AAAA AAATT AAAT
1 AAAT AAAT AAAT AAAT AAA-T AAAT
19439121 TGGTTTTTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
3 13 0.24
4 34 0.63
5 7 0.13
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:19439091 original size:26 final size:25
Alignment explanation
Indices: 19439050--19439120 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
19439040 TTTATTTATA
19439050 TAAAATAATAAAAAATAAATAAAAA
1 TAAAATAATAAAAAATAAATAAAAA
19439075 TAAAA-AATGAAATAAATAAATAAATAA
1 TAAAATAAT-AAA-AAATAAATAAA-AA
*
19439102 CT-AAATAA-AAAAATTAAAT
1 -TAAAATAATAAAAAATAAAT
19439121 TGGTTTTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
24 3 0.08
25 15 0.38
26 14 0.35
27 5 0.12
28 3 0.08
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.23
Consensus pattern (25 bp):
TAAAATAATAAAAAATAAATAAAAA
Found at i:19439115 original size:20 final size:19
Alignment explanation
Indices: 19439049--19439115 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
19439039 ATTTATTTAT
*
19439049 ATAAAATAATAAAAAATAA
1 ATAAAAAAATAAAAAATAA
19439068 AT--AAAAATAAAAAATGAA
1 ATAAAAAAATAAAAAAT-AA
* *
19439086 ATAAATAAATAAATAACTAA
1 ATAAAAAAATAAA-AAATAA
19439106 ATAAAAAAAT
1 ATAAAAAAAT
19439116 TAAATTGGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 12 0.30
18 4 0.10
19 2 0.05
20 19 0.47
21 3 0.08
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (19 bp):
ATAAAAAAATAAAAAATAA
Found at i:19439564 original size:40 final size:39
Alignment explanation
Indices: 19439498--19439724 Score: 194
Period size: 40 Copynumber: 5.8 Consensus size: 39
19439488 CAACTTTAGG
* *
19439498 GGTAAAAGATTGGATTGT-TTCAATCTGCCCCGTGGTCGA
1 GGTAAGAGATTGGATGGTCTTCAATCTGCCCCGTGGT-GA
* * *
19439537 GATAAGAGATTGGATGGTCTTCAATCTGTCCTC-TGGTTA
1 GGTAAGAGATTGGATGGTCTTCAATCTG-CCCCGTGGTGA
* * * * * *
19439576 GTGTAAAATATTGGATTG-CTTCAATCTGCCCCATAGTCGG
1 G-GTAAGAGATTGGATGGTCTTCAATCTGCCCCGTGGT-GA
* ** *
19439616 GGTAAGAGATTGGATGATCTTCAATCTGCCCTTTGGTTA
1 GGTAAGAGATTGGATGGTCTTCAATCTGCCCCGTGGTGA
* * * *
19439655 GGGTAAAAGATT-GATTG-CTTCAATTTGCCCCGTGGTTGG
1 -GGTAAGAGATTGGATGGTCTTCAATCTGCCCCGTGG-TGA
19439694 GGTAAGAGATTGGATGGTCTTCAATCTGCCC
1 GGTAAGAGATTGGATGGTCTTCAATCTGCCC
19439725 TTTGGTTAGG
Statistics
Matches: 145, Mismatches: 33, Indels: 19
0.74 0.17 0.10
Matches are distributed among these distances:
38 28 0.19
39 50 0.34
40 64 0.44
41 3 0.02
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (39 bp):
GGTAAGAGATTGGATGGTCTTCAATCTGCCCCGTGGTGA
Found at i:19439715 original size:78 final size:79
Alignment explanation
Indices: 19439497--19439751 Score: 386
Period size: 79 Copynumber: 3.2 Consensus size: 79
19439487 ACAACTTTAG
* * *
19439497 GGGTAAAAGATTGGATTGTTTCAATCTGCCCCGTGGTCGAGATAAGAGATTGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCGTGGTCGGGGTAAGAGATTGGATGGTCTTCAAT
* *
19439562 CTGTCCTCTGGTTA
66 CTGCCCTTTGGTTA
* * * * *
19439576 GTGTAAAATATTGGATTGCTTCAATCTGCCCCATAGTCGGGGTAAGAGATTGGATGATCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCGTGGTCGGGGTAAGAGATTGGATGGTCTTCAAT
19439641 CTGCCCTTTGGTTA
66 CTGCCCTTTGGTTA
* *
19439655 GGGTAAAAGATT-GATTGCTTCAATTTGCCCCGTGGTTGGGGTAAGAGATTGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCGTGGTCGGGGTAAGAGATTGGATGGTCTTCAAT
19439719 CTGCCCTTTGGTTA
66 CTGCCCTTTGGTTA
*
19439733 GGGTAAAAGATTAGATTGC
1 GGGTAAAAGATTGGATTGC
19439752 AACTTCGCTC
Statistics
Matches: 158, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
78 73 0.46
79 85 0.54
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (79 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCCCGTGGTCGGGGTAAGAGATTGGATGGTCTTCAAT
CTGCCCTTTGGTTA
Found at i:19439900 original size:50 final size:46
Alignment explanation
Indices: 19439799--19439924 Score: 139
Period size: 50 Copynumber: 2.7 Consensus size: 46
19439789 GTCCCTACGA
*
19439799 CTTCAATCTGCCCTTTTACAGCTTTAGGTGAGATTCGCCAATGCGG
1 CTTCAACCTGCCCTTTTACAGCTTTAGGTGAGATTCGCCAATGCGG
* * *
19439845 CTTCAACCTGCCCTTTTACTGCTTTACGTGTATGAGATTTGCCATTGCGG
1 CTTCAACCTGCCCTTTTACAGCTTTA-G-G--TGAGATTCGCCAATGCGG
*
19439895 CTTCAATCC-GCTCC-TCTACAGCTTTAGGTG
1 CTTCAA-CCTGC-CCTTTTACAGCTTTAGGTG
19439925 CATAGGATTC
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
46 26 0.38
47 1 0.01
48 2 0.03
49 1 0.01
50 34 0.50
51 4 0.06
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (46 bp):
CTTCAACCTGCCCTTTTACAGCTTTAGGTGAGATTCGCCAATGCGG
Found at i:19441687 original size:351 final size:351
Alignment explanation
Indices: 19441044--19441748 Score: 1347
Period size: 351 Copynumber: 2.0 Consensus size: 351
19441034 GATAAGACTC
* *
19441044 AGAGGGAAAGAATCTTGACTTCTATGGGTAAGACTGCTTCCATTCCATATACTAATGAGAAAGGT
1 AGAGGGAAAGAATCTCGACTTCAATGGGTAAGACTGCTTCCATTCCATATACTAATGAGAAAGGT
19441109 GTTGTCTCGATAGAAGTTCTAACAGATGTTCGATAAGTGTAGAGAGCAAATGGTAACTTCTCATG
66 GTTGTCTCGATAGAAGTTCTAACAGATGTTCGATAAGTGTAGAGAGCAAATGGTAACTTCTCATG
19441174 CCAATCTTTGTAGGTCTCTATCATTTTCCCTACGATTTTCTTGATATTTTTATTAGCTGCTTCTA
131 CCAATCTTTGTAGGTCTCTATCATTTTCCCTACGATTTTCTTGATATTTTTATTAGCTGCTTCTA
* *
19441239 CAGCTCTATTCATTTTTGGGCGATACGGTGCAGAATTATGGTACTCGATCTTAAACTGATTACAG
196 CAGCTCTATTCATTTTTGGGCGATACGGTGCAAAATTATGGTACTCGATCTTAAACTGACTACAG
19441304 ACTTCTACTATTGTGCTATTGTTCAAGTTCAAAGCATTGTCAGATATGATCTTTTCTGGCATTCC
261 ACTTCTACTATTGTGCTATTGTTCAAGTTCAAAGCATTGTCAGATATGATCTTTTCTGGCATTCC
19441369 ATATCGACATATAATTTCTTTCTTCA
326 ATATCGACATATAATTTCTTTCTTCA
19441395 AGAGGGAAAGAATCTCGACTTCAATGGGTAAGACTGCTTCCATTCCATATACTAATGAGAAAGGT
1 AGAGGGAAAGAATCTCGACTTCAATGGGTAAGACTGCTTCCATTCCATATACTAATGAGAAAGGT
19441460 GTTGTCTCGATAGAAGTTCTAACAGATGTTCGATAAGTGTAGAGAGCAAATGGTAACTTCTCATG
66 GTTGTCTCGATAGAAGTTCTAACAGATGTTCGATAAGTGTAGAGAGCAAATGGTAACTTCTCATG
19441525 CCAATCTTTGTAGGTCTCTATCATTTTCCCTACGATTTTCTTGATATTTTTATTAGCTGCTTCTA
131 CCAATCTTTGTAGGTCTCTATCATTTTCCCTACGATTTTCTTGATATTTTTATTAGCTGCTTCTA
*
19441590 CAGCTCTATTCATTTTTGGGCGATACGGTGCAAAATTATGGTGCTCGATCTTAAACTGACTACAG
196 CAGCTCTATTCATTTTTGGGCGATACGGTGCAAAATTATGGTACTCGATCTTAAACTGACTACAG
*
19441655 ACTTCTACTATTGTGCTATTGTTCAAGTTCAAAGCATTGTCGGATATGATCTTTTCTGGCATTCC
261 ACTTCTACTATTGTGCTATTGTTCAAGTTCAAAGCATTGTCAGATATGATCTTTTCTGGCATTCC
*
19441720 ATATTGACATATAATTTCTTTCTTCA
326 ATATCGACATATAATTTCTTTCTTCA
19441746 AGA
1 AGA
19441749 AGTTGCTAAC
Statistics
Matches: 347, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
351 347 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (351 bp):
AGAGGGAAAGAATCTCGACTTCAATGGGTAAGACTGCTTCCATTCCATATACTAATGAGAAAGGT
GTTGTCTCGATAGAAGTTCTAACAGATGTTCGATAAGTGTAGAGAGCAAATGGTAACTTCTCATG
CCAATCTTTGTAGGTCTCTATCATTTTCCCTACGATTTTCTTGATATTTTTATTAGCTGCTTCTA
CAGCTCTATTCATTTTTGGGCGATACGGTGCAAAATTATGGTACTCGATCTTAAACTGACTACAG
ACTTCTACTATTGTGCTATTGTTCAAGTTCAAAGCATTGTCAGATATGATCTTTTCTGGCATTCC
ATATCGACATATAATTTCTTTCTTCA
Found at i:19447330 original size:50 final size:50
Alignment explanation
Indices: 19447177--19447346 Score: 182
Period size: 50 Copynumber: 3.4 Consensus size: 50
19447167 TAGAACGACA
* * * * * *
19447177 AATCCTATACCCCTAAAGCTGTAGAGGAAC-GAATTGAAGCCACAATGGCA
1 AATCTTATACACCTAAAGCTGTAGAGGAGCAG-ATTGAAGCCGCAAAGGCG
* *
19447227 AATCTGATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGCAATGGCG
1 AATCTTATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGCAAAGGCG
* * ** *
19447277 AATCTTATTCACCTAAAGCTGTAGAGGGGCAGATTGAAGTTG-AAAGGATG
1 AATCTTATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGCAAAGG-CG
*
19447327 AATCTTATACTCCTAAAGCT
1 AATCTTATACACCTAAAGCT
19447347 AAAATGGAAC
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 4 0.04
50 98 0.95
51 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.22
Consensus pattern (50 bp):
AATCTTATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGCAAAGGCG
Found at i:19447466 original size:40 final size:40
Alignment explanation
Indices: 19447393--19447581 Score: 147
Period size: 40 Copynumber: 4.8 Consensus size: 40
19447383 CCGATCATGG
* * * * *
19447393 GGCAAATTGAAG-CAATCTAATATTTTACCCTAACCGGAA
1 GGCAGATTGAAGACCATCAAATCTTTTACCCTAACCAGAA
* * *
19447432 GGCAGATTGAAGATCAT-ATGATCTCTTT-CCCTAACCAGAG
1 GGCAGATTGAAGACCATCA-AATCT-TTTACCCTAACCAGAA
* *
19447472 GGCAAATTGAAGACCATCAAATCTTTTACCCTAACTAGAA
1 GGCAGATTGAAGACCATCAAATCTTTTACCCTAACCAGAA
* * * *
19447512 GGCAGATTGAATACCATCAGATCTCTTACCCCAACCATG--
1 GGCAGATTGAAGACCATCAAATCTTTTACCCTAACCA-GAA
* * *
19447551 GGATAGATTGAA-ACAATCCAATCTTTTACCC
1 GG-CAGATTGAAGACCATCAAATCTTTTACCC
19447582 CTAAAGCTAT
Statistics
Matches: 119, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
39 31 0.26
40 83 0.70
41 5 0.04
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (40 bp):
GGCAGATTGAAGACCATCAAATCTTTTACCCTAACCAGAA
Found at i:19447535 original size:80 final size:79
Alignment explanation
Indices: 19447392--19447581 Score: 217
Period size: 80 Copynumber: 2.4 Consensus size: 79
19447382 CCCGATCATG
* * * *
19447392 GGGCAAATTGAAG-CAATCTAATATTTTACCCTAACCGGAAGGCAGATTGAAGATCATATGATCT
1 GGGCAAATTGAAGACAATCAAATCTTTTACCCTAACCAGAAGGCAGATTGAAGACCATATGATCT
* *
19447456 CTTTCCCTAACCAGA
66 CTTACCCCAACCA-A
* * *
19447471 GGGCAAATTGAAGACCATCAAATCTTTTACCCTAACTAGAAGGCAGATTGAATACCATCA-GATC
1 GGGCAAATTGAAGACAATCAAATCTTTTACCCTAACCAGAAGGCAGATTGAAGACCAT-ATGATC
*
19447535 TCTTACCCCAACCAT
65 TCTTACCCCAACCAA
*
19447550 GGG-ATAGATTGAA-ACAATCCAATCTTTTACCC
1 GGGCA-A-ATTGAAGACAATCAAATCTTTTACCC
19447582 CTAAAGCTAT
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 34 0.36
80 59 0.62
81 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.26
Consensus pattern (79 bp):
GGGCAAATTGAAGACAATCAAATCTTTTACCCTAACCAGAAGGCAGATTGAAGACCATATGATCT
CTTACCCCAACCAA
Found at i:19454826 original size:18 final size:17
Alignment explanation
Indices: 19454795--19454828 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19454785 TGTTTATTTT
19454795 CTAACTTTTATTAATTA
1 CTAACTTTTATTAATTA
*
19454812 CTAATCTTTTGTTAATT
1 CTAA-CTTTTATTAATT
19454829 CTCTTCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (17 bp):
CTAACTTTTATTAATTA
Found at i:19455723 original size:193 final size:193
Alignment explanation
Indices: 19455441--19455813 Score: 482
Period size: 201 Copynumber: 1.9 Consensus size: 193
19455431 CTGCACTACA
* * ** *
19455441 AACTGTTCCCTAACGATGCTGCTCACACGAGCTATCGAGGGTATGCAATAAGCATAGTCCTAGCC
1 AACTGTTCCCTAACGATGCTGCTCACACAAGCTATCAAGAATATGCAATAAGCATAATCCTAGCC
* * * *
19455506 ATCGTAGGGACTGTAATCCATTTAGGAACCATA-TCTC-TTTCTCGAGTCACGATGTTGCTCACA
66 ATCGTAGGGACTGTAATCCATTTAGGAACCATATTCTCATTTCCCGAATCACAATGCTGCTCACA
*
19455569 CGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGATATTTATGCATAT
131 CGAGATGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGATATTTATGCATAT
* * * * *
19455632 AACTGTTCCCTAACGATGCTGCTCACATAAGCTGTCAAGAATATGCACTTATGCATAAATCTTAG
1 AACTGTTCCCTAACGATGCTGCTCACACAAGCTATCAAGAATATGCA-ATAAGCAT-AATCCTAG
*
19455697 CCATCGTAGGG-CTTGTAATCCATTTAGGATCCATATTTCTTTTCTCATTTCCCGAATCACAATG
64 CCATCGTAGGGAC-TGTAATCCATTTAGGAACCATA------TTCTCATTTCCCGAATCACAATG
* *
19455761 CTGCTCTCATGAGATGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
122 CTGCTCACACGAGATGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCG
19455814 CGTCGGTTTC
Statistics
Matches: 153, Mismatches: 18, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
191 41 0.27
192 7 0.05
193 38 0.25
200 4 0.03
201 63 0.41
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (193 bp):
AACTGTTCCCTAACGATGCTGCTCACACAAGCTATCAAGAATATGCAATAAGCATAATCCTAGCC
ATCGTAGGGACTGTAATCCATTTAGGAACCATATTCTCATTTCCCGAATCACAATGCTGCTCACA
CGAGATGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCGATACGATATTTATGCATAT
Found at i:19460837 original size:22 final size:20
Alignment explanation
Indices: 19460810--19460852 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
19460800 TTAAAAAAAA
*
19460810 AATATTTATATTATTTTAATTT
1 AATATTTA-ATAATTTT-ATTT
19460832 AATATTTAATAATTTTATTT
1 AATATTTAATAATTTTATTT
19460852 A
1 A
19460853 TTGTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 7 0.35
22 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AATATTTAATAATTTTATTT
Found at i:19470956 original size:24 final size:24
Alignment explanation
Indices: 19470924--19471087 Score: 159
Period size: 24 Copynumber: 6.6 Consensus size: 24
19470914 TATCTGATAA
*
19470924 GCTGACGAGCGTAAACGTATTCAT
1 GCTGACGAGCGTAAATGTATTCAT
* *
19470948 GCTGACGAGCATAAATGTATACATAT
1 GCTGACGAGCGTAAATGTATTC--AT
* * *
19470974 GTTGATGAGCGTAAATGTATTTAT
1 GCTGACGAGCGTAAATGTATTCAT
* *
19470998 AGCTAACAAGCGTAAATGTATTCAT
1 -GCTGACGAGCGTAAATGTATTCAT
*
19471023 GCTGACGAGCGTAAACATATATAT-AT
1 GCTGACGAGCGT-AA-ATGTAT-TCAT
**
19471049 GCTGACGAGTATAAATGTATTCAT
1 GCTGACGAGCGTAAATGTATTCAT
*
19471073 GCTGACGAGCATAAA
1 GCTGACGAGCGTAAA
19471088 CATATATATA
Statistics
Matches: 113, Mismatches: 20, Indels: 14
0.77 0.14 0.10
Matches are distributed among these distances:
23 1 0.01
24 52 0.46
25 23 0.20
26 36 0.32
27 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (24 bp):
GCTGACGAGCGTAAATGTATTCAT
Done.